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703 - Data processing: structural design, modeling, simulation, and emulation

703006000 - SIMULATING NONELECTRICAL DEVICE OR SYSTEM

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DocumentTitleDate
20100161301Techniques for Purposing a New Compound and for Re-Purposing a Drug - A method for repurposing a pharmaceutical compound. The method includes identifying a pharmaceutical compound, the pharmaceutical compound corresponding to a drug that has failed in clinical development or an approved drug. A mathematical model describing the physiological processes related to at least one disease and the effects of the pharmaceutical compound on the disease is created. The model is adjusted based upon information from preclinical or clinical trials. A new treatment protocol is suggested to salvage the failed drug or a new way to use an approved drug. The suggested treatment protocol is displayed. Systems and computer program products encompassing the above techniques are also disclosed.06-24-2010
20080275684TREATMENT PROTOCOL GENERATION FOR DISEASES RELATED TO ANGIOGENESIS - A computer-implemented method for determining an optimal treatment protocol for a disease related to angiogenesis, comprising creating an angiogenesis model including pro-angiogenesis and anti-angiogenesis factors. Effective vessel density (EVD) is incorporated as a factor regulating switching on and switching off of at least one component in the angiogenesis model. Effects of vasculature maturation and mature vessels destabilization are incorporated. Pro-angiogenesis and anti-angiogenesis factors, which can influence changes in state of a tissue are selected. Effects of drugs in the pro-angiogenesis and anti-angiogenesis factors are incorporated. A plurality of treatment protocols in a protocol space is generated. A best treatment protocol based on a pre-determined criteria.11-06-2008
20080275683kD TREE AND ENVELOPE TO IMPROVE IDENTIFICATION OF NEAREST ATOMS - A method and apparatus for performing a molecular modeling simulation is disclosed. The simulation may be configured to store the position of atoms for a first and second molecule in a first and a second kd-tree. The simulation may also generate an envelope that contains all atoms of the second molecule, parse the kd-tree generated for the first molecule to identify atoms of the first molecule within the kd-tree of that are within the envelope. For each such atom, the simulation may search the kd-tree generated for the second molecule to identify corresponding nearest atom of the second molecule.11-06-2008
20090198479METHODS TO DESIGN PROBES AND PRIMERS - A web-based computational system and method for high-throughput gene mining and target identification and validation based on conserved functional blocks automates the generation of conserved regions of high sequence similarity using algorithms and optimizes probe design for fragment amplification from homologous genomes.08-06-2009
20130211808APPARATUS AND METHOD FOR STRUCTURE-BASED PREDICTION OF AMINO ACID SEQUENCES - The present invention provides methods and apparatus for analyzing a protein structure.08-15-2013
20100153081IMPLANT PLANNING FOR MULTIPLE IMPLANT COMPONENTS USING CONSTRAINTS - Described are computer-based methods and apparatuses, including computer program products, for implant planning for multiple implant components using constraints. A representation of a bone and a representation of a first implant component are displayed with respect to the representation of the bone. A representation of a second implant component is displayed, wherein the first implant component and the second implant component are physically separated and not connected to each other. A positioning of the representation of the second implant component that violates at least one positioning constraint is prevented, wherein the positioning constraint is based on the representation of the first implant component.06-17-2010
20110196663MULTIDIMENSIONAL MORPHOLOGICAL RECONSTRUCTION OF GENOME EXPRESSION ACTIVITY - A method of morphological reconstruction of biological activity in a tissue sample maps biological data resulting from analysis of tissue samples onto a 3-D morphological rendering of the biological sample. Each slice in a set of histological slices, indexed by a first index, is micro dissected into micro samples indexed by a pair of first and second indices. The indices are utilized to spatially map biological data to the 3-D rendering.08-11-2011
20110196662Isolated aquaporin in its closed conformation - The invention relates to an isolated aquaporin having a bound ligand, wherein said ligand close the conformation of said aquaporin and inhibit and/or reduce water transport of said aquaporin, and/or a high resolution structure of an isolated aquaporin in a closed conformation characterised by the coordinates deposited at the Protein Data Bank ID:1Z98, a crystal of said isolated aquaporin as well as the coordinates defining said crystal and the use of said aquaporin, and the use of the high-resolution structure as defined by the coordinates deposited at PDB ID:1Z98, and a method to produce said aquaporin.08-11-2011
20110196661Remote Contactless Stereoscopic Mass Estimation System - A contactless system and method for estimating the volume, mass or weight of a target animal is provided. First, the target animal is imaged, preferably with a stereoscopic camera. A spatial representation of the target animal is derived from the stereoscopic images. Next, a virtual three-dimensional spatial model is provided, preferably having a shape resembling that of a characteristic of the animal to which the target animal belongs. A software module is provided to reshape the virtual spatial model, using a finite set of independently configurable shape variables, to approximately fit the spatial representation of the individual animal. Finally, the volume, mass or weight of the target animal is estimated as a function of shape variables characterizing the reshaped virtual model.08-11-2011
20110196660Methods and Apparatus for Fabricating Porous 3-Dimensional Cell Culture Construct for Cell Culture and Other Biomedical Applications - The present invention provides an RP system which can directly use hot melt polymers for fabricating porous 3D construct for cell culture and other biomedical applications based on a CAD design. To realize the direct use of polymer hot melt, the RP system uses a hot melt chamber which is mounted on a robotic dispensing ann or a XYZ motion control system. The hot melt chamber is equipped with a delivery mechanism to force the molten polymer passing through a nozzle. The extruded polymer thin filament deposits onto the positions according to the computer generated model, in a layer-by-layer fashion, similar to FDM. The present invention can use any type of thennal plastic polymer pellets, beads, particles, which are suitable for extrusion and injection molding, as well as composites of two or more different thermal plastic polymer blends, inorganic particle/thennal plastic composites.08-11-2011
20120245914HOLLOW NEEDLE POSITIONING SYSTEM - A method for determining a relative position of an hollow needle with a wire partially held by the hollow needle and a bone of a creature includes the following steps: i) capturing into a computer an X-ray image of the hollow needle inserted into a bone region; where the X-ray image has at least an image of the real bone, the hollow needle and the wire inserted in the hollow needle; ii) opening a 3D virtual model of the bone region, where the bone region has a virtual bone model, a virtual hollow needle and a virtual wire; iii) assessing a 3D virtual exact position of the needle relative to the bone region by freely moving, rotating and zooming the 3D virtual objects. The process does not require additional bulky equipment that must be held and maintained in the operating room.09-27-2012
20120245913SYSTEMS AND METHODS FOR CREATING AND USING OPTIMIZATION RESPONSE SURFACES - A system and a method including: receiving a first set of data associated with a first person; receiving a second set of data associated with a second person; determining a common set of characterization parameters present in the first and second sets of data; determining whether the data satisfies a similarity threshold; and, if the common set of characterization parameters satisfies a similarity threshold, determining a response surface fitted to the first and second sets of data. A system and method including: receiving a set of characterization parameters associated with a patient; querying a database storing response surfaces each corresponding to a patient population with a set of common characterization parameters; receiving an applicable response surface; and providing a treatment option for the patient based on a maximum point of the applicable response surface.09-27-2012
20120245912METHOD OF AND APPARATUS FOR DETERMINING OPTIMAL PARAMETERS FOR MEASURING BIOLOGICAL SIGNALS BASED ON VIRTUAL BODY MODEL - A method of determining optimal parameters for measuring biological signals of a real body by using a virtual body model modeling a virtual body simulating the real body includes generating a plurality of virtual biological signals of the virtual body using the virtual body model by changing parameters that determine characteristics of the virtual biological signals; selecting at least one of the virtual biological signals based on a characteristic of one of the biological signals of the real body; and outputting at least one parameter used to generate the selected at least one virtual biological signal as at least one optimal parameter for measuring the one biological signal of the real body.09-27-2012
20100114547Compositions and methods for biological remodeling wih frozen particle compositions - Certain embodiments disclosed herein relate to compositions, methods, devices, systems, and products regarding frozen particles. In certain embodiments, the frozen particles include materials at low temperatures. In certain embodiments, the frozen particles provide vehicles for delivery of particular agents. In certain embodiments, the frozen particles are administered to at least one biological tissue.05-06-2010
20100114545Compositions and methods for surface abrasion with frozen particles - Certain embodiments disclosed herein relate to compositions, methods, devices, systems, and products regarding frozen particles. In certain embodiments, the frozen particles include materials at low temperatures. In certain embodiments, the frozen particles provide vehicles for delivery of particular agents. In certain embodiments, the frozen particles are administered to at least one biological tissue.05-06-2010
20100049492METHOD AND APPARATUS FOR MODELING SKIN SENSITIZATION - The invention encompasses novel computer models of chemical sensitivity of skin and systems for predicting chemical sensitivity of skin. In particular, the computer model of chemical sensitivity of skin comprises a) an epidermal compartment comprising a mathematical representation of exposure of an epidermal tissue to a chemical and a mathematical representation of a first population of antigen presenting cells interacting with the chemical; and b) a lymph node compartment comprising a mathematical representation of a second population of antigen presenting cells, and a mathematical representation of a population of T cells, wherein at least a subpopulation of the population of T cells interacts with the second population of antigen presenting cells.02-25-2010
20130080134SYSTEMS AND METHODS FOR PREDICTING FAVORABLE-RISK DISEASE FOR PATIENTS ENROLLED IN ACTIVE SURVEILLANCE - In general, one aspect of the subject matter described in this specification can be embodied in methods for assessing risk associated with prostate cancer, the methods including the actions of receiving patient data, comparing, with a processor executing code, the patient data to one or more predictive models, the one or more predictive models comprising at least one of (a) a disease progression (DP) model, the DP model being configured to predicts a likelihood of developing significant disease progression, and (b) a favorable pathology (FP) model, the FP model being configured to predict a likelihood of having organ confined, low grade disease in a prostatectomy, and outputting one or more results of the comparison Other embodiments of the various aspects include corresponding systems, apparatus, and computer program products.03-28-2013
20130085736SIMULATED, REPRESENTATIVE HIGH-FIDELITY ORGANOSILICATE TISSUE MODELS - A method of making a tissue model comprises determining one or more material properties of a tissue, wherein the one or more material properties include at least one of mechanical properties, electroconductive properties, optical properties, thermoconductive properties, chemical properties, and anisotropic properties, creating an anatomical structure of the tissue, selecting an artificial tissue material having one or more material properties that substantially correspond to the one or more material properties of the tissue, and coupling the artificial tissue material to the anatomical structure.04-04-2013
20130085735ASSESSMENT OF A TREATMENT PLAN - The present invention relates to a data processing method for determining an assessment of a candidate treatment plan, the candidate treatment plan being a plan for treatment of a patient's body, the data processing method comprising the following steps which are in particular performed by a computer: 04-04-2013
20090171641NOVEL HOMOLOGY MODEL OF THE GLYCOGEN SYNTHASE KINASE 3 ALPHA AND ITS USES THEREOF - The present invention provides a novel homology three-dimensional structure of Glycogen Synthase Kinase 3-Alpha (GSK3-Alpha) or a variant thereof for screening, designing and/or synthesizing a modulator that modulates the activity of GSK3-Alpha and method of generating said three dimensional structure thereof. The three-dimensional structure of GSK3-Alpha is defined by at least a portion of structural co-ordinates of Table 1. Further, the present invention provides a computer assisted system for generating said three-dimensional structure of GSK3-Alpha or a variant thereof. Further, the present invention relates to a method of screening, designing and/or synthesizing a modulator for modulating the activity of GSK3-? or a variant thereof.07-02-2009
20130035921METHOD AND APPARATUS FOR ESTIMATING TEMPERATURE IN A BODY - The invention relates a method and an apparatus of predicting or planning a temperature distribution (02-07-2013
20130035922SYSTEM AND METHOD FOR PLANNING A NEUROSURGICAL OPERATION02-07-2013
20100042394System and Method to Predict the Global Spread of Infectious Agents Via Commercial Air Travel - The invention comprises a system for predicting transmission of an infectious agent via air travel, comprising: a) a database, the database containing air passenger travel data for air travel between origin cities and destination cities, the air passenger travel data including: frequency of flights from origin cities to destination cities, number of passengers traveling from origin cities to destination cities, number of direct non-stop flights from origin cities to destination cities, total passenger traffic for origin and destination cities, and corresponding date stamps for all air passenger travel data; b) a modeling engine operative to map the air passenger travel data with the infectious agent to determine the probability of infection of an individual destination city from an individual origin city via air travel; and c) a reporting engine operative to produce a probability of infection of the individual destination city from the individual origin city at a given time based on said map.02-18-2010
20100106475BIOPHYSICAL VIRTUAL MODEL DATABASE AND APPLICATIONS - A biophysical virtual model of a body or body section of a human subject contains measured parameter values, scan data and images from surface or full body imaging systems, and also descriptive and subject identification data. Data in the model are applied to customize external objects ergonomically to fit a subject, by adjustment or by selection when the objects are configured for one or a group of subjects. The database can be centralized and/or mobile devices carried by users can supply model data to external apparatus. Where a parameter value needed for a subject is unknown, the statistical distribution of the database and the correlation of parameters can supply a probable value and level of certainty. In connection with values that are known for an individual, complexities inherent in the combination of plural parameters can be collected in the model and used in later security screens to confirm the identity of a subject.04-29-2010
20120215514SYSTEMS AND METHODS FOR DETECTING BIOLOGICAL FEATURES - A computer having a memory stores instructions for receiving data. The data comprises one or more characteristics for each cellular constituent in a plurality of cellular constituents that have been measured in a test organism of a species or a test biological specimen from an organism of the species. The memory further stores instructions for computing a model in a plurality of models, wherein the model is characterized by a model score that represents the likelihood of a biological feature in the test organism or the test biological specimen. Computation of the model comprises determining the model score using one or more characteristics for one or more cellular constituents in the plurality of cellular constituents. The memory also stores instructions for repeating the instructions for computing one or more times, thereby computing the plurality of models. The memory also stores instructions for communicating computed model scores.08-23-2012
20120185227METHODS FOR IDENTIFICATION OF NOVEL PROTEIN DRUG TARGETS AND BIOMARKERS UTILIZING FUNCTIONAL NETWORKS - The process of System Reconstruction is used to integrate sequence data, clinical data, experimental data, and literature into functional models of disease pathways. System Reconstruction models serve as informational skeletons for integrating various types of high-throughput data. The present invention provides the first metabolic reconstruction study of a eukaryotic organism based solely on expressed sequence tag (EST) data. System Reconstruction also provides a method for the identification of novel therapeutic targets and biomarkers using network analysis. The initial seed networks are built from the lists of novel targets for diseases with the high-throughput experimental data being superimposed on the seed networks to identify specific targets.07-19-2012
20120185226MAMMALIAN CELL LINE MODELS AND RELATED METHODS - The invention provides models and methods useful for optimizing cell lines. The invention provides methods and computer readable medium or media containing such methods. Such a computer readable medium or media can comprise commands for carrying out a method of the invention. The methods of the invention can be utilized to model improved characteristics of a cell line, for example, improved product production, improved growth, improved culture characteristics, and the like.07-19-2012
20090171640POPULATION SEQUENCING USING SHORT READ TECHNOLOGIES - The claimed subject matter provides systems and/or methods that facilitate generating population sequences of strain variants included in a sample. Sequencing can be based on high throughput of short reads. Further, site variants exhibited in the short reads can be linked to reconstruct multiple full strains of a targeted gene, including low concentration variants in the sample. Cues in the short read data can be utilized to perform multi-strain assembly. For example, the cues can include different strain concentrations that lead to more frequently seen strains being responsible for more frequent reads and quilting of overlapping reads to infer mutation linkage over long stretches of DNA.07-02-2009
20130046528CRYPTOGRAPHIC APPROACH TO MICRORNA TARGET BINDING ANALYSIS - A cryptographic approach to miRNA:mRNA binding analysis is presented. Coded miRNA and mRNA sequences may be split into a plurality of subsequences and encrypted using an encryption algorithm. The encrypted subsequences may then be decrypted, analyzed using vector analysis, evaluated, and scored accordingly.02-21-2013
20090043556Method of and system for planning a surgery - A system for virtually planning a size and position of a prosthetic implant for a bone on a patient includes a database containing pre-defined form factor information for a plurality of different implants and a circuit for obtaining surface shape information of the bone. The system further includes a circuit for defining baseline location parameters for an implant location in relation to a virtual representation of the bone based on the surface shape information and a circuit for assessing a fit calculation of each implant in relation to the virtual representation of the bone based on the form factor in formation and a plurality of fit factors at each of a plurality of incremental positions in relation to the bone. Still further, the system includes a circuit for selecting a best fit implant size and position from all of the fit calculations.02-12-2009
20090306950Descriptors of three-dimensional objects, uses thereof and a method to generate the same - A computer-based method of generating a descriptor of a three-dimensional object wherein the following steps are performed for each of a set of one or more cages and for each of one or more properties: 12-10-2009
20120191435METHOD OF ACQUIRING PROTEINS WITH HIGH AFFINITY BY COMPUTER AIDED DESIGN - The present invention provides a method of acquiring proteins with high affinity by computer-aided design, which comprises the steps of: 1) based on a known cocrystal structure of a complex of a protein and a target molecule, determining candidate mutation sites of the protein; 2) simulating amino acid mutations in candidate sites of the protein in turn by computer so as to acquire optimized structures; 3) searching out conformations of the optimized structures acquired in step 2) by computer; 4) analyzing the total energies and root mean square deviations of the conformations acquired in step 3), and then selecting conformations with minimized energy and less root mean square deviations to analyze binding energies binding to the target molecule and to acquire simulative structures; and 5) based on the simulative structures acquired in step 4), predicting and validating mutated proteins with high affinity.07-26-2012
20130060550METHOD OF TOXICOLOGICAL EVALUATION, METHOD OF TOXICOLOGICAL SCREENING AND ASSOCIATED SYSTEM - The present invention relates to a method of toxicological evaluation of a candidate substance on at least one tissue or organ, characterized in that it comprises the steps of: (a) obtaining a bioartificial tissue or organ by simulation or modelling of the metabolic activity of said tissue or organ by at least one bioreactor; (b) exposure of said bioartificial tissue or organ to said substance; (c) observation of the metabolic response of the bioartificial tissue or organ and acquisition without a priori of an associated multidimensional data set; (d) identification by means of a method of multivariate statistical analysis of the components of the multidimensional data set which are quantitatively correlated with predetermined variables; (e) generation of a predictive model on the basis of the components of the data set that are actually retained; (f) testing of the predictive nature of said model by at least one statistical method of estimating reliability; (g) identification of the metabolic response of the bioartificial tissue or organ in the form of biomarkers associated with the components of the data set that are adopted for the model. The present invention also relates to a method of toxicological screening and to a system for this purpose.03-07-2013
20130060549METHODS AND APPARATUS FOR IDENTIFYING DISEASE STATUS USING BIOMARKERS - Methods and apparatus for identifying disease status according to various aspects of the present invention include analyzing the levels of one or more biomarkers. The methods and apparatus may use biomarker data for a condition-positive cohort and a condition-negative cohort and select multiple relevant biomarkers from the plurality of biomarkers. The system may generate a statistical model for determining the disease status according to differences between the biomarker data for the relevant biomarkers of the respective cohorts. The methods and apparatus may also facilitate ascertaining the disease status of an individual by producing a composite score for an individual patient and comparing the patient's composite score to one or more thresholds for identifying potential disease status.03-07-2013
20120310615DEVELOPING PREDICTIVE DOSE-VOLUME RELATIONSHIPS FOR A RADIOTHERAPY TREATMENT - Embodiments develop a predictive dose-volume relationships for a radiation therapy treatment is provided. A system includes a memory area for storing data corresponding to a plurality of patients, wherein the data comprises a three-dimensional representation of the planning target volume and one or more organs-at-risk. The data further comprises an amount of radiation delivered to the planning target volume and the one or more organs-at-risk. The system further includes one or more processors programmed to access, from the memory area, the data and to develop a model that predicts dose-volume relationships using the three-dimensional representations of the planning target volume and the one or more organs-at-risk. The model is being derived from correlations between dose-volume relationships and calculated minimum distance vectors between discrete volume elements of the one or more organs-at-risk and a boundary surface of the planning target volume.12-06-2012
20090271164PREDICTING LONG-TERM EFFICACY OF A COMPOUND IN THE TREATMENT OF PSORIASIS - The invention provides a method for predicting the efficacy of a compound for treating psoriasis based on a pharmacokinetic/pharmacodynamic model.10-29-2009
20090271162Crystal structure beta2 adrenoreceptor - A computer readable medium comprising atomic coordinates for the human β10-29-2009
20130066618METHOD AND SYSTEM FOR PATIENT-SPECIFIC MODELING OF BLOOD FLOW - Embodiments include a system for determining cardiovascular information for a patient. The system may include at least one computer system configured to receive patient-specific data regarding a geometry of the patient's heart, and create a three-dimensional model representing at least a portion of the patient's heart based on the patient-specific data. The at least one computer system may be further configured to create a physics-based model relating to a blood flow characteristic of the patient's heart and determine a fractional flow reserve within the patient's heart based on the three-dimensional model and the physics-based model.03-14-2013
20110022369Modeling States of an Entity - Methods, systems and apparatus for modeling states of an entity are presented. For example, a method, implemented on a processor device, of modeling one or more states of an entity is presented. The method includes obtaining a training dataset for training a model by applying a stimulus to the entity, forming a set of model parameters, and using the set of model parameters to form the model, such that the model is configured to predict at least one of the one or more states of the entity. At least one model parameter of the set of model parameters changes with time as a result of dependency of the at least one model parameter on the stimulus and as a result of time-dependency of the stimulus. The steps of obtaining the training dataset, forming the set of model parameters and using the set of model parameters are implemented on the processor device.01-27-2011
20120116742METHOD AND APPARATUS FOR ANALYSIS OF MOLECULAR CONFIGURATIONS AND COMBINATIONS - Method and apparatus for the efficient computation of values for affinity functions for two or more molecular subsets of a molecular configuration, are provided. Either one or both of molecular subsets may be selected from a molecule library. Affinity engines can compute the affinity values, and can be synchronized in order to maximize utilization of processing power available in the affinity engines. A data path allocator can apportion molecular descriptor data to each affinity engine as one or more data blocks according to a data path schedule. Also, new configurations may be generated from one or more input configurations, computation of a plurality of affinity values for a plurality of configurations, and subsequent selection of processed configurations for further analysis.05-10-2012
20120116741SYSTEMS AND METHODS OF CONSTRUCTING A PATIENT SPECIFIC NEURAL ELECTRICAL STIMULATION MODEL - A system and a method of constructing a personalized or patient specific neural stimulation model. The method includes measuring an electro-physiology signal of an individual and establishing a personalized or patient specific neural stimulation model that has a preset model parameter and generates a human physiology parameter according to the model parameters; and analyzing the human physiology parameters and regulating the model parameters according to a parameter-optimizing algorithm, such that the human physiology parameters outputted by the personalized or patient specific neural stimulation model matches the measured electro-physiology signal.05-10-2012
20090234628PREDICTION OF COMPLETE RESPONSE GIVEN TREATMENT DATA - A system for modeling complete response prediction is provided. The system includes an input that is operable to receive treatment information representing treatment data that may be used to predict a complete response of a tumor. The complete response may include a disappearance of all or substantially all of a disease. A processor may be operable to use a model to predict complete response of the tumor as a function of the treatment data. The model represents a probability of complete response to treatment given the treatment data. A display is operable to output an image as a function of the complete response prediction.09-17-2009
20090048816Method for on-line prediction of future performance of a fermentation unit - A method is disclosed for on-line prediction of performance of a fermentation unit, such as prediction of performance parameters like concentration of product, biomass, or sugar in the broth of a batch/fed-batch fermentation unit containing bacteria and nutrients. A computer model predicts a future product concentration based on current plant data. While a batch is in progress, model parameters are adjusted on-line based on plant data to reduce a mismatch between the plant data and model data. A method/fermenter model can be implemented as a software program in a PC that can be interfaced to a plant control system for on-line deployment in an actual plant environment. An on-line performance monitoring system can be used by plant operating personnel, to know the performance of the batch in advance for implementing corrective measures in advance to improve/maintain performance at desired level.02-19-2009
20090012767Method for Selecting Potential Medicinal Compounds - A method for the structure based drug design, searching for and selection of potential medicinal compounds is proposed, which comprises predicting the value of the ligand binding affinities from the score calculated with the help of a scoring function with taking into account the protein structure, the ligand structure and the ligand position in the protein binding site. In the elaboration of the scoring function information about the already known both active and inactive ligands is employed. The use of the information about the inactive ligands makes the proposed method of elaborating the scoring function fundamentally different from all the known methods and allows not only to essentially improve the quality of the scoring function being elaborated, but also to constantly improve this quality as new experimental data become available.01-08-2009
20130166267DIAGNOSTIC FACTOR SET DETERMINATION APPARATUS AND METHOD - A diagnostic factor set determination apparatus and method is provided. The diagnostic factor set determination apparatus includes a personal examination data acquiring unit configured to acquire personal examination data including a plurality of diagnostic factors, a disease model selecting unit configured to select a disease model that includes one or more of the plurality of diagnostic factors, and a diagnostic factor processing unit configured to determine a diagnostic factor set according to a sum of disease weights of a first group of the plurality of diagnostic factors that is not in the selected disease model.06-27-2013
20130166268Crystal Structure of the Pro Form of a Matrix Metalloproteinase and an Allosteric Processing Inhibitor - The present invention includes a crystal comprising a complex of the pro form of a matrix metalloprotease (proMMP) and a small-molecule allosteric processing inhibitor that inhibits that activation of the proMMP, methods for identifying small-molecule allosteric processing inhibitors that inhibit the activation of a proMMP, and methods of treatment using small-molecule allosteric processing inhibitors that inhibit the activation of a proMMP. The present invention relates to the crystal structure of a complex of proMMP9 bound to a small-molecule allosteric processing inhibitor that inhibits activation of proMMP9. The invention further relates to the use of the methods and the crystal and related structural information for designing, selecting and/or optimizing small-molecule allosteric processing inhibitors that inhibit activation of proMMP9 and proMMP9 homologues. The present invention also relates to the use of small-molecule allosteric processing inhibitors for the treatment of diseases mediated by inappropriate matrix metalloproteinase (MMP) activity.06-27-2013
20120239366APPARATUS AND METHOD FOR PROCESSING INFORMATION CONCERNING BIOLOGICAL CONDITION, SYSTEM, PROGRAM AND RECORDING MEDIUM FOR MANAGING INFORMATION CONCERNING BIOLOGICAL CONDITION - A system provided in accordance with the present invention comprises a sever unit (09-20-2012
20080294407Method and Apparatus for Computational Modeling of Malignant Transformation in Tissue - A computational system and method for simulating biological tissue includes a computer-modeled 3-dimensional space in which computer-modeled cells are located. The cells may be either healthy or cancerous. As a simulation progresses, the cells may execute a variety of protocols. These include life protocols, such as replication, repair, and apoptosis. They also include signaling protocols, such as a request from a cell to entice defective neighboring cells to die, and an announcement that a cell itself is about to die. The announcement, when received by neighboring cells, tends to entice them also to die. Since defective cells tend to cluster together, the combination of the two signals within a tumor has a strong effect on suppressing the tumor. The simulation tracks the progression of cancerous tumors as well as the effectiveness of various treatments. By simulating the behavior of cancerous tissues, the system and method disclosed herein provide a model for understanding cancer, from which potential treatments may be conceived.11-27-2008
20080294406CONTEXT-BASED COMPLETION FOR LIFE SCIENCE APPLICATIONS - A system is provided that can include storage logic to store a data structure that includes an identifier. The storage logic may also store an object associated with the identifier, where the identifier may include a value, unit information, or a context. The storage logic may further store a result. The system may include processing logic to process an expression to determine whether the identifier is compatible with the expression, the determining performed using the value, the unit information, or the context. The processing logic may insert the identifier into the expression when the identifier is compatible with the expression, the inserting based on a user action. The processing logic may execute the expression on behalf of a life sciences model, may generate the result based on the executing, and may provide the result to the storage logic.11-27-2008
20080288229Apparatus and Method for Creating Solid Models for Clinical Diagnosis - Solid models for clinical diagnosis, which models are a physical representation, in terms of size and volume, of a tissue of a living patient chosen for a clinical study. These solid models for clinical diagnosis can be used to obtain information regarding actual dimensions of the tissue morphological characters and they can be handled to dissect, prognosticate and evaluate progressive injuries and to plan and choose materials to be used right away or during surgical treatment.11-20-2008
20110264432SYSTEM AND METHOD FOR MODELLING A MOLECULE WITH A GRAPH - Modelling a molecule by means of a graph, said graph comprising vertices and edges, each edge having a specific type, and said graph having cyclic orderings on the half-edges about at least one of the vertices, said system comprising means for determining the cyclic orderings on the half-edges about said at least one vertex by means of the spatial coordinates of the constituent atoms of the molecule, and means for determining the type of each edge of the graph by means of the relative spatial location of the constituent atoms of the molecule. Thereby automatic classification, comparison, specification, analysis and/or prediction of molecular structures can be provided because these molecular structures are represented by explicit combinatorial objects, and descriptors can be derived from the graph constructed in this manner. The descriptors are automatically computable from molecular databases, such as PDB or CATH, with no qualitative human intervention or subjective criteria. The invention can be applied to macromolecular structures such as proteins, protein globules, ligands, polymers, nucleotides, nucleic acids, RNA and DNA.10-27-2011
20110046936COMPUTER METHOD AND SYSTEM FOR PREDICTING PHYSICAL PROPERTIES USING A CONCEPTUAL SEGMENT-BASED IONIC ACTIVITY COEFFICIENT MODEL - In the present invention the NonRandom Two-Liquid segment activity coefficient model system of the parent application is extended for computation of ionic activity coefficients and solubilities of electrolytes, organic and inorganic, in common solvents and solvent mixtures. The invention method and system may be applied to the chemical and/or pharmaceutical design process. In addition to the three types of molecular parameters defined for organic nonelectrolytes, i.e., hydrophobicity X, polarity Y, and hydrophilicity Z, an electrolyte parameter, E, is introduced to characterize both local and long-range ion-ion and ion-molecule interactions attributed to ionized segments of electrolytes. Successful representations of mean ionic activity coefficients and solubilities of electrolytes, inorganic and organic, in aqueous and nonaqueous solvents are presented.02-24-2011
20110282638INFORMATION PROCESSING APPARATUS, INFORMATION PROCESSING METHOD, AND PROGRAM - An information processing apparatus includes: an acquisition mechanism acquiring information on biological time of a user and information on a time difference between a movement source of the user and a movement destination; a storage mechanism storing model information produced by modeling a sunshine pattern, an expression pattern of a clock gene of a neuron of a ventrolateral area of a suprachiasmatic nucleus, and an expression pattern of a clock gene of a neuron of a dorsomedial area; and when a sunshine pattern of the movement source is changed in accordance with the time difference so as to become a sunshine pattern of the movement destination, a simulation mechanism simulating the expression pattern of the ventrolateral area and the expression pattern of the dorsomedial area on the basis of the model information using a state identified by the biological time as a starting state.11-17-2011
20120290279SYSTEM AND METHOD FOR PROVIDING ASSESSMENT OF RISK OF ENCOUNTER WITH TICKS - A tick encounter and tick-borne disease prevention decision support system is disclosed for permitting a user to obtain a risk calculation of encountering disease-causing ticks. The tick encounter and tick-borne disease prevention decision support system includes several components. A location component is for receiving data from a user regarding a user's geographic location. A landscape component is for receiving data from the user regarding a type of landscape that exists where the user lives. An animals component is for receiving data from the user regarding any of wildlife or pets that exist where the user lives. A human activity component is for receiving data from the user regarding the user's activities in their yard. The score computation module is for generating a tick risk calculation number based on output data from each of the components.11-15-2012
20110301930METHOD FOR DETERMINING GENE KNOCKOUTS - A method for determining candidates for gene deletions and additions using a model of a metabolic network associated with an organism, the model includes a plurality of metabolic reactions defining metabolite relationships, the method includes selecting a bioengineering objective for the organism, selecting at least one cellular objective, forming an optimization problem that couples the at least one cellular objective with the bioengineering objective, and solving the optimization problem to yield at least one candidate.12-08-2011
20110288845CONSTRUCTION METHOD AND SYSTEM OF FRAGMENTS ASSEMBLING SCAFFOLD, AND GENOME SEQUENCING DEVICE - The present invention relates to gene engineering filed, and provides a genome sequencing device, construction method of fragments assembling scaffold and system thereof. The method comprises the following steps: mapping the double-barreled data obtained through sequencing to contigs; calculating the mean length between contigs based on multiple pairs of double-barreled data mapped to contigs, which is taken as the gap size between contigs; constructing scaffold based on gap size between contigs and the double-barreled relation between contigs; and obtaining complete scaffold graph. Since the mean length between contigs is calculated from multiple pairs of double-barreled data and is taken as the gap size between contigs, the estimation precision of gap size between contigs is improved greatly. It can be used for genome sequencing including short sequencing read length to finish task of assembling sequencing fragments.11-24-2011
20110288844Modeling of mPGES-1 three-dimensional structures: applications in drug design and discovery - This invention relates to representations of prostaglandin synthase three-dimensional structures. Such representations are suitable for designing agents that modulate the activity of the enzyme by binding to the substrate binding domain.11-24-2011
20120010866USE OF COMPUTATIONALLY DERIVED PROTEIN STRUCTURES OF GENETIC POLYMORPHISMS IN PHARMACOGENOMICS FOR DRUG DESIGN AND CLINICAL APPLICATIONS - Provided herein are computer-based methods for generating and using three-dimensional (3-D) structural models of target biomolecules. In particular, the target biomolecules are protein structural variants derived from genes containing genetic variations, or polymorphisms. The models are generated using molecular modeling techniques, such as homology modeling. The models can be used in structure-based drug design studies to identify drugs that bind to particular structural variants in structure-based drug design studies, for designing allele-specific drugs, population-specific drugs and for predicting clinical responses in patients. Molecular structure databases containing protein structural variant models also are provided.01-12-2012
20090089034Surgical Planning - A method, apparatus and computer program code for automatically planning at least a part of a surgical procedure to be carried out on a body part of a patient are described. A virtual model of the body part is provided, in which the model has data associated with it representing at least a part of a planned surgical procedure. The virtual model is then morphed to the body part using data derived from the patient's real body part thereby also adapting the part of the planned surgical procedure to reflect the anatomy of the patient's real body part.04-02-2009
20120191434ARTICLES OF MANUFACTURE AND METHODS FOR MODELING CHINESE HAMSTER OVARY (CHO) CELL METABOLISM - The invention provides a Chinese Hamster Ovary (CHO) cell model and methods of using such a model. The invention provides methods and computer readable medium or media containing such models and methods.07-26-2012
20090182542Hybrid classical-quantum computer architecture for molecular modeling - A method of simulating a molecular system using a hybrid computer is provided. The hybrid computer comprises a classical computer and a quantum computer. The method uses atomic coordinates {right arrow over (R)}07-16-2009
20110295583MONITORING CHANGES IN BEHAVIOR OF A HUMAN SUBJECT - A system and method of identifying changes in behavior of a human subject comprises monitoring the movements of the subject within a space using one or more sensors, processing signals from the sensor(s) to determine values for one or more parameters associated with one or more patterns of behavior of the subject, using values for the one or more parameters accumulated over a period of time to establish one or more models of a typical pattern of behavior for the subject, monitoring the ongoing behavior of the subject to obtain current values for one or more of the parameters; and using the current values and the model(s) of a typical pattern of behavior to identify atypical behavior of the subject.12-01-2011
20080262813Generating Simulated Neural Circuits in a Voxel Space - A three-dimensional voxel space is generated in which to generate a simulated neural circuit. The voxel space includes a plurality of voxels that store localized information. After the voxel space is generated, a plurality of simulated branched neurons, each of which has one or more input and/or output branches that occupy at least one of the voxels, are embedded in the voxel space. One or more of the branches of the plurality of simulated neurons then are generated in a manner that changes the voxels occupied by the grown branches, and the localized information stored in the voxels is updated to reflect the changes in the voxels occupied by the grown branches.10-23-2008
20080270094Fast computational methods for predicting protein structure from primary amino acid sequence - The present invention provides a method utilizing primary amino acid sequence of a protein, energy minimization, molecular dynamics and protein vibrational modes to predict three-dimensional structure of a protein. The present invention also determines possible intermediates in the protein folding pathway. The present invention has important applications to the design of novel drugs as well as protein engineering. The present invention predicts the three-dimensional structure of a protein independent of size of the protein, overcoming a significant limitation in the prior art.10-30-2008
20100036652SYSTEM AND METHOD FOR PROVIDING HEALTH ENHANCEMENT SERVICES - Methods and apparatus are described for providing health enhancement services through which geographical information such as an exercise route on a map can be obtained. According to various embodiments, heath enhancement services are provided that can effectively share exercise-related information among various people.02-11-2010
20100114546Compositions and methods for therapeutic delivery with frozen particles - Certain embodiments disclosed herein relate to compositions, methods, devices, systems, and products regarding frozen particles. In certain embodiments, the frozen particles include materials at low temperatures. In certain embodiments, the frozen particles provide vehicles for delivery of particular agents. In certain embodiments, the frozen particles are administered to at least one biological tissue.05-06-2010
20090070089Method of Analyzing Cell or the Like Having Linear Shape, Method of Analyzing Nerve Cell and Apparatus and Program for Performing These Methods - It is intended to propose a technique whereby a nerve cell is morphologically analyzed automatically based on a three-dimensional image of the nerve cell. First, a dendritic projection is traced by using the scale space method. In this step, irregularities are reduced by using the σ-convolution smoothing method and thus the center line of the dendritic projection is identified. Next, a negative curvature is searched for by the Hess tensor method. The part corresponding to the negative curvature in all coordinate axes is judged as the area occupied by “heads”. The center of this area (heads) is referred to as the spine position. Approximation is made on the assumption that the spine head has an ellipsoidal shape. Thus, the minor diameter, medium diameter and major diameter of the ellipsoid are calculated. From the spine position, a perpendicular line is dropped toward the dendritic projection closest thereto and this perpendicular line is considered as the column part. By combining the dendritic projection with the spine head and column thus obtained, the final morphological shape of the nerve cell is obtained.03-12-2009
20110172981HIGH THROUGHPUT ENSEMBLE-BASED DOCKING AND ELUCIDATION OF THREE-DIMENSIONAL STRUCTURAL CONFIRMATIONS OF FLEXIBLE BIOMOLECULAR TARGETS - Methods for generating putative ligand structures capable of altering the activity of a target effector molecule comprise: constructing an elongated monomer of the target effector molecule; constructing a three dimensional model of the target effector molecule under the influence of elongation using empirical three dimensional data, the model including a conformation revealing the binding portion of the target effector molecule to a putative ligand structure; generating a plurality of computational models of the target effector molecule; filtering the plurality of computational models against the three dimensional model created experimentally using a reiterative simulation analysis algorithm operable to identify and select a plurality of computational models having a root-mean square deviation below a predetermined threshold when compared to the three dimensional model of the target effector molecule; screening a plurality of ligands to rank the binding strength of each ligand with the plurality of computational models selected and selecting one or more ligands based on the ranking.07-14-2011
20090157368COMPUTATIONAL METHOD FOR PREDICTING THE CONTRIBUTION OF MUTATIONS TO THE DRUG RESISTANCE PHENOTYPE EXHIBITED BY HIV BASED ON A LINEAR REGRESSION ANALYSIS OF THE LOG FOLD RESISTANCE - The present invention concerns methods and systems for analysis of drug resistance in HIV-1. More specifically, the invention provides methods for predicting drug resistance by correlating genotypic information with phenotypic profiles. The methods allow the identification of primary and secondary resistance-associated mutations for new and existing drugs and for calculating the contribution of mutations and combinations of mutations to resistance and hyper-susceptibility. The invention allows the design, optimization and assessment of the efficiency of a therapeutic regimen based upon the genotype of the disease affecting a patient06-18-2009
20100268520Electronic System to Emulate the Chain of the "DNA" Structure of a Chromosome - The invention relates to an electronic system for emulating the chain of the DNA structure of a chromosome. The invention is characterised in that it includes means for the binary coding of the four types of nucleotides (A, G, C, T) that form the strands, such that the nucleotides that form complementary links are assigned complementary codes. The invention also includes units for storing (10-21-2010
20120109615APPARATUS AND METHOD FOR EXTRACTING BIOMARKERS - An apparatus and method for extracting biomarkers with higher reliability by analyzing toxicity indicating how genetic variants appearing in sequences affect gene functions are provided. The apparatus includes a pre-processor that analyzes sequences of samples of genes and extracts data of genetic variants mapped to the genes, a toxicity prediction unit that obtains toxicity scores obtained by quantifying genetic dysfunctions affected by the data of genetic variants, and a modularization unit that searches for a least one sub-module including a set of genes whose toxicity scores exceed a predetermined critical value from a genetic network.05-03-2012
20120109614CROP CHARACTERISTIC ESTIMATION - A system for estimating a crop characteristic comprises a database, a plant growth model correlator, and a crop characteristic estimator. The database includes plant growth models for a plurality of fields. The plant growth model correlator is communicatively coupled with the database. The plant growth model correlator is configured for determining at least one harvested field with a first plant growth model which correlates with a second plant growth model for at least a portion of an unharvested field. The crop characteristic estimator is configured for estimating a crop characteristic for the unharvested field based on actual crop characteristic data obtained from the at least one harvested field.05-03-2012
20120109613Compositions and methods for biological remodeling with frozen particle compositions - Certain embodiments disclosed herein relate to compositions, methods, devices, systems, and products regarding frozen particles. In certain embodiments, the frozen particles include materials at low temperatures. In certain embodiments, the frozen particles provide vehicles for delivery of particular agents. In certain embodiments, the frozen particles are administered to at least one biological tissue.05-03-2012
20120035901AUTOMATED TREATMENT STAGING FOR TEETH - Apparatus, system, and methods for utilizing one or more computing devices to stage the movement of teeth during an alignment treatment are disclosed. The computing device receives an electronic representation of the patient's teeth in their initial position and an electronic representation of the teeth a final position for each tooth. A route each tooth will travel to reach its final position is determined, and the teeth are scheduled to move according to a movement pattern. Moreover, the schedule of movement takes into account a maximum rate of tooth movement for each tooth, the path of movement for each tooth, the distance each tooth needs to move, any needed tooth staggering, any needed round-tripping or tooth movement slowing. The invention also includes techniques for determining an optimum number of stages for the treatment based on the schedule of movement.02-09-2012
20090094012METHODS AND SYSTEMS FOR GRAND CANONICAL COMPETITIVE SIMULATION OF MOLECULAR FRAGMENTS - Methods and systems for analyzing a macromolecule for potential binding sites are disclosed. Multiple molecular species and a free energy value may be selected. An operation for a molecular fragment of one of the molecular species may be selected from insertion, deletion and movement operations. The selected operation may be performed on a computer representation of an instance of a molecular fragment at one of a plurality of binding sites based on a grand canonical ensemble probability density function associated with the selected operation. Information may be stored pertaining to the plurality of binding sites. The operation selecting, performing and information storing operations may be performed multiple times. Multiple occupation probabilities may be provided based on the stored information. The occupation probabilities may include, for each molecular species, a probability that an instance of a molecular fragment of the molecular species resides at a binding site.04-09-2009
20080270097System and methods for immunocomputing applied to collectives of nanorobots - The invention describes immunocomputing methods for application to collectives of nanorobots (CNRs). The system provides a hybrid synthesis of adaptive immune system problem solving and anticipatory problem solving in the CNR environment. Modeling methods are advanced to guide the transformation process of CNRs in the context of evolvable hardware, including a time-series modeling approach.10-30-2008
20100100366MICRORNA DETECTING APPARATUS, METHOD, AND PROGRAM - A microRNA detecting apparatus finds a region matching a microRNA model from a base sequence using base vector sequence data generated from inputted base sequence information of a detection processing target and a microRNA model that is a probability model of known microRNA. The base vector sequence data is a sequence of base vectors corresponding to respective bases of the base sequence. Each of the base vectors includes a parameter of a degree of evolutional conservation that is a characteristic of microRNA and parameters of a secondary structure that characterize a stable hairpin structure. Concerning the secondary structure, the base vector includes a stem parameter and a loop parameter in addition to a parameter of minimum free energy. The Hidden Markov Model is used as the microRNA model. It is possible to improve the accuracy of detection of the microRNA region on the base sequence when the base sequence information is processed by the bioinformatics technique.04-22-2010
20090006060REGULATING ACTIVATION THRESHOLD LEVELS IN A SIMULATED NEURAL CIRCUIT - A simulated neural element includes a cell body and one or more simulated branches. Simulated branches are configured to receive input signals and to activate when a combination of the signals received during a specified window of time exceeds a branch activation threshold level. The simulated cell body is configured to activate when a combination of activity in the simulated branches during another specified window of time exceeds a cell body activation threshold level. The branch and cell body activation threshold levels may be automatically and locally regulated so that the actual branch activation rates for the simulated branches approximate desired branch activation rates and the actual cell body activation rate for the simulated cell body approximates a desired cell body activation rate. Such “homeostatic” regulation of branch and cell firing thresholds, done locally (i.e. individually for each branch and cell), may enhance the performance of artificial neural circuitry.01-01-2009
20090204379Integrated Biosensor and Simulation System for Diagnosis and Therapy - BioMEMS/NEMS appliance biologically monitors an individual, using biosensors to detect cellular components. Data is simulated or analyzed using systems-biology software, which provides diagnostic or therapeutic guidance.08-13-2009
20090089035Hybrid multi-layer artificial immune system - The hybrid artificial immune system consists of three main layers, including a solution application layer that interacts with the environment, a solution generation layer that solves combinatorial optimization problems and a modeling layer that analyzes problems and presents solution scenarios. The system solves evolutionary multi-objective optimization problems in network computing, robotics, artificial neural networks, protein network modeling, evolutionary systems and evolutionary hardware.04-02-2009
20090112542METHOD FOR THE SELECTION OF A SUBSTITUTE COMPONENT FOR A MULTIPLE PHASE SYSTEM BASED UPON A COMPARISON WITH AT LEAST ONE PREDETERMINED PROPERTY OF AN INITIAL SYSTEM - A material useful as a substitute component for a modified multiple phase system is selected. The substitute component exhibits a sigma profile that produces a predetermined selected property. The substitute component is determined by the steps of: 04-30-2009
20090271163Crystal structure of human factor VIII and uses thereof - The present invention provides crystals of human Factor VIII, in particular, a B-domain deleted human Factor VIII, and its three-dimensional structure. The present invention also provides the structural information of Factor VIII, and methods for identifying compounds that modulate Factor VIII activity, for determining structures of Factor VIII homologs or analogs, and for designing drug candidates for the treatment of hemophilia based on the structural information.10-29-2009
20100138203SYSTEM AND METHOD FOR ACTIVELY MANAGING TYPE 2 DIABETES MELLITUS ON A PERSONALIZED BASIS - A system and method for actively managing Type 2 diabetes mellitus on a personalized basis is provided. A model of glycemic effect for a Type 2 diabetic patient for digestive response is established. The digestive response model is adjusted for a degree of insulin resistance experienced by the patient. A rise in postprandial blood glucose through food ingestion of a planned meal is estimated in proportion to the adjusted digestive response model. The tool also allows for the avoidance of hypoglycemic episodes by medications.06-03-2010
20100138204CELL-BASED MODELS AND METHODS FOR SIMULATING LYMPHOCYTE DIFFERENTIATION AND OTHER BIOLOGICAL EVENTS - Systems and methods are disclosed herein that enable computer-implemented modeling of lymphocyte differentiation and developmental processes. Cell-based models and methods for simulating natural and transgenic lymphocyte differentiation are also disclosed. In some embodiments, systems and methods are provided for cell-centric simulation of lymphocyte differentiation with accommodating virtual thymic and/or bone marrow environment feedback. In one embodiment, a computer-implemented method of modeling lymphocyte differentiation can include receiving configurable simulation information and initializing an ontogeny engine to an initial step boundary in accordance with the configurable simulation information. The method can also include advancing the ontogeny engine, until a halting condition is encountered, from a current step boundary to a next step boundary in accordance with the configurable simulation information and the current step boundary. The initial step boundary can define at least one virtual early lymphoid progenitor cell. The advancing can include performing a stepCells function.06-03-2010
20100057420APPARATUS FOR PROCESSING 3-DIMENSIONAL STRUCTURE OF PROTEIN, METHOD OF PROCESSING 3-DIMENSIONAL STRUCTURE OF PROTEIN, AND PROGRAM - An apparatus for processing 3-dimensional structure of protein includes a control unit and a storage unit, wherein the storage unit stores 3-dimensional structure information of protein, and the control unit predicts 3-dimensional structure information of protein after the mutation when an arbitrary amino acid residue A in the 3-dimensional structure information of protein stored in the storage unit is mutated into another amino acid residue a, thereof from the 3-dimensional structure information of protein before and after the mutation, collects the amino acid residue A, the amino acid residue a, environment information P, and environment information p, which are related to each other, as information on environmental change, when the environment information P around the amino acid residue A before the mutation changes to the environment information p around the amino acid residue a after the mutation, thereby storing information on the environmental change in the storage unit.03-04-2010
20120296621DEVICE AND METHOD FOR PREDICTION OF ACUTE HEART FAILURE MORTALITY - Various embodiments are described herein for a device and a method that can be used to determine a Heart Failure (HF) risk score for an individual with a risk of acute heart failure. The technique comprises employing a HF risk model that uses demographic, transportation, vital signs, blood test, medication and pre-existing co-morbid information to determine the HF risk score for the individual.11-22-2012
20120296620DEVICE AND METHOD FOR PLANNING AN ENDOVASCULAR PROCEDURE WITH A MEDICAL INSTRUMENT - A device and a method for planning an endovascular procedure are proposed. A medical instrument, particularly a catheter, is introduced into a vessel and is guided to its place of application via the vessel. Vessel diameters and bend radiuses along a plotted vessel course are automatically determined from the volume data set of the medical imaging and compared with a maximum diameter and minimum bend radius of the medical instrument planned for use. Points or regions within the plotted vessel course which have too low a vessel diameter or bend radius are subsequently highlighted in color in an image display of the vascular tree or vessel course. The user immediately detects critical areas and can if necessary change his or her plan or resort to an instrument with different geometric data. The method and the device make planning the endovascular procedure possible even for inexperienced users.11-22-2012
20080249755Modeling Cerebral Aneurysms in Medical Images - Methods and systems for modeling cerebral aneurysm and their incoming and outgoing vessels from 3D image data are disclosed. Aneurysms and vessels are segmented from their background using a graph-cuts method. Begin and end of vessels are determined. Construction of a centerline of the incoming and outgoing vessels using a measure of vesselness in calculating a minimum cost path in a graph with nodes being representation of pixels is also disclosed. Vessel surface models are constructed from sub-voxel cross-sectional segmentation. The interpolation of vessels inside an aneurysm based on smooth continuity is disclosed. Selection of endo-vascular stents based on interpolation results is also provided.10-09-2008
20080281569Method For Creating a Model of a Structure - A method for creating a model of a part of the anatomy from the scan data of several subjects is described. The method comprises the steps of collecting scan data; applying a feature detector to the scan data; converted the output of the feature detector into a common reference system; and accumulating the converted data to generate the model. It is therefore possible for the method to generate a model from the scan data of several subjects automatically. The method may also include an optional step of receiving user input to select which of the accumulated data should be included in the final model. This user input requires much less effort than manual contouring and is substantially independent of the number of subjects used to create the model.11-13-2008
20080288227Algorithms to predict clinical response, adherence, and shunting with thiopuriness - A method of using a variable set from complete blood counts and blood chemistry panels to generate a machine learned algorithm for determining the effectiveness of thiopurine treatment on inflammatory bowel disease (IBD) patients using CART, boosted trees, random forest classification, RuleFit and/or logistic regression analysis.11-20-2008
20080288228BIOLOGICAL SIMULATION SYSTEM AND COMPUTER PROGRAM PRODUCT - With an object to seek parameters of a biological model corresponding to individual patents, the present invention provides a biological simulation system comprises an internal parameter set generating section which generates internal parameter sets constituting a biological model, a biological model computing section computing output of a biological model which emulates a biological response of a biological organ based on the generated internal parameter set, and a template database having a plurality of combinations of a reference output value of the biological model and an internal parameter set corresponding to the reference output value, wherein the internal parameter set generating section comprises a database referring means which selects a reference output approximate to an actual biological response from said template database and which selects an internal parameter set corresponding to the selected reference output value.11-20-2008
20130024177HYPER-SPATIAL METHODS FOR MODELING BIOLOGICAL EVENTS - The present invention provides various methods of generating and using models of biological events. The models can be used to classify individuals according to the biological event.01-24-2013
20080208549Modelling Body Tissue Characteristics - The present invention describes a method of creating and/or updating a model that relates to at least one measurable tissue property to at least one tissue characteristic, the method comprising: defining two or more data categories; assigning each of a plurality of training data sets to one or more of the data categories; creating and/or updating the model using only data sets categorised in a selected one of the categories. The present invention also describes a method and system for creating such a model as well as a database structure for storing a plurality of measured tissue property data sets used by the model.08-28-2008
20080270095METHOD AND APPARATUS FOR INTERACTIVE 4-DIMENSIONAL (4D) VIRTUAL ENDOSCOPY - A method of performing 4-dimensional virtual endoscopy includes acquiring a sequence of cardiac images of a patient's heart from an imaging device; acquiring an electrocardiographic signal exhibiting cardiac cycles of the heart; and utilizing the electrocardiographic signal to gate the images for deriving respective 3-dimensional views in succession at corresponding cardiac cycles, from respective cardiac images at a selected phase point common to each of the corresponding cardiac cycles.10-30-2008
20080270096Methods for identifying drug targets based on genomic sequence data - This invention provides a computational approach to identifying potential antibacterial drug targets based on a genomic sequence and its annotation. Starting from a fully sequenced genome, open reading frame assignments are made which determine the metabolic genotype for the organism. The metabolic genotype, and more specifically its stoichiometric matrix, are analyzed using flux balance analysis to assess the effects of genetic deletions on the fitness of the organism and its ability to produce essential biomolecules required for growth.10-30-2008
20120143580PROTEIN-LIGAND NOE MATCHING FOR HIGH-THROUGHPUT STRUCTURE DETERMINATION - A method of enhancing the throughput and applicability of NMR-based structure determination of protein-ligand complexes is disclosed. The method circumvents the need for protein sequence-specific resonance assignments and combines NMR data analysis and ligand docking methods into an integrated process. In one embodiment, NMR data is used to filter docking results to identify the most consistent binding modes, thereby providing structural information in a high-throughput fashion without the need for assigning protein resonances. Trial assignments for protein-ligand nuclear Overhauser effect (NOE) interactions are also produced by the method.06-07-2012
20090125289Crystallization and structure determination of glycosylated human beta secretase, an enzyme implicated in alzheimer's disease - An inhibitor bound form of human beta secretase, also known as memapsin 2 and BACE, particularly in a glycosylated form as expressed in Chinese hamster ovary (CHO), HEK293 cells, or in insect cells as part of a Baculovirus expression system has been crystallized, and the three-dimensional x-ray crystal structure has been solved to 3.2 Å resolution. The x-ray crystal structure is useful for solving the structure of other molecules or molecular complexes, and designing inhibitors of human beta secretase activity.05-14-2009
20110270596Apparatus, System and Method for Predictive Modeling to Design, Evaluate and Optimize Ophthalmic Lenses - An apparatus, system and method for predictive modeling to design, evaluate and optimize ophthalmic lenses is disclosed. Ophthalmic lenses may include, for example, contacts, glasses or intraocular lenses (IOLs). The apparatus, system and method may include a design tool for designing a lens for implantation in an eye having a plurality of characteristics, a simulator for simulating performance of the lens in at least one modeled eye having the plurality of characteristics, at least one input for receiving clinical performance of the lens in the eye having the plurality of characteristics, a comparator for comparing outcomes of the clinical performance and the simulated performance, and an optimizer for optimizing a subsequent one of the outcome of the clinical performance responsive to modification of the lens in accordance with modification to the simulated performance.11-03-2011
20110208500Methods and computer software for detecting splice variants - Methods and software products for analysis of alternative splicing are disclosed. In general the methods involve normalizing probe set or exon intensity to an expression level measurement of the gene. The methods may be used to identify tissue-specific alternative splicing events.08-25-2011
20090119083Family inheritance - Displaying a comparison of genetic data is disclosed, including receiving an indication of a first individual, receiving an indication of a second individual, retrieving the genotypic information for the first individual and the second individual, comparing the genotypic information of the first individual and the second individual, displaying an indication of the comparison of the genotypic information of the first individual and the second individual graphically. A first graphical symbol is used to display an indication of the genome regions for which the first individual and the second individual are identical. A second graphical symbol is used to display an indication of the genome regions for which the first individual and the second individual are half identical.05-07-2009
20090177454SYSTEM AND METHOD FOR PERFORMING COMPUTERIZED SIMULATIONS FOR IMAGE-GUIDED PROCEDURES USING A PATIENT SPECIFIC MODEL - Embodiments of the invention are directed to a method of performing computerized simulations of image-guided procedures. The method may include producing a digital image-based model of an anatomical structure based on medical image data, producing, based on the image-based model and extrapolated data, an extended model that represents the anatomical structure and adjacent anatomical regions not included in the medical image data, displaying a graphical representation of the extended model and performing a computerized simulation of an image-guided procedure using the extended model.07-09-2009
20100204973Methods For Diagnosis, Prognosis And Treatment - An embodiment of the present invention is a method of generating a report based on an association metric. The method involves identifying node state data associated with a sample, and generating an association metric based on the node state data.08-12-2010
20090187393METHOD FOR CREATING A PERSONALIZED DIGITAL PLANNING FILE FOR SIMULATION OF DENTAL IMPLANT PLACEMENT - The present invention provides a method for creating a personalized digital planning file for simulation of dental implant placement. After planning, the digital representation in a plaster model may be used to design and produce dedicated surgical templates to assist the surgeon in transferring the implant plan to a patient during medical intervention.07-23-2009
20120197623METHODS AND SYSTEMS FOR NUCLEIC ACID SEQUENCE ANALYSIS - Disclosed are new and improved methods and systems for nucleic acid sequence analysis that can analyze data indicative of natural by-products of nucleotide incorporation events without the need for exogenous labels or dyes to identify nucleic acid sequences of interest. In particular, the methods and systems of the present teachings can process such data and various forms thereof to align fragments of the nucleic acid(s) of interest, particularly those analyzed using an addition sequencing technique, for example, as occurs with the use of nucleotide flows.08-02-2012
20090138252Method and system of evaluating disease severity - A method of evaluating disease severity is disclosed. The method uses physiological parameters and a historical database of diseases to determine a disease presented by the physiological parameters, to evaluate the disease severity and developing tendency, and to determine a suggested handling order when multiple diseases occur at the same time. The method provides a training stage and an executing stage. The training stage includes obtaining historical disease data from the historical database of diseases, and establishing a most-suited math model for the disease. The executing stage includes normalizing physiological parameters, calculating a strength value of the disease, and calculating a priority value based on the strength value of the disease and a probability value of the disease being selected in order to determine the suggested handling order. A system of evaluating disease severity is also disclosed therein.05-28-2009
20110144966METHODS FOR PREDICTION OF BINDING POSES OF A MOLECULE - A method for prediction of binding poses of a binding molecule to a target molecule is provided. The method involves a step of providing, clustering, and evaluating binding poses of the binding molecule. The providing and clustering of the poses is performed by a single or multiple iteration procedure. The evaluation of the poses is determined from interaction energies between particular poses and the target molecule.06-16-2011
20090187392SYSTEM AND METHOD FOR MONITORING A HEALTH CONDITION OF AN ANIMAL - An ingestible bolus may be disposed within the stomach of an animal. The bolus may comprise one or more sensors to monitor one or more internal and/or external animal characteristics. The bolus may comprise a data transmitter in wireless communication with a base station. The base station may receive messages from the bolus comprising one or more measured animal characteristics. The base station may comprise a process to monitor the animal and/or be in communication with a process to monitor the animal. The process may build an animal profile based upon the observed characteristics of the animal, the characteristics of other animals in a group associated with the animal, and/or characteristics associated with the breed and/or sex of the animal. Based on this profile, the process may detect a change in a health condition of the animal. Such heath conditions may include, but are not limited to, an estrus condition in the animal, off-feed condition, a nominal condition, the animal leaving an enclosure, or the like.07-23-2009
20130218546NOVEL GTP CYCLOHYDROLASE TYPE IB - This invention relates to a novel, bacterial GTP Cyclohydrolase Type IB enzyme, and the crystal structure thereof.08-22-2013
20090259451REVERSE ENGINEERING GENOME-SCALE METABOLIC NETWORK RECONSTRUCTIONS FOR ORGANISMS WITH INCOMPLETE GENOME ANNOTATION AND DEVELOPING CONSTRAINTS USING PROTON FLUX STATES AND NUMERICALLY-DETERMINED SUB-SYSTEMS - A genome-scale metabolic network reconstruction for 10-15-2009
20090326896COMPUTER EVALUATION OF CROP RELATED INDUSTRIES - A process for optimizing a portfolio of products produced from a crop includes the use of an objective function to determine optimized quantities of the products in the portfolio. The objective function, for example, includes quantity terms for the products. The objective function may also include additional terms such as an energy term and/or a storage term. The energy term, for example, relates to an amount of energy required to produce the products. The storage term, for example, relates to the cost of storing products. The crop, for example, may be sugarcane, and the products, for example, may be sugar, molasses, bagasse, biofuel, electricity, and/or carbon credits.12-31-2009
20090326897METHOD FOR DETERMINING THE BEHAVIOR OF A BIOLOGICAL SYSTEM AFTER A REVERSIBLE PERTURBATION - The invention relates to a method for determining the behavior of at least one biological system after a reversible perturbation, comprising the following steps: 12-31-2009
20110224962Electrophysiologic Testing Simulation For Medical Condition Determination - A system simulates stimulation of scar tissue identified as hyper-enhanced areas in a medical image with variable luminance thresholds and categorizes partially-viable myocardium as distinct from non-viable scar tissue. A cardiac function analysis system includes a repository of imaging data representing a 3D volume comprising a patient heart. A model processor provides a model of the patient heart using the imaging data said model being for use in allocating electrical properties to model parameters determining electrical conductivity associated with image data classified as, (a) scar tissue, (b) impaired tissue and (c) normal heart tissue. The electrical properties allocated to scar tissue are different to electrical properties allocated to normal tissue. A stimulation processor simulates electrical stimulation of the patient heart using the model to identify risk of heart impairment.09-15-2011
20090024375METHOD, SYSTEM AND COMPUTER PROGRAM PRODUCT FOR LEVINTHAL PROCESS INDUCTION FROM KNOWN STRUCTURE USING MACHINE LEARNING - A method is provided for predicting the structure of a macromolecule by modeling the folding process from the unfolded to the folded state based on machine learning a training set of known structures.01-22-2009
20100292975INFORMATION PROCESSING SYSTEM USING BASE SEQUENCE RELEVANT INFORMATION - A highly safe system for processing information, which can provide useful semantic information for an individual and/or information associated with the semantic information via effective utilization of differences in nucleotide sequence information among individuals is constructed.11-18-2010
20090198480System and method for simulating conciousness - A simulated consciousness method (08-06-2009
20090063118Systems and methods for interactive navigation and visualization of medical images - Systems and methods for visualization and interactive navigation of virtual images of internal organs are provided to assist in medical diagnosis and evaluation of internal organs. In one aspect, an image data processing system (03-05-2009
20120078603SPATIALLY HETEROGENEOUS STOCHASTIC PETRI-NET MODELING - A system, and associated article of manufacture, in which biochemical reactions of the system are modeled by using spatially heterogeneous stochastic Petri-net modeling. The biochemical reactions of the system to be modeled are defined. A spatial decomposition of the system is defined by defining regions of a space in which the system is to be modeled and by assigning each biochemical reaction to a region, such that the system is spatially heterogeneous. Relationships for inter-region movement of reactants of the biochemical reactions are defined as flux, advection, convection, and/or diffusion-based molecular movements. The system of the biochemical reactions is then modeled by modeling the biochemical reactions of each region as a spatially homogenous stochastic Petri-net and by modeling the inter-region movement of the reactants based on the relationships as defined.03-29-2012
20120078601DRUG TREATMENT PLANS DERIVED FROM HOLISTIC ANALYSIS - Certain examples provide systems and methods for holistic viewing to provide comparative analysis and patient treatment decision support in a drug therapy development process. A computer-implemented method for developing a therapeutic drug treatment plan for a patient using quantifiable comparative holistic decision support. In addition, the inventive may also be summarized as a computer-implemented method for developing a therapeutic drug treatment plan for a patient using quantifiable comparative holistic decision support for a known disease signature corresponding to a subject medical condition of a patient.03-29-2012
20090099826CASPASE-9:BIR3 DOMAIN OF XIAP COMPLEXES AND METHODS OF USE - The present invention provides polypeptides and specific binding agents that modify the activity of an initiator caspase involved in apoptosis, caspase-9. The polypeptides include the third baculoviral IAP repeat (BIR3) of an IAP and form a heterodimer complex with caspase-9. Nucleic acid molecules including expression vectors encoding the polypeptides and variants thereof as well as variants of caspase-9 are provided. Such polypeptide and nucleic acid molecules may be used for modifying apoptosis.04-16-2009
20120197622Monitoring Insulin Resistance - In particular embodiments, a method includes accessing data streams from stress meters, accelerometers, and continuous glucose monitors affixed to a person's body, accessing a baseline insulin-resistance model of the person, analyzing the data streams with respect to the baseline insulin-resistance model, and determining whether the data streams indicate a change in the person's insulin resistance.08-02-2012
20080262812Implant Planning Using Captured Joint Motion Information - The description relates to surgical computer systems, including computer program products, and methods for implant planning using captured joint motion information. Data is captured representative of a range of motion of a joint associated with a particular individual, where the joint includes a first bone and a second bone. The first bone of the joint is represented and a first implant model is associated with the representation of the first bone. Based on the captured data, a relationship is determined between the first implant model and a representation of the second bone through at least a portion of the range of motion of the joint. Information is displayed representative of the determined relationship.10-23-2008
20080262811Crystal Structure of Haemophilus Influenzae Nad Dependent Dna Ligase and Uses Thereof - The present invention relates crystals of LigA and computer-assisted methods for screening, identifying, and designing inhibitors and allosteric modulators of LigA.10-23-2008
20080262814Method and system for generating a four-chamber heart model - A method and system for building a statistical four-chamber heart model from 3D volumes is disclosed. In order to generate the four-chamber heart model, each chamber is modeled using an open mesh, with holes at the valves. Based on the image data in one or more 3D volumes, meshes are generated and edited for the left ventricle (LV), left atrium (LA), right ventricle (RV), and right atrium (RA). Resampling to enforce point correspondence is performed during mesh editing. Important anatomic landmarks in the heart are explicitly represented in the four-chamber heart model of the present invention.10-23-2008
20090210209APPARATUS AND METHOD FOR SIMULATING EFFECTS OF SUBSTANCES - A method and system for simulating the effect of pharmaceutical substances inside a living body, the method including inputting medication details and pharmacokinetic and pharmacodynamic data of the medication, storing the input medication details and pharmacokinetic and pharmacodynamic data, calculating concentration and effect of the medication on at least one portion of a living body from the input medication details and the pharmacokinetic and pharmacodynamic data, and generating a visualization of the calculated concentration and effect on a virtual body.08-20-2009
20090210208Brains stimulation models, systems, devices, and methods - This document discusses, among other things, brain stimulation models, systems, devices, and methods, such as for deep brain stimulation (DBS) or other electrical stimulation. In an example, a target volume of activation (VOA) can be received, a test VOA can be simulated, and at least one of a target electrode location or parameter can be provide using a relationship between the target VOA and the test VOA.08-20-2009
20090222247SYSTEM FOR DETERMINING BASAL RATE PROFILES - A system and method are provided for generating a plurality of basal rate models that together model delivery of a corresponding plurality of basal rates of a diabetes treatment drug to a patient over a period of time. Information may be collected from a plurality of patients that have a diabetic condition and to which the diabetes treatment drug has been delivered. The collected information may include a glycemic control indicator for each of the plurality of patients that is indicative of an efficacy of the diabetes treatment drug in treating the patient's diabetic condition. The collected information may be filtered based on the glycemic control indicators to produce a subset of information that includes information only for patients that exhibit acceptable glycemic control. The plurality of basal rate models may be generated based on the subset of the collected information, and may be stored in a memory unit.09-03-2009
20090222248Method and system for determining a combined risk - A computer system for determining a combined risk is disclosed. The computer system has a memory, at least one input device, and a central processing unit in communication with the memory and the at least one input device. The central processing unit obtains diagnostic data and identifies a plurality of models for analyzing the diagnostic data. The central processing unit also associates each model with one of a plurality of time periods and calculates, for each time period using the associated model, a predicted risk. Further, the central processing unit determines the combined risk based on the predicted risk for each time period.09-03-2009
20090248379Computationally designed inhibitors of amyloidosis - Embodiments of the present invention include methods and systems for designing inhibitors of amyloidosis in humans, domesticated animals, and wild animals as well as inhibitors of amyloidosis designed by the methods and systems. Methods and systems for designing inhibitors of amyloidosis are largely computational, in nature, and are directed to designing various types of polymers, small-molecule organic compounds, organometallic compounds, or non-chemical physical processes that can target the extended-α-strand and α-sheet regions of amyloidogenic protein and polypeptide intermediates in order to prevent aggregation of those intermediates into protofibrils and fibrils that, in turn, recruit additional native-conformation proteins and polypeptides into amyloidogenic intermediates and that additionally aggregate to form higher-order structures, such as plaques observed in the brains of patients suffering from the various spongiform encephalopathies.10-01-2009
20120197619SYSTEM AND METHOD FOR GENERATING A PATIENT-SPECIFIC DIGITAL IMAGE-BASED MODEL OF AN ANATOMICAL STRUCTURE - Embodiments of the invention are directed to a method of performing computerized simulations of image-guided procedures. The method may comprise receiving medical image data and metadata of a specific patient. A patient-specific digital image-based model of an anatomical structure may be generated based on the medical image data and the metadata. A computerized simulation of an image-guided procedure may be performed using the digital image-based model and the metadata.08-02-2012
20090254328DYNAMIC BAYESIAN NETWORK FOR EMULATING CARDIOVASCULAR FUNCTION - A Dynamic Bayesian Network provides models the cardiovascular system and provides emulation of patient data.10-08-2009
20090254326System and Device for Designing and Forming a Surgical Implant - A method is provided for determining the shape of a surgical linking device that is to be attached to a bony body structure such as the spinal column based on digitized locations of a plurality of attachment means engaged to the bony structure. The method is implemented by a computer system through a GUI to generate an initial bend curve to mate with the plurality of attachment means. The initial bend curve may be simplified based on user input to the GUI to reduce the number of bends necessary to produce a well-fitting linking device and may be altered to help obtain the goals of the surgery.10-08-2009
20090254327ANIMAL HEALTH DIAGNOSTICS - A physical blood sample of animal is sent to a satellite laboratory facility. The blood sample is pre-processed into sub-samples of the sample and the sub-samples are coded. The coded blood sub-samples are physically carried to the main laboratory for analysis. The satellite facility electronically inputs a request for a laboratory analysis by a main laboratory. The request is electronically transmitted to the main laboratory, and the main laboratory coordinates the electronically received input from the satellite facility with the physical blood sub-samples. A computer report of the analysis from the laboratory is obtained for the satellite facility. A clinical pathologist with data of physical characteristics of the animal makes a diagnosis. A menu on a computer permits the generation of a supplemental report to support the diagnosis. An integrated computer report having the laboratory analysis, supplemental report, and a pathologist-enhanced report is electronically communicated to the client.10-08-2009
20100179799Simulation Device, Simulation Program, and Recording Medium Storing Simulation Program - A simulation device includes: a design data acquisition section adapted to acquire lens design data; a lens designing section adapted to design a lens based on the lens design data; an original image data acquisition section adapted to acquire original image data constituting an observation virtual space to be an object of observation by a lens user; a visual motion characteristic data acquisition section adapted to acquire visual motion characteristic data related to motions of a head and eyeballs when the lens user transfers an visual axis to various observation targets; an image processing section adapted to generate processed image data as the original image data viewed through a designed lens designed by the lens designing section; an image moving section adapted to move the processed image data; an image data control section adapted to control a moving distance of the processed image data moved by the image moving section based on the visual motion characteristic data; and a display section adapted to display the processed image data.07-15-2010
20080312894Binding affinity scoring function including factor for environs of ring or bulky rigid group - Scoring functions can be markedly improved by taking into account the status environs of ligand rings (or indeed other bulky rigid ligand structures) on the ligand when the ligand is complexed with the receptor. In its most general form, the invention features, quantifying a particular component of binding affinity between a ligand and a receptor molecule. Specifically, the component in question takes into account the spatial relationship between ligand ring structure(s) (or bulky rigid ligand structures) and their ambient surroundings when the ligand is bound to the receptor molecule. The method steps may be used when quantifying a component that reflects these particular ligand features alone, or the steps may be part of a comprehensive method of quantifying binding affinity which includes numerous other factors that relate to binding affinity in addition to the component. For example, one may calculate an initial binding affinity and then adjust the initial binding affinity by a factor obtained at least in part based on the classification of the ring structure.12-18-2008
20100049493PLANNING ASSISTANCE FOR CORRECTING JOINT ELEMENTS - The invention relates to a planning assistance method for correcting joint elements, in which: 02-25-2010
20100185430General purpose experimental/computational analytical system - A general purpose analytical system combining experimental data with a computational simulation or virtual computer model allowing for the solution of unknowns. As illustrated in the chemical examples provided herein, this constitutes a general description for a new type of analytical system that is especially useful for determining experimental unknowns by virtue of analysis involving virtual models or simulations of experiments.07-22-2010
20120197620ERROR SIMULATION FOR IMAGE-GUIDED DENTAL IMPLANT TREATMENT PLANNING - A method and system to evaluate image-guided dental implant treatment plans with error simulation. Error sources contributing to the inaccuracy of implant cases come from impressions, stone models, radiographic guides, CT scan and its image processing, surgical guides, as well as the surgical procedures. They are translated into the deviations between the planned and actual implant positions and orientations. The error simulation is to continuously modify and update treatment plans with the possible deviations so that the treatment plans can be visually evaluated along with other evaluation tools.08-02-2012
20120197621Diagnosing Insulin Resistance - In particular embodiments, a method includes accessing data streams from stress meters, accelerometers, and continuous glucose monitors affixed to a person's body and generating a baseline insulin-resistance model of the person based on the data streams.08-02-2012
20100324875PROCESS FOR ORTHODONTIC, IMPLANT AND DENTAL PROSTHETIC FABRICATION USING 3D GEOMETRIC MESH TEETH MANIPULATION PROCESS - The process for orthodontic, implant and dental prosthetic fabrication using 3D geometric mesh teeth manipulation process is a system for manipulating teeth as a 3D geometric mesh. The system is used to create an efficient and completely digital processing system on top of 3D mesh manipulation tools. Moreover, the process utilizes a monitored interventional technique to allow for teeth movement based on dentist evaluation at each phase and creates custom aligners for each and every visit based on the lab slip.12-23-2010
20100235155METHOD FOR PREDICTING SECONDARY STRUCTURE OF RNA, AN APPARATUS FOR PREDICTING AND A PREDICTING PROGRAM - The present invention is to provide a method for predicting secondary structure of RNA capable of predicting the secondary structure which has been difficult to predict the secondary structure including pseudonot structure, and an apparatus for predicting secondary structure of RNA using the method for predicting. The method for predicting secondary structure of RNA according to the present invention is characterized in that:09-16-2010
20100228534METHOD, SYSTEM AND COMPUTER PRODUCT FOR PLANNING NEEDLE PROCEDURES - A system and method for planning a needle procedure include designating a target location within three-dimensional image data of a subject's body and defining a tentative route for insertion of a needle to the target location. The three-dimensional image data is processed to generate a graphic representation which indicates whether the tentative route intersects an obstacle of at least one type. In response to a user input, the graphic representation is then rotated about axes passing through the target location, thereby allowing selection of an updated route to the target which does not intersect an obstacle.09-09-2010
20130013278NON-INVASIVE CARDIOVASCULAR IMAGE MATCHING METHOD - A non-invasive cardiovascular image matching method is revealed. First, a scanning unit scans a heart/blood vessel to get an image of the heart/blood vessel and sends the image to a computer. Then the computer constructs a first 3D model of the heart/blood vessel according to the image of the heart/blood vessel. Next the computer simulates systole and diastole of the heart/blood vessel according to the first 3D model. Later a measured systolic/diastolic change is compared with the simulated systolic/diastolic change by the computer so as to learn systolic/diastolic changes between the heart/blood vessel at this stage and the heart/blood vessel in normal condition.01-10-2013
20130013281DETERMINING COMPONENTS OF TOTAL CARBON DIOXIDE EXCRETED BY A SUBJECT - Values of components of total carbon dioxide excreted by a subject can be provided. One or more signals may be received conveying information related to a rate of total carbon dioxide excreted by the subject. Based at least in part on the received one or more signals, a first capnometric component and/or a second capnometric component may be determined. The first capnometric component may indicate a rate of metabolic carbon dioxide production. The second capnometric component may indicate a rate of carbon dioxide transfer to or from body compartments of the subject that store carbon dioxide. The first capnometric component and/or the second capnometric component may be presented to a user.01-10-2013
20090326898Medical System with Comprehensive Report Simulation Feature - A medical system includes a display for displaying an image and an analysis package operatively connected to the image display. The analysis package provides a user the ability to create a comprehensive report of all system functionality using simulated input from an exhaustive database of system input device values and user input values.12-31-2009
20090248380DISEASE SIMULATION SYSTEM AND METHOD - A system and method for predicting the effect of patient self-care actions on a disease control parameter. A future disease control parameter value X(t10-01-2009
20090319244BINARY PREDICTION TREE MODELING WITH MANY PREDICTORS AND ITS USES IN CLINICAL AND GENOMIC APPLICATIONS - The statistical analysis described and claimed is a predictive statistical tree model that overcomes several problems observed in prior statistical models and regression analyses, while ensuring greater accuracy and predictive capabilities. Although the claimed use of the predictive statistical tree model described herein is directed to the prediction of a disease in individuals, the claimed model can be used for a variety of applications including the prediction of disease states, susceptibility of disease states or any other biological state of interest, as well as other applicable non-biological states of interest. This model first screens genes to reduce noise, applies k-means correlation-based clustering targeting a large number of clusters, and then uses singular value decompositions (SVD) to extract the single dominant factor (principal component) from each cluster. This generates a statistically significant number of cluster-derived singular factors, that we refer to as metagenes, that characterize multiple patterns of expression of the genes across samples. The strategy aims to extract multiple such patterns while reducing dimension and smoothing out gene-specific noise through the aggregation within clusters. Formal predictive analysis then uses these metagenes in a Bayesian classification tree analysis. This generates multiple recursive partitions of the sample into subgroups (the “leaves” of the classification tree), and associates Bayesian predictive probabilities of outcomes with each subgroup. Overall predictions for an individual sample are then generated by averaging predictions, with appropriate weights, across many such tree models. The model includes the use of iterative out-of-sample, cross-validation predictions leaving each sample out of the data set one at a time, refitting the model from the remaining samples and using it to predict the hold-out case. This rigorously tests the predictive value of a model and mirrors the real-world prognostic context where prediction of new cases as they arise is the major goal.12-24-2009
20090150134Simulating Patient-Specific Outcomes - The invention encompasses systems, methods, and apparatus for predicting clinical outcomes and monitoring an individual's response to a therapeutic regimen. The invention further encompasses methods for predicting cardiovascular risk based a genetic marker status and methods for modifying a computer to reflect genetic data and for incorporating genetic markers into a virtual population.06-11-2009
20090112541VIRTUAL REALITY TOOLS FOR DEVELOPMENT OF INFECTION CONTROL SOLUTIONS - Embodiments of the invention provide virtual reality tools used to develop improved infection control solutions. The virtual reality tools may be applied to a variety of health care environments to develop improved infection control solutions, including improved training systems for modifying human behavior regarding hand washing (or other infection control behaviors), improved systems for evaluating the effectiveness of a proposed infection control solution, and for a producer/seller of anti-microbial products to demonstrate the superiority of one product over another or the superiority of one proposed solution over another.04-30-2009
20090106007Computer-Implemented Model of the Central Nervous System - A computer-implemented model of the central nervous system includes at least one of a basal ganglia portion, a cerebral cortex portion coupled to the basal ganglia portion, a cerebellum portion coupled to the cerebral cortex, or a brainstem/spinal cord portion coupled to at least one of the cerebral cortex portion, the cerebellum portion, or the basal ganglia portion. Each one of the basal ganglia portion, the cerebral cortex portion, and the cerebellum portion is comprised of respective elements representative of real neuroanatomical structures of a central nervous system and the respective elements are adapted to perform functions representative of real neuroanatomical functions of the central nervous system. The brainstem/spinal cord portion is comprised of brainstem/spinal cord elements representative of real neuroanatomical structures of a brainstem/spinal cord. The brainstem/spinal cord elements can perform functions representative of real neuroanatomical functions of the brainstem/spinal cord.04-23-2009
20090055148Device for Assisting in the Selection of a Compressive Orthosis by Simulating Its Effects Upon the Hemodynamics of the Venous Return - The inventive device comprises: means for producing compression values (02-26-2009
20100305928Systems and Methods For Editing A Model Of A Physical System For A Simulation - Systems and methods for simulating a medical procedure are disclosed. For example, one described system for simulating a medical procedure includes a physics module configured to model at least one physical property of a user-defined organic object associated with a patient; a display module configured to cause a display of the user-defined organic object; a script module configured to execute a user-defined medical procedure script; a simulation module in communication with the physics module, the display module, and the script module, the simulation module configured to execute a simulation of the medical procedure based at least in part on the user-defined model of the organic object and the user-defined medical procedure script.12-02-2010
20090055149METHOD AND SYSTEM FOR DETERMINING ANALYTE LEVELS - Methods and apparatus for analyte level estimation are provided.02-26-2009
20100305930System and Method for Improved Computer Drug Design - A system and method for computer-aided drug design employs adaptive sampling and iterative fitting of multi-atomic subunits. The iterative fitting is performed by successive perturbation of the location of the multi-atomic subunits in directions that reduces potential energy.12-02-2010
20090070087Virtual tissue with emergent behavior and modeling method for producing the tissue - A multi-cellular virtual tissue having the emergent properties of self-repair, adaptive response to an altered environment, or tissue differentiation, and a method of generating the tissue by computer modeling are disclosed. The tissue is formed of a plurality of virtual cells, each having a heritable virtual genome containing a set of virtual genes relating to each of (a1) intercellular adhesion, (a2) cell division, (a3) cell growth, (a4) intercellular signaling, and (a5) the state of one cell relative to an adjacent cell. In forming the tissue, the sequential operation and actions of the genes are guided by (1) chemical-interaction rules that govern the extra-genetic behavior of one or more molecules placed or produced in the environment, (2) action rules that specify a cell's adhesion, growth, or cell-division condition, in response to molecules produced by a cell's genes relating to intercellular adhesion, cell growth, or cell division, respectively, and (3) physical-interaction rules that govern how a cell will move in response to its own growth or division or the growth or division of neighboring cells.03-12-2009
20090070088Method and Apparatus fo Computer Modeling Diabetes - The present invention relates generally to a mathematical and computer model of diabetes related disorders (e.g., human type 2 diabetes) within the framework of multiple macronutrient metabolism. The model includes a representation of complex physiological control mechanisms directing, for example, fat metabolism, protein metabolism and/or carbohydrate metabolism. In one embodiment, for example, the model can account for the interconversion between macronutrients, as well as their digestion, absorption, storage, mobilization, and adaptive utilization, as well as the endocrine control of these processes. In this embodiment, the model can simulate, for example, a heterogeneous group of diabetes related disorders, from insulin resistant to severe diabetic, and can predict the likely effects of therapeutic interventions.03-12-2009
20100312537SYSTEMS AND METHODS FOR PERFORMING A SCREENING PROCESS - A method of efficiently selecting among a larger number of candidate items at least one item having a higher probability to possess a certain property is disclosed. The method includes providing at least a training dataset of true positive TP items and a training dataset of true negative TN items; selecting at least one binary descriptor; encoding each item in the TP and TN datasets into a binary vector; defining at least one virtual sensor and sensor scoring rules (SSR) therefor, nucleating at least one virtual sensor by calculating the SWS thereof; selecting at least one virtual sensor, and applying it to a query for evaluating integrated inclusive score (IIS) thereof.12-09-2010
20130138414COMPUTATIONAL METHODS AND SYSTEMS FOR HEIGHTENING CELL-MEDIATED IMMUNE RESPONSE - The present application relates, in general, to a system and/or method related to detection and/or treatment.05-30-2013
20110010155TRACHEAL INTUBATION TRAINING APPARATUS - It is an object of the invention to evaluate a tracheal intubation technique in consideration of various points to remember related to a tracheal intubation treatment. A tracheal intubation training apparatus (01-13-2011
20110010154SYSTEM AND METHOD FOR OPTIMIZING ANIMAL PRODUCTION - A system for generating an animal feed formulation based on utilization of nutrients received by an animal. The system includes a simulator engine configured to generate a set of animal requirements based on characteristics of an animal and to generate animal feed formulation input based at least in part on a projected nutrient utilization for the animal and the set of animal requirements. The system further includes a formulator engine configured to receive the animal feed formulation input and generate an optimized animal feed formulation based on the animal feed formulation input.01-13-2011
20110015913Simulation Method, Simulation Apparatus, Biological Treatment Method, and Biological Treatment Apparatus - Provided is a simulation method, whereby the calibration operation load can be reduced while minimizing a lowering in prediction accuracy, and a simulation apparatus. It is also intended to provide a biological treatment method, whereby the required operation load can be reduced, and a biological treatment apparatus. These problems can be solved by employing as parameters the maximum reaction speed in the reaction of decomposing a material to be treated with a bacterium and the amount of the above-described material to be treated that is loaded per bacterial cell in a unit time during the biological treatment process or the amount of the above-described material that has been treated per bacterial cell in a unit time in a state where these parameters are in a definite functional relation.01-20-2011
20110246166METHOD OF PREDICTING PROTEIN-LIGAND DOCKING STRUCTURE BASED ON QUANTUM MECHANICAL SCORING - Provided is a protein-ligand docking prediction method based on quantum mechanical scoring. The method includes evaluating a protein-ligand docking structure by using a molecular mechanical energy-based scoring function and reevaluating the protein-ligand docking structure by using a rescoring function obtained by combining a quantum mechanical factor with the molecular mechanical energy-based scoring function. In accordance with the method using the quantum mechanical scoring, it is possible to more accurately carry out modeling than conventional force field-based methods.10-06-2011
20110029297VIRTUAL PROTOTYPING AND TESTING FOR MEDICAL DEVICE DEVELOPMENT - A system and method of developing better-designed medical devices, particularly cardiovascular stents and endovascular grafts. The system comprises a geometry generator, a mesh generator, a stress/strain/deformation analyzer, and a visualization tool. In one embodiment, the geometry generator receives three-dimensional volumetric data of an anatomical feature and generates a geometric model. The mesh generator then receives such geometric model of an anatomical feature or an in vitro model and a geometric model of a candidate medical device. In another embodiment, the mesh generator only receives a geometric model of the candidate medical device. Using the geometric model(s) received, the mesh generator creates or generates a mesh or a finite element model. The stress/strain/deformation analyzer then receives the mesh, and the material models and loads of that mesh. Using analysis, preferably non-linear analysis, the stress/strain/deformation analyzer determines the predicted stresses, strains, and deformations on the candidate medical device. Such stresses, strains, and deformations may optionally be simulated visually using a visualization tool.02-03-2011
20110029296Metabolic analysis apparatus and metabolic analysis method - A ring structure of a predicted target compound which is in a two-dimensional structural formula is arranged so as to be in an identical position as a ring structure of a template produced by superimposing two-dimensional structural formulae of compounds capable of forming a complex with a predetermined enzyme. Among predicted target compounds overlapping with a metabolic target site of the template, predicted target compounds other than those determined as being unable to access a metabolic active center site of the enzyme, or those having the same charge as that of the metabolic active center site, are determined to be metabolizable compounds. Based on the level of contribution of each atom included in the template during a metabolic reaction of the enzyme, a structural formula of a compound obtained after the metabolic reaction of the metabolizable compound whose metabolic target site has been determined is determined.02-03-2011
20110040545METHOD TO CHARACTERIZE A PROTEIN AS RNA BINDING PROTEIN - The invention relates to a method to characterize a protein as RNA-binding protein, said method comprising steps of: a) modeling the protein using a template structure; b) analyzing the modeled protein for RNA-binding site(s); and c) docking the analyzed modeled protein with polyadenylated RNA using co-ordinates of RNA complexed with polyadenide binding for said chacterisation. The invention especially relates to a method to characterize Gamma-glutamyl transpeptidase (GGT) as RNA-binding protein, said method comprising steps of: a) modeling the GGT using a template structure; b) analyzing the modeled GGT for RNA-binding site(s); and c) docking the analyzed modeled GGT with polyadenylated RNA using coordinates of RNA complexed with polyadenide protein for said characterisation.02-17-2011
20090063119Bio-expression system with module for creating the standard drosophila brain model and its coordinate system - A method of generating standard brain model from a bio-expression system includes performing steps of registration to input standard surface and individual surface into affine registration; recording a transformation parameters from the affine registration; performing steps of inputting a individual neuropil and transform parameters into an affine transformation; applying the data of the affine transformation to transform individual neuropil to achieve transformed individual neuropil; and performing a step of affine registration to register a standard neuropil to the transformed individual neuropil to achieve a resulting transformation, wherein the resulting transformation can be output as a position and orientation of standard neuropil within the standard surface.03-05-2009
20110246165SYSTEMS AND METHODS FOR EVALUATING TREATMENT TABLES FOR REFRACTIVE SURGERY - Treatment table verification techniques involve comparing intended refraction information with expected optical refraction information, and validating or qualifying the treatment table based on such comparisons. Systems and methods for verifying treatment tables provide enhanced safety for laser vision correction treatments.10-06-2011
20090083018Methods and systems for molecular inhibition of protein misfolding - Methods and systems are described which relate to polypeptide structural models and interacting molecule structures.03-26-2009
20090055150SCALABLE, COMPUTATIONALLY EFFICIENT AND RAPID SIMULATION SUITED TO DECISION SUPPORT, ANALYSIS AND PLANNING - The present invention provides a means for performing scalable, computationally efficient and rapid simulations of complex or complex adaptive systems realized through the dynamic interaction of multiple modeling components to generate outputs suited to decision support, analysis and planning. In the context of disease modeling, these outputs can be used for analyzing the impact of disease and the potential value of the use of pharmaceutical and non-pharmaceutical interventions.02-26-2009
20100145670SYSTEM AND METHOD FOR MANAGING TYPE 2 DIABETES MELLITUS THROUGH A PERSONAL PREDICTIVE MANAGEMENT TOOL - A system and method for managing Type 2 diabetes mellitus through a personal predictive management tool is provided. An insulin resistance for a Type 2 diabetes patient is identified. A time course curve is maintained for a patient population including expected blood glucose levels for a type of human-consumable food. The blood glucose levels following consumption of the food is estimated by adjusting the time course curve as a function of the patient-specific insulin resistance that has been manifested.06-10-2010
20090312998REAL-TIME MONITORING AND CONTROL OF PHYSICAL AND AROUSAL STATUS OF INDIVIDUAL ORGANISMS - The present invention relates to methods and systems for monitoring and controlling the status of humans or animals, in particular relating to both the physical and the arousal status of an individual human or animal. These methods and systems rely on a dynamic and adaptive data-based on-line modelling technique wherein information on bioprocess inputs and outputs is measured in real-time and the model predicts an output based on the bioprocess input. The provided methods are particularly useful to monitor and/or control processes in which performance is important.12-17-2009
20100211371COLLABORATIVE VIRTUAL REALITY SYSTEM AND METHOD FOR MOLECULAR MODELING - A collaborative virtual reality system and a method for molecular modeling are disclosed. In accordance with an embodiment of the present invention, a collaborative server, which is connected to a plurality of experimental terminals through a communication network and which supports a collaborative experiment, that includes a simulation supporting unit, which generates a virtual experimental space for a molecular experiment in accordance with a request from an experimental terminal and which supports a virtual molecular experiment such that the plurality of experimental terminals take part in and perform the molecular experiment through the virtual experimental space, and a session managing unit, which supports communication of data between the plurality of experimental terminals so as to reflect experimental data in accordance with molecular manipulation conducted by the plurality of experimental terminals collaboratively performing the virtual molecular experiment on a same molecule through the virtual experimental space.08-19-2010
20090048817MOLECULAR STRUCTURE PREDICTION SYSTEM, METHOD, AND PROGRAM - A molecular structure prediction method for predicting the most stable molecular structure of a molecule based on results obtained by a plurality of appraisal systems includes steps of: generating a plurality of data sets by re-sampling from a training data set, determining a parameter set for each data set that has been generated to obtain a plurality of parameter sets, using the plurality of parameter sets to calculate energy of a molecule for molecular data for prediction, taking a consensus based on the results of a plurality of energies or three-dimensional structures, and predicting the most stable molecular structure based on the results of consensus.02-19-2009
20100131258Method for identifying protein synthesis inhibitors by ribosome structure - The invention provides methods for producing high resolution crystals of ribosomes and ribosomal subunits as well as crystals produced by such methods. The invention also provides high resolution structures of ribosomal subunits either alone or in combination with protein synthesis inhibitors. The invention provides methods for identifying ribosome-related ligands and methods for designing ligands with specific ribosome-binding properties as well as ligands that may act as protein synthesis inhibitors. Thus, the methods and compositions of the invention may be used to produce ligands that are designed to specifically kill or inhibit the growth of any target organism.05-27-2010
20090216509USER INTERFACE FOR MODELING THERMAL COMFORT - Predicting thermal strain and providing a visual representation of the predicted thermal strain on a subject. A computerized model combines subject data, fabric data, and environmental conditions to simulate the thermal comfort of the subject wearing a plurality of fabric layers over time. The visual representation indicates the simulated thermal comfort on an image of the subject with the plurality of fabric layers. A user interface enables a user to modify or define the input data to compare the predicted thermal comfort of the subject wearing different garments under the same working conditions.08-27-2009
20100070254Method for Generating Real-Time Haptic Response Information for a Haptic Simulating Device - A method is provided for generating real-time haptic response information for a haptic simulating device during a surgery simulation performed on an object volume by a virtual tool that is associated with the haptic simulating device. The object volume includes tissue voxels, null voxels, and object boundary points located between corresponding adjacent pairs of the tissue and null voxels. The method includes: (a) obtaining a current center position of the virtual tool; (b) determining a current tool subvolume of the object volume; and (c) upon determining that the current tool subvolume has at least one tissue voxel, performing the sub-steps of: (c-1) determining positions of tool boundary points within the current tool subvolume, (c-2) updating labeling of the voxels within the current tool subvolume and replacing an original set of the object boundary points within the current tool subvolume with a new set of the object boundary points, and (c-3) providing force information of a force to be generated by the haptic simulating device.03-18-2010
20100057419Fold-wise classification of proteins - This disclosure relates to methods, apparatus, computer programs and computing devices related systems for predicting the fold pattern of a protein of interest having an unknown fold pattern, using SVM classification methods and systems.03-04-2010
20110077930COMPUTER-IMPLEMENTED METHOD FOR PROVIDING A PERSONALIZED TOOL FOR ESTIMATING 1,5-ANHYDROGLUCITOL - A computer-implemented method for providing a personalized tool for estimating 1,5-anhydroglucitol is provided. An electronically-stored history of empirically measured glucose levels is maintained for a patient over a set period of time in order of increasing age. A predictive model of estimated glycated hemoglobin is built on a computer workstation. A decay factor is designated particularized to the patient. The decay factor is applied to each of the measured glucose levels. The measured glucose levels is scaled by a scaling coefficient. The measured glucose levels are aggregated and scaled as decayed and scaled into an estimate of glycated hemoglobin for the time period. The glycated hemoglobin estimate is displayed to the patient on the computer workstation.03-31-2011
20110153301Method for Taking Body Measurements with Digital Clothing - A method comprises steps of: providing body-outlining parameters; editing the body-outlining parameters; creating a body with the edited body-outlining parameters on a window for the digital clothing; and visualizing the created body on the window for the digital clothing. The step of providing the body-outlining parameters may comprise steps of providing: a stature; a crotch height; a head length; an arm length; a bust girth; a waist girth; a head girth; a upper arm girth; a lower arm girth; a knee girth; and a lower leg girth. The step of editing the body-outlining parameters may comprise steps of editing: providing a number for setting a parameter value; and sliding a visual bar on the window for the digital clothing.06-23-2011
20110077931METHODS AND APPARATUS FOR IDENTIFYING DISEASE STATUS USING BIOMARKERS - Methods and apparatus for identifying disease status according to various aspects of the present invention include analyzing the levels of one or more biomarkers. The methods and apparatus may use biomarker data for a condition-positive cohort and a condition-negative cohort and select multiple relevant biomarkers from the plurality of biomarkers. The system may generate a statistical model for determining the disease status according to differences between the biomarker data for the relevant biomarkers of the respective cohorts. The methods and apparatus may also facilitate ascertaining the disease status of an individual by producing a composite score for an individual patient and comparing the patient's composite score to one or more thresholds for identifying potential disease status.03-31-2011
20110077929METHOD AND SYSTEM FOR MODELING DURABILITY OF INSECTICIDAL CROP TRAITS - Systems, methods and other means for evaluating durability of genetic traits for the control of damage by pests are provided. Inputs parameters associated with the genetic traits, pests, and one or more fields may be received by a computer and/or other type of machine, which may apply a computer-implemented model to determine, e.g., durability of the genetic traits. Some embodiments may also or instead include an output associated with, e.g., the durability. The computer-implemented model may provide, in some embodiments, for modeling dynamic movement of the pests within a Bt field and one or more of the fields being Bt fields. The computer-implemented model may also or instead provide, in some embodiments, for modeling blended refuge seed products.03-31-2011
20110060578COMPREHENSIVE MODELING OF THE HIGHLY NETWORKED COAGULATION-FIBRINOLYSIS-INFLAMMATORY-IMMUNE SYSTEM - An agent-based modeling system (ABMS) is employed to quantitatively analyze individual components of each system of the coagulation-immune/inflammatory-fibrinolysis system at every point of simulation. ABMS is a dynamic modeling and simulation tool that allows the study of dynamic non-linear networked systems. ABMS represents a non-reductionist approach of studying the biologic process as a whole, while retaining information at the level of an individual component.03-10-2011
20110060575Method for Generating Information of a 3-Dimensional Molecular Structure of a Molecule - A method for generating information of a 3-dimensional molecular structure of a molecule, said method being executable by a computer under the control of a program stored in the computer, said method comprising the steps of: (a) receiving a 3-dimensional representation of the molecular structure of said molecule, comprising a first set of residue portions and a template; (b) repeating an optimization cycle, wherein a set of (b1) modifying the molecular structure of one or more of the first set of residue portions, (b2) relaxing said modified structure, and (b3) calculating an energy value of the structure and comparing said calculated value with a prestored base value or with a value calculated in a previously performed step (b3), is repeated; (c) until a predetermined criterion is fulfilled; and (d) outputting a data structure comprising information extracted from any of these steps to a storage medium or to a consecutive method. Preferably the 3-dimensional representation of said molecule comprises a set of hydrogen residues and step (b3) comprises the step of calculating the energy value of hydrogen bridges in the structure, and wherein said criterion of step (c) is comprised of a difference between the calculated value and the prestored base value or the previously calculated value.03-10-2011
20120203531CONVERSION OF FIXED-BED LIQUID CHROMATOGRAPHY PROCESSES TO SIMULATED MOVING BED PROCESSES - Novel methods and devices are disclosed for automatically producing a simulated moving bed chromatography system and parameters from input of a fixed-bed liquid chromatography process directed at separating the same product. Tools and algorithms are provided which automatically convert fixed-bed process parameters into an executable simulated moving bed chromatography program. Familiar tabular input interfaces and a unique circular phase map of the simulated moving bed system that is generated according to input data makes the methods and apparatus of the invention extremely user-friendly and easy to use.08-09-2012
20110040544Systems And Methods For Treating, Diagnosing And Predicting The Response To Therapy Of Breast Cancer - This present invention systems and methods of accessing/monitoring the responsiveness of a breast cancer to a therapeutic compound.02-17-2011
20110060579Ultrasound Simulation Apparatus and Method - A method includes receiving data values associated with one of a position and orientation of a simulated scanner relative to an object. Image values are calculated, substantially in realtime, based on the data values. A simulated ultrasound image is rendered in a graphical display based on the image values. The simulated ultrasound image is representative of an interior or a simulated interior of the object on the ultrasound scan plane. Ultrasound simulation systems are also disclosed.03-10-2011
20110040547THERAPY PROGRAM MODIFICATION BASED ON THERAPY GUIDELINES - Techniques for modeling therapy fields for therapy delivered by medical devices are described. Each therapy field model is based on a set of therapy parameters and represents where therapy will propagate from the therapy system delivering therapy according to the set of therapy parameters. Therapy field models may be useful in guiding the modification of therapy parameters. As one example, a processor compares an algorithmic model of a therapy field to a reference therapy field and adjusts at least one therapy parameter based on the comparison. As another example, a processor adjusts at least one therapy parameter to increase an operating efficiency of the therapy system while substantially maintaining the modeled therapy field.02-17-2011
20110040546THERAPY PROGRAM MODIFICATION - A therapy program may be modified based on information indicative of a change in a therapy field, which may represent a region of a patient's tissue to which therapy is delivered. Upon receiving information indicative of a therapy field change, an algorithmic model of a present therapy field may be generated and compared to an algorithmic model of a baseline therapy field, which indicates a therapy field that provides efficacious therapy to the patient. If a characteristic of the present therapy field differs from the baseline therapy field model, the current therapy program may be modified. In another example, upon receiving information indicative of a therapy field change, the current therapy program may be modified, and an algorithmic model of a therapy field based on the modified therapy program may be compared to a baseline therapy field model to determine whether the modified therapy program is a suitable alternative.02-17-2011
20100004915Epithelial Layer Detector and Related Methods - An epithelial detector and method for automatically identifying epithelial portions of a tissue sample, includes: staining the tissue sample with at least two dyes; applying a color transformation to a color image of the tissue sample to obtain one or more color channels; and applying a trained convolutional neural network to the color channels to obtain a decision for position in the tissue as to whether it is inside or outside an epithelial layer. Also, a method for training the convolutional neural network.01-07-2010
20080243459Optimization Using Indirect Design Coding - A method for optimizing a material structure. The method comprises the steps of encoding an initial design of the material structure to be optimized as a parameter set, subjecting the initial design to an optimization according to at least one preset criterion, using an evolutionary algorithm, terminating the optimization when a termination condition is met, and outputting data representing the optimized parameter set. The design of the material structure is encoded indirectly as a virtual DNA.10-02-2008
20090177453Medical diagnosis support computer system, computer program, and server computer - A medical diagnosis support computer system for supporting diagnosis of a patient by a doctor, the system comprising: a display device; and a controller in communication with the display device, the controller comprising a processor configured to build a biological model representing biological functions of the patient on a computer, generate pathological condition information of the patient based on the biological model, display a doctor screen and a patient screen in a switchable manner on the display device; wherein the doctor screen is configured to simultaneously display a screen region for displaying the pathological condition information of the patient and a screen region for displaying one or more related information related to the patient; and the patient screen is configured to selectively display a display content between the pathological condition information of the patient and one or more related information related to the patient is disclosed.07-09-2009
20090055147CELL NETWORK ANALYSIS SYSTEM - A digital cell database and means for making network analysis using the database and actual data. A method for creating a database of digital cells and a device concerning the method are provided. A method for providing a service to reproduce an experiment according to a parameter to be analyzed on the basis of the results of an experiment on an actual cell using a digital cell by means of a computer system including a service requester and a service provider are also provided. The technique is solved by providing a support through which cells can be arranged in the same environment.02-26-2009
20080281568Gene Expression Profiling for Identification of Prognostic Subclasses in Nasopharyngeal Carcinomas - mRNA transcript profiling can be used to formulate molecular predictors of distant metastasis for primary NPCs. The predicted results are highly correlated with short metastasis-free and overall survival. Predictions are made using 52-genes based and 12-genes based predictors.11-13-2008
20090012766Event Sequencer - There is provided a tool for effectively performing a meaningful analysis of a system state by using a specific index. A part having unusual behavior is extracted as an event timing from time-series data on an index derived from a system. An event descriptor describing the state of the system by using the event timing is generated. A method for generating the event descriptor associated with at least one system includes: a step (A) for acquiring time-series data on at least one index derived from at least one system; a step (B) for providing at least one peculiar behavior associated with the index; and a step (C) for extracting a part having the peculiar behavior as an event timing in the time-series data and generating an event descriptor described by the event timing.01-08-2009
20110131028CELL POPULATION SYSTEM AND PROCESS - A cell population process executed by a computer system, the process including generating cell population data representing numbers of cells in a cell population from one or more probability distributions representing probabilities for cell division in the absence of cell death in successive generations of cells of the cell population, and one or more probability distributions representing probabilities for cell death in the absence of cell division in successive generations of cells of the cell population.06-02-2011
20110131027Bioinformatics system - The invention develops models of functional proteomics. Simulation scenarios of protein pathway vectors and protein-protein interactions are modeled from limited information in protein databases. The system focuses on three integrated subsystems, including (1) a system to model protein-protein interactions using an evolvable Global Proteomic Model (GPM) of functional proteomics to ascertain healthy pathway operations, (2) a system to identify haplotypes customized for specific pathology using dysfunctional protein pathway simulations of the function of combinations of single nucleotide polymorphisms (SNPs) so as to ascertain pathology mutation sources and (3) a pharmacoproteomic modeling system to develop, test and refine proposed drug solutions based on the molecular structure and topology of mutant protein(s) in order to manage individual pathologies. The system focuses on simulating the degenerative genetic disease categories of cancer, neurodegenerative diseases, immunodegenerative diseases and aging. The system reveals approaches to reverse engineer and test personalized medicines based upon dysfunctional proteomic pathology simulations.06-02-2011
20080243458Method for the Production of a Biologically Active Prosthetic Device for the Reconstruction of Bone Tissue and the Prosthetic Device Itself - The invention relates to a method for the production of a biologically active prosthetic device for the reconstruction of bone tissue comprising the steps of: a CAT (Computerized Axial Tomography) scan of the patient and obtaining a three-dimensional electronic model (10-02-2008
20100280809Biological state-evaluating apparatus, biological state-evaluating method, biological state-evaluating system, biological state-evaluating program and recording medium - An object is to provide a biological state-evaluating apparatus, a biological state-evaluating method, a biological state-evaluating system, a biological state-evaluating program, and a recording medium that can evaluate a biological state with high accuracy by using the concentrations of amino acids in blood. According to the present invention, a Bayesian network method is performed by using previously obtained amino acid concentration data on the concentration values of amino acids and previously obtained biological state data on the numerical value indicative of the biological state so that a Bayesian network model that includes, as explanatory variables, the concentration values of amino acids and the numerical value indicative of the biological state is created, and the biological state of the subject is evaluated by using the created Bayesian network model and the previously obtained amino acid concentration data on the subject.11-04-2010
20110054870Vision Based Human Activity Recognition and Monitoring System for Guided Virtual Rehabilitation - A system, method, and computer program product for providing a user with a virtual environment in which the user can perform guided activities and receive feedback are described. The user is provided with guidance to perform certain movements. The user's movements are captured in an image stream. The image stream is analyzed to estimate the user's movements, which is tracked by a user-specific human model. Biomechanical quantities such as center of pressure and muscle forces are calculated based on the tracked movements. Feedback such as the biomechanical quantities and differences between the guided movements and the captured actual movements are provided to the user.03-03-2011
20110022370METHOD AND SYSTEM FOR MODELING BONE STRUCTURE FROM COLLAGEN BUNDLE ORIENTATIONS - The present invention relates to the characterization of human bone microstructure that is applicable to methods of characterizing and predicting fracture initiation, propagation, and arrest. These methods involve the collagen orientation in proximity of osteocyte lacunae, such as the lacunar-ECM interface and perilacunar region, and the role that collagen orientation plays in micro-biomechanics. In particular, collagen orientation at the lacuna-matrix interface optimizes the magnitude of stresses during the elastic phase. Further, the role of collagen-apatite orientation at the interface between matrix and osteocyte lacuna delays micro-crack initiation, propagation, and arrest.01-27-2011
20110022371Follicular Unit Transplantation Planner and Methods of its Use - A system for planning transplantation of follicular units in a body surface of a patient includes a user interface comprising a software-controlled processor, a monitor, and an input device, wherein the system is configured for acquiring images of the body surface, processing the images to produce a three-dimensional model of the body surface, displaying a graphic rendering of the body surface model on the monitor, and displaying on the body surface model a proposed recipient area for implanting follicular units based at least in part on an actual or desired physical characteristic of the patient.01-27-2011
20110022372CLOTHING SIMULATION APPARATUS, CLOTHING SIMULATION PROGRAM, AND CLOTHING SIMULATION METHOD - A clothing simulation apparatus precisely determines clothing pressure for bringing a clothing into tight contact with a human body. A fitting part 01-27-2011
20110125477Inverse Modeling for Characteristic Prediction from Multi-Spectral and Hyper-Spectral Remote Sensed Datasets - Provided are methods and related devices for predicting the presence or level of one or more characteristics of a plant or plant population based on spectral, multi-spectral, or hyper-spectral data obtained by, e.g., remote sensing. The predictions and estimates furnished by the inventive methods and devices are useful in crop management, crop strategy, and optimization of agricultural production.05-26-2011
20110137633ANTI-VIRAL COMPOUNDS AND METHODS OF IDENTIFYING THE SAME - Methods of identifying NS5A inhibitors are provided. Novel binding sites are identified on NS5A dimers, and these binding sites can be used to design and/or identify new NS5A inhibitors.06-09-2011
20110137632METHOD AND APPARATUS FOR INTEGRATED MODELING, SIMULATION AND ANALYSIS OF CHEMICAL AND BIOCHEMICAL REACTIONS - An integrated system for modeling, simulating and analyzing chemical and biochemical reactions includes a modeling environment for constructing a model of a chemical or biochemical reaction. The system also includes a simulation engine accepting as input said constructed model of the chemical or biochemical reaction and generating as output an expected result. An analysis environment communicates with the simulation engine and displays the expected result.06-09-2011
20110082677STIMULATING TASK PRESENTATION DEVICE AND STIMULATING TASK PRESENTATION METHOD FOR LIVING BODY OPTICAL MEASUREMENT APPARATUS - A load of a stimulating task on an examinee with a resting task being unstable is excluded, and an accurate answer of an examinee to presentation of a stimulating task is enabled. A stimulating task presentation device in a living body optical measurement device includes a stimulation presenting unit configured to present a stimulation to an examinee, a brain function measurement device for measuring a brain function of the examinee in parallel to presentation of the stimulation, and a stimulation presentation controller configured to control the stimulation presented by the stimulation presenting unit, and the stimulation presentation controller has a function of setting a resting task and a stimulating task to be presented to the examinee, a function of detecting an answer of the examinee to the resting task and the stimulating task, and a task presentation control function of determining the degree of stability on the basis of the detection result when the resting task is presented, and controlling presentation of the resting task or the stimulating task on the basis of the degree of stability.04-07-2011
20090171639Method to identify modulators for human 3alpha-hydroxysteroid dehydrogenase - 3 α-hydroxysteroid dehydrogenase (3α-HSD) plays a central role in the metabolism and action of steroid hormones and neurosteroids (steroids synthesized in the central nervous system). The high resolution structure of human type III 3α-HSD crystallized in complex with cofactor NADP is determined by X-ray diffraction. Furthermore the active site is determined. The structure coordinates of the enzyme may be used to design and select novel classes of modulators to human type III 3α-HSD.07-02-2009
20100179798Method for Predicting Organ Toxicity and a System Thereof - The attached disclosure provides a systems approach based on mathematical modelling of the kinetics of essential biochemical pathways involved in organ homeostasis. When this in silico model is coupled with in-vitro and/or in-vivo measurements to quantify drug-induced perturbations, a powerful platform that allows accurate and mechanistic-level prediction of drug-induced organ injury can be generated. The method described in this disclosure demonstrates that several physiological situations can also be accurately modelled in addition to the effect of perturbations induced by drugs. It can also be used along with high-throughput “omics” data to generate testable hypotheses leading to informed decision-making in drug development.07-15-2010
20080294405Tooth modeling - The present disclosure includes dental appliances, devices, and methods of making and using such appliances. In one embodiment, a method for tooth modeling includes receiving a patient information file for a treatment plan patient and analyzing the patient information file to determine whether the patient is a non-adult patient.11-27-2008
20120310617Implant Planning for Multiple Implant Components Using Constraints - Described are computer-based methods and apparatuses, including computer program products, for implant planning for multiple implant components using constraints. A representation of a bone and a representation of a first implant component are displayed with respect to the representation of the bone. A representation of a second implant component is displayed, wherein the first implant component and the second implant component are physically separated and not connected to each other. A positioning of the representation of the second implant component that violates at least one positioning constraint is prevented, wherein the positioning constraint is based on the representation of the first implant component.12-06-2012
20120310616COMPUTATION OF THE COMBINED POTENCY OF DRUG REGIMENS FROM FITTED OR IN VITRO DETERMINED DOSE-RESPONSE CURVES - A method is described that computes the combined potency of a drug regimen based on predicted or in vitro determined dose-response response curves of the individual drugs in a treatment regimen. This is instrumental in those diagnostic situations where different instances of biomolecule sequences or other biomarkers are associated with a different, but measurable or predictable shape of the dose-response curve of one or more of the regimen drugs, and where the response to the drug can be translated to a (surrogate) clinical endpoint.12-06-2012
20110060574COMPUTER-BASED MODELING AND DESIGNING OF PHOSPHOFRUCTOKINASE 1 (PFK) MODULATORS - The subject matters of the invention are: a crystallographic model of the binding site and a modulator regulating the catalytic activity of phosphofructokinase (PFK), a method of designing, selecting and producing a PFK modulator, a computer based method for the analysis of the interaction between the modulator and PFK, a computer-based method the analysis of molecular structures, a method of assessing the ability of the potential modulator to interact in the binding site on the PFK surface, a method of providing data for generating structures and/or performing design for ligands binding PFK, PFK homologues or analogues, complexes of PFK with a potential modulator, or complexes of PFK homologues or analogues with potential modulators, a computer system. The invention makes it possible to design a suitable activator, which could be used to modulate PFK activity, taking advantage of PFKs capability to bind in its effector site phosphate groups or other groups with a similar potential to interact, which correspond with the substituents in positions 1, 2 and 6 of the fructose ring, or groups corresponding with positions of the fructose ring groups interacting in the PFK effector site.03-10-2011
20110191086MODEL OF ACCOMMODATIVE INTRAOCULAR LENS - The invention is directed to a model comprising a diagrammatical and geometric simplification of the components of the natural eye whose functionality is fundamental to the successful performance of a pseudo-aphakic accommodative lens. This model allows for a functional correlation of each component of the ophthalmic device with the patient needs. The eye model was developed to show the movement of the eye from the distance vision to the near vision positions through multiple phases of accommodative motion. The inventive model was developed using a mathematical series of formulas to calculate each of the components of focal accommodation in a human eye, quantify these, and construct the pictorial ramifications of such calculations. The inventive model presents an analysis of accommodative dynamics in the human eye with the natural lens in place. The inventive model also demonstrates the accommodative dynamics with a proprietary IOL in place of the natural lens and situated within the lens capsule.08-04-2011
20110191087COMPUTER IMPLEMENTED MODEL OF BIOLOGICAL NETWORKS - The present invention relates to a computer-implemented method of producing a kinetic model of a biological network, the method comprising (a) choosing a network topology, wherein the nodes of said topology represent biological entities and the edges of said topology represent interactions between said entities; (b) assigning kinetic laws and kinetic constants to said interactions; and (c) assigning starting concentrations to said biological entities, wherein (i) one part of said kinetic constants and independently one part of said starting concentrations are experimental data; and (ii) the remaining part of said kinetic constants and independently the remaining part of said starting concentrations are chosen randomly.08-04-2011
20110191085SYSTEM AND METHOD FOR COMMISSIONING OF A BEAM MODEL FOR A THREE DIMENSIONAL RADIATION THERAPY TREATMENT PLANNING SYSTEM - A system and method for commissioning of a beam model for a three dimensional radiation therapy treatment planning system is described. The system includes an intensity modulated radiotherapy (IMRT) unit for generating a two dimensional intensity modulated beam pattern, a two dimensional diode array for detecting a two dimensional dose map for the beam pattern, and a processor configured to execute instructions for iteratively adjusting one or more parameters for the beam model, in order to increase agreement between the detected dose map and a calculated dose map calculated using the beam model.08-04-2011
20110191084RADIOGRAPHIC IMAGING METHOD AND APPARATUS - A reference frame is described for use in a radiographic procedure. The reference frame is positionable relative to a joint or bone to be imaged, and is radio-transparent. The frame has embedded or affixed thereto a plurality of computer recognizable radio opaque markers. A method of obtaining three dimensional images of bones and joints using the frame is described.08-04-2011
20110191083System and Method for Measuring and Reporting the Relative Functions of Dental Anatomical Structures - The present invention provides a motion analysis system for measuring the relative function of one anatomical structure to another based on multiple accelerometer axis data, where the components of hard and soft tissue are used in analysis and where the data can be compared in a time series such that probabilities of involvement with various tissues can be correlated to the accelerometer data.08-04-2011
20110191082INTERACTIVE PLANNING TOOL AND SIMULATION SYSTEM FOR CRYOABLATION SURGERY - A cryoablation procedure at a surgery site is planned and simulated. One or more pre-procedure planning images of the surgery site are displayed on a user interface. Positioning of one or more virtual cryoprobes relative to the one or more pre-procedure planning images on the user interface is facilitated. Properties of the one or more virtual cryoprobes are selectable. Ice ball formation at the surgery site is then simulated based on the position and properties of the virtual cryoprobes. The simulated ice ball formation is based at least in part on tissue properties of the surgery site at each image unit of the one or more pre-procedure planning images. Boundaries of the simulated ice ball formation on the one or more pre-procedure planning images are then displayed.08-04-2011
20110191081METHOD TO DETERMINE THE IMPACT OF A PROPOSED DENTAL MODIFICATION ON THE TEMPOROMANDIBULAR JOINT - Use of computer technology for image-assisted risk assessment/evaluation of proposed dental treatments is described, in particular a method and apparatus for determining the impact of a proposed dental modification on the temporomandibular joint(s), e.g. to obtain information relating to that impact. Use of a virtual articulator is described to determine the impact of a proposed dental modification on the temporomandibular joint(s). This dental modification includes, but is not limited to, the replacement of one or more teeth by artificial teeth, the replacement of one or more parts of a tooth by a prosthetic reconstruction such as a dental crown or veneer, the rearrangement of one or more existing teeth (orthodontic treatment), the distraction of one or both jaws in order to reposition the teeth (orthognatic treatment) and/or modifications of the occlusal surfaces of the teeth.08-04-2011
20110144967SYSTEM AND METHOD FOR DYNAMIC CARDIAC ANALYSIS, DETECTION, PREDICTION, AND RESPONSE USING CARDIO-PHYSIOLOGICAL MATHEMATICAL MODELING - A system and a method for evaluating the cardiac status of a heart by evaluating a plurality of cardio-physiological parameters, and in particular, to such a system and method in which a plurality of cardio-physiological mathematical models are evaluated to produce a user specific cardiac model.06-16-2011
20110153302IDENTIFICATION OF DRUG EFFECTS ON SIGNALING PATHWAYS USING INTEGER LINEAR PROGRAMMING - Methods and algorithms for modeling biological interaction networks using integer linear programming (ILP) are provided. Methods to identify the effect of a drug on such interaction networks are also provided. Methods to use ILP-base modeling of biological interaction networks and drug effects to personalize clinical interventions are also provided.06-23-2011
20100030543Products and processes for modulating peptide-peptide binding domain interactions - The present invention relates to therapeutic compounds and methods of use of these therapeutic compounds for treating cellular proliferative disorders. The invention also provides three-dimensional structures of a Polo-like kinase and methods for designing or selecting small molecule inhibitors using these structures, and the therapeutic use of such compounds. The invention also includes a method for identifying novel phosphopeptide-binding domains.02-04-2010
20100030542APPARATUS AND METHOD FOR DYNAMICALLY FITTING INSOLES TO A PATIENT - In one aspect, the present invention is directed to an apparatus for dynamically fitting an insole to a patient, the apparatus comprising: a first fitting panel, comprising: a virtual model of desired strains on the plantar surface of a foot; a plurality of fitting units deployed on the first panel, each fitting unit comprising: (a) a strain sensor, for measuring the strain of the foot on the fitting unit; and (b) an elevating unit, for elevating the top point of the fitting unit to a desired point; a processing unit, for instructing the elevating unit to adjust the elevation of the top point of the fitting unit towards a position wherein the strain of the foot, as measured by the strain sensor, corresponds to the strain of the virtual model.02-04-2010
20100017182METHOD FOR CORONARY ARTERY DISEASE RISK ASSESSMENT - The present invention is directed to methods for atherosclerosis risk reduction including initial risk stratification, goal setting, and goal attainment for patients with, or at risk for, atherosclerosis. The present invention may be embodied in a computer implemented software product, the modules and sub-routines resident on a computer or hand held device, allowing a physician to determine the best strategy for coronary artery disease prevention based on such risk assessment values as Framingham score, genetic predisposition, biomarker levels and atherosclerosis imaging scores. The software product is supported by a backend database containing risk assessment value scores for a patient population of known clinical outcome. The database may reside in a memory unit, such as a hard drive, of the computer or hand held device, or may be accessed remotely in a distributed computer environment.01-21-2010
20090210207SYSTEM AND METHOD FOR SEQUENCE VARIATION/PREDICTION AND GENETIC ENGINEERING DETECTION USING DOCUMENTED CODON/AMINO ACID MUTATION AND/OR SUBSTITUTION PATTERNS - The present invention primarily relates to protein identification and can be particularly useful for bioinformaticists employing a mass spectrometry analysis. The present invention provides systems and methods to produce virtual databases, virtual database entries, or virtual amino acid sequences that can be used to improve the identification of unknown proteins and facilitate recognizing engineered proteins and distinguishing between natural and engineered genes and proteins. The present invention uses variations, such as mutation or substitution patterns, evident in and derived from known DNA, RNA, and protein sequences to predict and generate virtual DNA, RNA, and amino acid sequences that may not be represented in the current databases but that are likely to occur in nature. Substitution patterns may be derived from either the chemical, physical, and biological patterns of mutation or the derived, observable patterns of evolutionary fixation of such mutations between or within species. These virtual sequences (or databases/datafiles of such virtual sequences) contain novel, but statistically likely sequences for use in comparing to unknown proteins (peptides) for protein identification. The use of such synthetic sequences and/or databases facilitate the recognition and distinction between naturally occurring and genetically engineered DNA, RNA, and protein sequences.08-20-2009
20100280810System and Method of Modeling Mono-Glycerides, Diglycerides and Triglycerides in Biodiesel Feedstock - A computer-implemented method and system of modeling physical properties of biodiesel feedstock are presented. The invention method and system include (i) estimating values of a physical property of constituent fatty acid fragments of a mono-, di-, or triglyceride, and (ii) computing a value of the physical property of the mono-, di-, or triglyceride by expressing the value of the physical property of the mono-, di-, or triglyceride as a sum of the estimated values of the physical property of constituent fatty acid fragments thereof. The method and system further include repeating steps (i) and (ii) for different mono-, di-, and/or triglycerides, resulting in a plurality of computed values of the physical property of different mono-, di-, and triglycerides. Using the resulting plurality, the method and system determine a value of a subject physical property of a biodiesel feedstock by expressing the value of the subject physical property of the biodiesel feedstock as a sum of values from the resulting plurality of the computed mono-, di-, and triglyceride physical property values corresponding to constituent mono-, di-, and triglycerides of the biodiesel feedstock. The determined value of the subject physical property enables blending of the biodiesel feedstock in production of biodiesel.11-04-2010
20080294404Computer Aided Ligand-Based and Receptor-Based Drug Design Utilizing Molecular Shape and Electrostatic Complementarity - Methods related to the generation of shape signatures representing molecular shape, and using shape signatures in both ligand-based and receptor-based molecular design. Ray-tracing is used to explore the volume interior to a ligand, or the space exterior to a receptor site. Shape signatures are then probability distributions derived from the ray-traces. Shape signatures provide condensed descriptors of shape properties readily compared to each other to test for shape similarity or complementarity.11-27-2008
20090018808Preoperative Surgical Simulation - An apparatus for simulating an image-guided procedure. The system comprises an input for receiving a three-dimensional (3D) medical image depicting an organ of a patient, a model generation unit for generating a 3D anatomical model of the organ according to the 3D medical image, and a simulating unit for simulating a planned image-guided procedure on the patient, according to the 3D anatomical model.01-15-2009
20080228456MODELING WOUND HEALING - Provided are methods of simulating tissue healing. The methods comprise using a mechanistic computer model of the interrelated effects of inflammation, tissue damage or dysfunction and tissue healing to predict an outcome of healing of damaged tissue in vivo, thereby predicting the outcome of healing of damaged tissue in vivo. Implementations of these methods on a computing device also are provided. Non-limiting examples of diseases and/or conditions that are amenable to simulation according to the methods described herein include: a diabetes, diabetic foot ulcers, necrotizing enterocolitis, ulcerative colitis, Crohn's disease, inflammatory bowel disease, restenosis (post-angioplasty or stent implantation), incisional wounding, excisional wounding, surgery, accidental trauma, pressure ulcer, stasis ulcer, tendon rupture, vocal fold phonotrauma, otitis media and pancreatitis.09-18-2008
20120041740DIGITISATION OF DENTAL PARTS - The surface of a dental part is scanned by a probe, to obtain a digital model of the surface in a dental CAD computer system. In the digital model, first and second boundary lines are defined, above and below a portion in which the scanned data is missing or unsatisfactory. One of the boundary lines may correspond to a margin line between prepared and unprepared portions of the patient's tooth. A transition surface is generated in the computer system, extending between the first and second boundary lines. This improves the representation of the dental part in the digital model, which may subsequently be used for manufacture of a dental restoration.02-16-2012
20110307231METHOD AND ARRANGEMENT FOR CREATING AN INDIVIDUALIZED, COMPUTER-AIDED MODEL OF A SYSTEM, AND A CORRESPONDING COMPUTER PROGRAM AND A CORRESPONDING MACHINE-READABLE STORAGE MEDIUM - A method and an arrangement for creating an individualized, computer-aided model of a system, for determining physiological variables and/or parameters from clinical measurements and continuous measurements. Furthermore, one or more embodiments makes it possible to detect disease-related changes, to the heart in particular, and enables an improved medical interpretation of measurements by implant sensors. The system is not limited to physiological systems, and can also be used to monitor technical systems.12-15-2011
20100153082SYSTEMS AND METHODS FOR CELL-CENTRIC SIMULATION OF BIOLOGICAL EVENTS AND CELL BASED-MODELS PRODUCED THEREFROM - Systems and methods are provided herein that enable computer-implemented modeling of a biological event. Cell-based models produced from such systems and methods are also disclosed. In some embodiments, systems and methods are provided for cell-centric simulation with accommodating environment feedback. In one embodiment, a computer-implemented method of modeling a biological event can include receiving configurable simulation information and initializing an ontogeny engine to an initial step boundary in accordance with the configurable simulation information. The method can also include advancing the ontogeny engine from a current step boundary to a next step boundary in accordance with the configurable simulation information and the current step boundary. The advancing can include performing a metabolizeCell function. The method can further include continuing the advancing until a halting condition is encountered. In some embodiments, simulation of biological events includes modeling biological processes, such as development of ECM, multicellular tissue and differentiation of pluripotent cells.06-17-2010
20110112816SYSTEM AND METHODS FOR THREE DIMENSIONAL MOLECULAR STRUCTURAL ANALYSIS - The present invention relates to methods and systems for the accurate prediction of nucleic acid, e.g., RNA and DNA, and other macromolecular and biomolecular three-dimensional structure from sequence and constraint information.05-12-2011
20110112817SYSTEM AND METHODS FOR THREE DIMENSIONAL MOLECULAR STRUCTURAL ANALYSIS - The present invention relates to methods and systems for the accurate prediction of nucleic acid, e.g., RNA and DNA, and other macromolecular and biomolecular three-dimensional structure from sequence and constraint information.05-12-2011
20110112818METHODS FOR PREDICTION OF BINDING SITE STRUCTURE IN PROTEINS AND/OR IDENTIFICATION OF LIGAND POSES - A method for modification and/or evaluation of ligand-protein and protein-protein systems is provided. Specifically, the method involves generating a final set of ligand or protein poses based on an initial set of ligand or protein poses. The method considers a variety of tools that can be applied to each pose. Energy scoring of each pose is performed based on results obtained from application of one or more of these tools. The design of the method allows for flexibility in which tools are used, the order in which they are used, and input parameters used for the different tools. This flexibility allows a user of the method to select a level of precision desired for a particular ligand-protein and protein-protein system that is being modified and/or evaluated.05-12-2011
20080312893CLINICAL DIAGNOSTIC ANALYZER PERFORMANCE ESTIMATOR - The disclosed methods and devices relate to tools for on-site and customizable evaluation of the performance of clinical diagnostic analyzers or automation systems by executing a portable simulation program utilizing actual data from a site of interest. The portable simulation program consists of an Intelligent LIS pre-processor, implementation of a simulation model, and analytical and graphical means to determine and present the performance metrics. This permits a realistic evaluation of the clinical diagnostic analyzers before installing the equipment, thus aiding in making decisions including a decision to buy or appropriately configure clinical diagnostic analyzer. The analysis also allows customers to modify the laboratory setup, improve delivery schedules, with better sample scheduling and storage, and in adding equipment.12-18-2008
20120041739Method and System for Patient-Specific Modeling of Blood Flow - Embodiments include a system for determining cardiovascular information for a patient. The system may include at least one computer system configured to receive patient-specific data regarding a geometry of the patient's heart, and create a three-dimensional model representing at least a portion of the patient's heart based on the patient-specific data. The at least one computer system may be further configured to create a physics-based model relating to a blood flow characteristic of the patient's heart and determine a fractional flow reserve within the patient's heart based on the three-dimensional model and the physics-based model.02-16-2012
20090006061SYSTEM FOR DEVELOPING PATIENT SPECIFIC THERAPIES BASED ON DYNAMIC MODELING OF PATIENT PHYSIOLOGY AND METHOD THEREOF - A system for developing patient-specific therapies based on dynamic modeling of patient-specific physiology and method thereof are disclosed. The system includes software modules configured to provide access via a computer to one or more data collection protocols defining at least a type of patient-specific data to be collected and a manner in which the patient-specific data is to be collected, and to information from which one or more patient-specific models, configured to simulate one or more aspects of the patient's physiology, is developed. Another software module of the system is configured to provide access via the computer to one or more software tools that apply patient-specific data, collected according to the one or more data collection protocols, to the one or more patient specific models to determine therefrom one or more patient-specific therapies.01-01-2009
20120065952METHOD FOR MANIPULATING A DENTAL VIRTUAL MODEL, METHOD FOR CREATING PHYSICAL ENTITIES BASED ON A DENTAL VIRTUAL MODEL THUS MANIPULATED, AND DENTAL MODELS THUS CREATED - A 3D virtual model of an intra oral cavity in which at least a part of a finish line of a preparation is obscured is manipulated in virtual space by means of a computer or the like to create, recreate or reconstruct finish line data and other geometrical corresponding to the obscured part. Trimmed virtual models, and trimmed physical models, can then be created utilizing data thus created. The virtual models and/or the physical models may be used in the design and manufacture of copings or of prostheses.03-15-2012
20090138251BIOINFORMATICS RESEARCH AND ANALYSIS SYSTEM AND METHODS ASSOCIATED THEREWITH - A system and method for performing a research and analysis in the bioinformatics field which associates data from a variety of experimental platforms with preclinical and/or clinical samples and subjects. The system and method allows for the analysis of data stored therein received from a variety of experimental platforms, as well as association with preclinical and clinical sources. A fully integrated medical informatics/molecular bioinformatics database/analysis package is provided herein suitable for accelerated target discovery, diagnosis, and treatments for molecular-based diseases. An identified relationship is used with a computational distribution for scoring nodes in a network built from a set of experimentally-derived condition-specific genomic or proteomic profiles for the development of new treatments, diagnoses, biomarker identification, or target identification. The biomedical research tool provides for multi-directional data directionality that allows for detailed genotype to phenotype analysis for the evaluation of new drugs and treatments.05-28-2009
20120150520SELECTION OF OPTIMAL VIEWING ANGLE TO OPTIMIZE ANATOMY VISIBILITY AND PATIENT SKIN DOSE - A method is provided for monitoring the radiation dose in a body to be imaged using an X-ray imaging device comprising an X-ray emitting source, a detector, a processing unit and a display. The method comprises exposing the body to be imaged to radiation doses to acquire initial 2D images; computing a 3D model of the body in relation to the initial 2D images using the processing unit; applying a model of the interactions between matter and radiation to the 3D model of the body using the processing unit; calculating, using the processing unit, a dose map of the distribution of the accumulated radiation dose in the 3D model for parameters that define the conditions of X-ray exposure; and displaying the 3D model of the body oriented according to the position of the emitting source with the dose map.06-14-2012
20100191517METHOD FOR DETERMINING THREE-DIMENSIONAL STRUCTURES OF DYNAMIC MOLECULES - The present invention relates to a method for determining three-dimensional structures of molecules, particularly, but not exclusively, dynamic organic molecules of biological interest such as peptides, carbohydrates, proteins and drug molecules. A first aspect of the present invention provides a method for generating data representing an ensemble of three-dimensional structures of a molecule, the molecule comprising first and second atoms linked by at least one bond, said bond having an associated angle, and the angle varying to generate a plurality of three-dimensional structures of said molecule, the method comprising: receiving data representing said molecule, said data comprising data indicating variability of said angle; and generating an ensemble of structures such that the angle has an associated value selected based upon said variability. A second aspect of the present invention provides a computer implemented method for simulating the variability of the three-dimensional structure of a molecule.07-29-2010
20120046928AUTOMATED FIDUCIAL MARKER PLANNING SYSTEM AND RELATED METHODS - A system and method are described for determining candidate fiducial marker locations in the vicinity of a lesion. Imaging information and data are input or received by the system and candidate marker locations are calculated and displayed to the physician. Additionally, interactive feedback may be provided to the physician for manually selected or identified sites. The physician may thus receive automatic real time feedback for a candidate fiducial marker location and adjust or accept a constellation of fiducial marker locations. 3D renderings of the airway tree, lesion, and marker constellations may be displayed.02-23-2012
20120004894Systems, Methods and Apparatuses for Generating and using Representations of Individual or Aggregate Human Medical Data - Systems, methods, and apparatuses for generating and using representations of individual or aggregate human medical data Invention includes a computer system comprising a processor, a database that stores a plurality of patient medical data, a virtual patient module, and a device to display an image of the virtual patient to a user.01-05-2012
20120004893Methods for Enabling a Scalable Transformation of Diverse Data into Hypotheses, Models and Dynamic Simulations to Drive the Discovery of New Knowledge - The present invention relates to a method for the automatic identification of at least one informative data filter from a data set that can be used to identify at least one relevant data subset against a target feature for subsequent hypothesis generation, model building and model testing. The present invention describes methods, and an initial implementation, for efficiently linking relevant data both within and across multiple domains and identifying informative statistical relationships across this data that can be integrated into agent-based models. The relationships, encoded by the agents, can then drive emergent behavior across the global system that is described in the integrated data environment.01-05-2012
20110046935VIRTUAL SURGICAL TABLE - Disclosed herein is a virtual surgical table that that comprises a virtual anatomical model that can be manipulated or simulated via contact by the user and/or replica surgical tools. The table embodiment is useful for presurgical simulation, simulation during the surgery, teaching and training purposes. It is also useful for virtual surgery and dissection of human and other organisms.02-24-2011
20080234995System and method for optimizing animal production based on a target output characteristic - A system for generating optimized values for variable inputs to an animal production system. The system includes a simulator engine configured to receive a plurality of animal information inputs and generate a performance projection. At least one of the animal information inputs is designated as a variable input. The system further includes an enterprise supervisor engine configured to generate an optimized value for the at least one variable input based on an optimization criteria for at least one target output characteristic.09-25-2008
20100049491Method and System for Optimizing Minigenes and Peptides Encoded Thereby - The invention relates to the field of biology. In particular, the invention relates to a method and system for designing optimized multi-epitope vaccines having selected combinations of amino acid insertions at the junctions of the multi-epitope constructs so as to minimize the number of junctional epitopes and provide vaccines with increased immunogenicity.02-25-2010
20090070090Three-Dimensional Finite-Element Code for Electerosurgery and Thermal Ablation Simulations - A method for performing a simulation of an electrosurgical procedure is provided. The method includes the step of generating a three-dimensional model of a medium comprising one or more material regions representing a physical object or a region of the tissue. The method also includes the step of calculating one of an electrical energy solution and a thermal transport solution based on one of a mathematical model and finite element method. The method further includes the step of updating one or more property values of the material region in response to temperature changes based on an empirically derived value, wherein one of the electrical energy solution and the thermal transport solution is updated as a function of the updated property value.03-12-2009
20110166844Systems and Methods for Antibody Engineering - Methods, computer systems, and computer program products for antibody engineering. A variant set for an antibody of interest is constructed by identifying, using a plurality of rules, a plurality of positions in the antibody of interest and, for each respective position in the plurality of positions, substitutions for the respective position. The plurality of positions and the substitutions for each respective position in the plurality of position collectively define an antibody sequence space. A variant set comprising a plurality of variants of the antibody is selected. A property of all or a portion of the variants in the variant set is measured. A sequence-activity relationship is modeled between (i) one or more substitutions at one or more positions of the antibody of interest represented by the variant set and (ii) the property measured for all or the portion of the variants in the variant set. The variant set is redefined to comprise variants that include substitutions in the plurality of positions that are selected based on a function of the sequence-activity relationship.07-07-2011
20090204378PROTEIN CRYSTAL OF HUMAN CYTOCHROME P450 AROMATASE AND USES THEREOF - The present invention relates to a protein crystal of at least one binding site of a human aromatase. The present invention also relates to a fully processed human cytochrome P450 aromatase and a protein crystal thereof. The present invention further relates to methods of making and using the aromatase and the protein crystal thereof.08-13-2009
20130013280LOCALIZATION OF A RADIOACTIVE SOURCE WITHIN A BODY OF A SUBJECT - A system and method is provided for determining a route to a target. The system can include a display device, where the display device can be operable to display a graphical representation of a 3 dimensional model of a portion of a vasculature of a body. Further, the display device can be operable to allow a user to select a target location on the 3 dimensional model. Further still, the display device can be operable to automatically determine an intravascular route to the target location using the 3-dimensional model, or it can be operable to allow the user to manually determine an intravascular route to the target location using the graphical representation of the 3-dimensional model.01-10-2013
20120022845MONITORING OF THE RADIATION DOSE ACCUMULATED BY A BODY - The embodiments of the invention pertain to a method, a computer program, and an imaging system used to monitor the dose of radiation accumulated in a body or a part of a body being or having been subject to radiation exposure during an acquisition of at least one radiological image, comprising: processing the at least one radiological image to determine a 3D model of the body or of the part of a body; applying a theoretical model for the interactions between matter and radiation to the 3D model; storing in memory the parameters characteristic of the emission of radiation produced during the acquisition of the at least one radiological image; and calculating a distribution of an accumulated radiation dose in the body or the part of a body which has been the subject of the acquisition of the at least one radiological image.01-26-2012
20120022844PROBABILISTIC PARAMETER ESTIMATION USING FUSED DATA APPARATUS AND METHOD OF USE THEREOF - A probabilistic digital signal processor using data from multiple instruments is described. In one example, an analyzer is configured to: receive discrete first and second input data, related to a first and second sub-system of the system, from a first and second instrument, respectively. A system processor is used to fuse the first and second input data into fused data. The system processor optionally includes: (1) a probabilistic processor configured to convert the fused data into at least two probability distribution functions and (2) a dynamic state-space model, the dynamic state-space model including at least one probabilistic model configured to operate on the at least two probability distribution functions. The system processor iteratively circulates the at least two probability distribution functions in the dynamic state-space model in synchronization with receipt of updated input data, processes the probability distribution functions, and generates an output related to the state of the system.01-26-2012
20120158390USER MODEL CREATION - In some embodiments a controller is adapted to receive textual representation of content experienced by a user, to receive information about an interaction by the user with the content, and to determine a user model in response to the textual representation and the interaction. Other embodiments are described and claimed.06-21-2012
20120072197Balanced Phacoemulsification Tip - In various embodiments, a phacoemulsification tip may include a shaft and a cutting edge portion having at least a first and second bend. The geometry of the tip may be configured to result in a lateral displacement (u03-22-2012
20120130698System, Method and Computer Simulation Environment For In Silico Trials in Pre-Diabetes and Type 2 Diabetes - An electronic system is provided that simulates a glucose-insulin metabolic system of a T2DM or prediabetic subject, wherein the system includes a subsystem that models dynamic glucose concentration in a T2DM or prediabetic subject, including an electronic module that models endogenous glucose production (EGP(t)), or meal glucose rate of appearance (Ra(t>>, or glucose utilization (U(t)), or renal excretion of glucose (B(t)), a subsystem that models dynamic insulin concentration in said T2DM or prediabetic subject, including an electronic module that models insulin secretion (S(t)), an electronic database containing a population of virtual T2DM or prediabetic subjects, each virtual subject having a plurality of metabolic parameters, and a processing module that calculates an effect of variation of at least one metabolic parameter value on the glucose insulin metabolic system of a virtual subject by inputting the plurality of metabolic parameter values.05-24-2012
20120130697DETERMINING HEMODYNAMIC PERFORMANCE - A method for determining haemodynamic performance in a human or animal subject comprises receiving at a processor data representing haemodynamic variables measured from the subject over time. The haemodynamic variables comprise at least two of Systemic Perfusion Pressure (SPP), Systemic Vascular Resistance (SVR), Cardiac Output (CO), Heart Rate (HR) and Stroke Volume (SV). The data are processed to produce a display signal for causing a display device to present a visual mapping relating the haemodynamic variables according to the relationship SPP=CO×SVR and the visual mapping is displayed on a display device. The visual mapping may be corrected Heart Rate (HR) or include a second mapping which facilitates an adjustment to take account of HR.05-24-2012
20080300843RECOMBINANT MESO-ACTIVE THERMOSTABLE PROTEINS AND PROCESSES OF DESIGN AND BIOSYNTHESIS THEREOF - The present invention deals with examination of the alterability of part, or whole, of the surfaces of beta sheet-based protein structures, focusing especially on enzymes. The alteration is done by supplanting/transplanting a part, or whole, of the surface of one protein onto the surface of a homologous protein of superimposable polypeptide backbone, by exploiting the structural features of beta sheets to alter only the regions of the surface involved in substrate/ligand binding and catalysis. The transplantation involves replacement of a selected set of non-contiguous residues constituting the surface regions desired to be altered in one enzyme/protein, by a set of non-contiguous residues located at analogous positions in the other enzyme/protein, in a manner that is likely to facilitate folding and function of the new protein formed by combining residues from both enzymes/proteins. The present invention also deals with using this surface engineering approach to selectively combine enzyme/protein characteristics from different domains of life that are not ordinarily combined by natural evolution, such as the creation of novel proteins that retains the bulk of the thermostable scaffold of a thermophile enzyme onto which the active surface of a mesophile homolog is transplanted, so as to create a thermo-stable protein with meso-active functional characteristics of pH and temperature of optimal function.12-04-2008
20080300842Design, Synthesis and Assembly of Synthetic Nucleic Acids - Methods of synthesizing oligonucleotides with high coupling efficiency (>99.5%) are provided. Methods for purification of synthetic oligonucleotides are also provided. Instrumentation configurations for oligonucleotide synthesis are also provided. Methods of designing and synthesizing polynucleotides are also provided. Polynucleotide design is optimized for subsequent assembly from shorter oligonucleotides. Modifications of phosphoramidite chemistry to improve the subsequent assembly of polynucleotides are provided. The design process also incorporates codon biases into polynucleotides that favor expression in defined hosts. Design and assembly methods are also provided for the efficient synthesis of sets of polynucleotide variants. Software to automate the design and assembly process is also provided.12-04-2008
20080300841METHOD FOR INCLUSION OF PSYCHOLOGICAL TEMPERAMENT IN AN ELECTRONIC EMULATION OF THE HUMAN BRAIN - A method of emulating the human brain with its thought and rationalization processes is presented here, as well as a method of storing human-like thought. The invention provides for inclusion of psychological profiles, experience and societal position in an electronic emulation of the human brain. This permits a realistic human-like response by that emulation to the people and the interactive environment around it.12-04-2008
20120158391Pathway recognition algorithm using data integration on genomic models (PAGADIGM) - A patient sample specific dynamic pathway map is constructed on the basis of measured patient data and a probabilistic pathway model that is based on attributes for pathway elements, wherein some attributes for pathway elements are known a priori, where other attributes for the pathway elements are assumed, and where the pathway elements are cross-correlated and assigned an influence level for at least one pathway. Preferred dynamic pathway maps provide context of the measured patient data with respect to a selected reference pathway activity.06-21-2012
20110066414System and Method of Computing and Rendering the Nature of Molecules,Molecular Ions, Compounds and Materials - A method and system of physically solving the charge, mass, and current density functions of pharmaceuticals, allotropes of carbon, metals, silicon molecules, semiconductors, boron molecules, aluminum molecules, coordinate compounds, and organometallic molecules, and tin molecules, or any portion of these species using Maxwell's equations and computing and rendering the physical nature of the chemical bond using the solutions. The results can be displayed on visual or graphical media. The display can be static or dynamic such that electron motion and specie's vibrational, rotational, and translational motion can be displayed in an embodiment. The displayed information is useful to anticipate reactivity and physical properties. The insight into the nature of the chemical bond of at least one species can permit the solution and display of those of other species to provide utility to anticipate their reactivity and physical properties.03-17-2011
20120123760METHOD FOR DESIGNING AN APTAMER - Disclosed in this specification is a method for identifying at least one aptamer that can bind to a bio-molecular target. The aptamer is designed in silico based on the structure of the target molecule. The process includes the steps of determining a first seed residue and growing an oligomer, one residue at a time, while maximizing the entropy of target-oligomer complex or minimizing the binding energy after the addition of each oligomer.05-17-2012
20090132219Apparatus and Method for Validating a Computer Model - An apparatus and method for validating a computer model is described. In one embodiment, a computer-readable medium comprises instructions to associate a set of configurations of a computer model with a stimulus-response test, each configuration of the set of configurations representing a different model scenario, the stimulus-response test defining a modification to each configuration of the set of configurations. The computer-readable medium also comprises instructions to apply the stimulus-response test to the set of configurations to produce a simulated response for each configuration of the set of configurations and instructions to compare the simulated responses for the set of configurations with an expected response to the stimulus-response test.05-21-2009
20100250218SYSTEM AND METHOD FOR PREDICTION OF DRUG METABOLISM, TOXICITY, MODE OF ACTION, AND SIDE EFFECTS OF NOVEL SMALL MOLECULE COMPOUNDS - A system is provided for the prediction of human drug metabolism and toxicity of novel compounds. The system enables the visualization of pre-clinical and clinical high-throughput data in the context of a complete biological organism. Substructure and similarity structure searches can be performed using the underlying databases of xenobiotics, active ligands, and endobiotics. The system also has an analytical component for the parsing, integration, and network analysis of genomics, proteomics, and metabolomics high-throughput data. From this information, the system further generates networks around proteins, genes and compounds to assess toxicity and drug-drug interactions.09-30-2010
20100250217Docking Pose Selection Optimization via NMR Chemical Shift Perturbation Analysis - Using NMRScore to generate an RMSD and evaluating whether the RMSD is below 1 ppm, in order to indicate that a docking software generated pose is a good match with the experimental assessment of a paradigm protein target and paradigm ligand, and therefore that the pose will be useful and accurate for the same target and similar ligands, or similar targets and the same ligands.09-30-2010
20130013279APPARATUS AND METHOD FOR STRUCTURE-BASED PREDICTION OF AMINO ACID SEQUENCES - The present invention provides methods and apparatus for analyzing a protein structure.01-10-2013
20120271610STOCHASTIC SIMULATION OF MULTI-LANGUAGE CONCURRENT SYSTEMS - A common framework provides for concurrently simulating a broad range of modeling languages with an arbitrary stochastic simulation method. The common framework is instantiated to each modeling language by defining a species function and a reactions function. The species function converts a model of the modeling language to a set of species, and the reactions function computes a set of possible reactions from a given set of species. The common framework is instantiated to a particular simulation method by defining three functions: one for computing the next reaction, another for computing the reaction activity from an initial set of reactions and species populations, and another for updating the reaction activity as the species populations change over time. Accordingly, the common framework compiles a set of species and possible reactions, dynamically updates the set of possible reactions, and selects the next reaction in an iterative cycle.10-25-2012
20120084064Model-based systems and methods for analyzing and predicting outcomes of vascular interventions and reconstructions - Systems and methods for analyzing and predicting treatment outcomes of medical procedures such as vascular interventions and reconstructions are disclosed. An illustrative system for analyzing and predicting therapeutic outcomes of medical procedures comprises a relational database configured for classifying and storing patient specific input data for multiple patients, a fluid-solid interaction biomechanical model configured for performing a biomechanics simulation and generating biomechanics data, and a graphical user interface.04-05-2012
20120221310SYSTEM FOR ANALYZING PHYSIOLOGICAL SIGNALS TO PREDICT MEDICAL CONDITIONS - A signal representing a physiological state of a patient is sampled to obtain a time lagged dataset that represents a segment of the signal. A spectral analysis of the dataset is conducted to obtain a corresponding frequency domain dataset, followed by a multiple regression analysis using the frequency domain set as one variable and a signal representative of a medical event as the other variable. The result of the multiple regression analysis is used to create a model for predicting the medical event.08-30-2012
20120221309DEVICE AND METHOD FOR REGISTERING 3D MEASUREMENT DATA OF JAW MODELS IN A BASAL SKULL-REFERENCED COORDINATE SYSTEM WITH THE AID OF A COMPUTER-SUPPORTED REGISTRATION SYSTEM - An apparatus and method for use in the field of orthodontia and dental prosthodontics for registering 3D measurement data of a jaw model having a lower jaw model and an upper jaw model in a cranial-referenced coordinate system. The method and apparatus establish a spatial relationship between a cranium and the measurement data of the jaw models obtained from optical scanners. This is implemented by determining the spatial relationship between a paraocclusal spoon or a bite fork and jaw joints using a computer aided registering system, and by determining the spatial relationship between the paraocclusal spoon or the bite fork and the jaw model which provides locatable structures whose spatial relationship to the paraocclusal spoon or the bite fork is known.08-30-2012
20110184712PREDICTIVE MODELS AND METHODS FOR DIAGNOSING AND ASSESSING CORONARY ARTERY DISEASE - Biomarkers useful for diagnosing and assessing the extent of coronary artery disease (CAD) are provided, along with kits for measuring their expression. The invention also provides predictive models, based on the biomarkers, as well as computer systems, and software embodiments of the models for scoring and optionally classifying samples. In a preferred embodiment, the biomarkers are organized into clustered groups. The expression level of the biomarkers within a group are highly correlated to each other in normal and disease states. Expression values of genes chosen from each of two, three, four or five of the clustered gene groups, A, B, C, D, E may be used. Alternatively, expression values of genes chosen from the groups are combined into a metagene. Preferred biomarkers include S100A12, S100A8, S100A9, BCL2A1, and F5 (group A); XK, P62, and FECH (group B); TUBB2 (group C); IFNG, PDGFB, VSIG4, and TNF (group D); CSF3R, TLR5, CD46, and NCF1 (group E); S100A12, S100A9, BCL2A1, TXN and CSTA (group I); OLIG1, OLIG2, ADORA3, CLC, and SLC29A1 (group II); and CBS and ARG1 (group IV).07-28-2011
20120259607Scar-Less Multi-Part DNA Assembly Design Automation - The present invention provides a method of a method of designing an implementation of a DNA assembly. In an exemplary embodiment, the method includes (1) receiving a list of DNA sequence fragments to be assembled together and an order in which to assemble the DNA sequence fragments. (2) designing DNA oligonucleotides (oligos) for each of the DNA sequence fragments, and (3) creating a plan for adding flanking homology sequences to each of the DNA oligos. In an exemplary embodiment, the method includes (1) receiving a list of DNA sequence fragments to be assembled together and an order in which to assemble the DNA sequence fragments, (2) designing DNA oligonucleotides (oligos) for each of the DNA sequence fragments, and (3) creating a plan for adding optimized overhang sequences to each of the DNA oligos.10-11-2012
20100305929SYSTEMS AND METHODS FOR CELL-CENTRIC SIMULATION AND CELL-BASED MODELS PRODUCED THEREFROM - Systems and methods are provided herein that enable computer-implemented modeling of a biological event. Cell-based models produced from such systems and methods are also disclosed. In some embodiments, systems and methods are provided for cell-centric simulation with accommodating environment feedback. In one embodiment, a computer-implemented method of modeling a biological event can include receiving configurable simulation information and initializing an ontogeny engine to an initial step boundary in accordance with the configurable simulation information. The method can also include advancing the ontogeny engine from a current step boundary to a next step boundary in accordance with the configurable simulation information and the current step boundary. The advancing can include performing a stepCells function. The method can further include continuing the advancing until a halting condition is encountered. In some embodiments, simulation of biological events includes modeling biological processes, such as development of multicellular tissue and differentiation of pluripotent cells.12-02-2010
20100010797METHOD FOR DETERMINING THE EFFECTS OF EXTERNAL STIMULI ON BIOLOGICAL PATHWAYS IN LIVING CELLS - The present invention describes methods for carrying out experiments on living cells, including making measurements of the operation transcriptional regulatory processes and indicators of the kinds of processes operating in the cell in response to external stimuli. Image analysis allows for gathering data concerning the flow of information through a cell's genomic regulatory network as it is executing a programmatic change in its activities as a function of said stimuli. The method also allows collection of data of the results of the information-processing in the cell by observing the decisions the cell makes when modulating cellular process activities.01-14-2010
20100241411Methods of Calculating Differences of Binding Affinities Between Congeneric Pairs of Ligands by Way of a Displaced Solvent Functional - Described is a technique to exhaustively enumerate the thermodynamic properties of the water molecules solvating the active site of a protein in its apostate and calculate the relative binding affinities of congeneric compounds that bind to this protein. The subject matter includes sampling the configurations of the solvating water in the active site; extracting the thermodynamic information about the solvating water from these configurations by clustering the observed water configurations into regions of high water occupancy (e.g., “hydration sites”), computing the average system interaction energies of water molecules occupying the various hydrations sites, computing excess entropies of water molecules occupying the hydration sites; constructing a 3 dimensional hydration thermodynamics map of the protein active site; and computing relative binding affinities of congeneric ligands based on the principle that tighter binding ligands can displace more entropically structured and energetically depleted hydration sites from the active site into the bulk fluid.09-23-2010
20120259608METHOD FOR TUNING PATIENT-SPECIFIC CARDIOVASCULAR SIMULATIONS - Computational methods are used to create cardiovascular simulations having desired hemodynamic features. Cardiovascular modeling methods produce descriptions of blood flow and pressure in the heart and vascular networks. Numerical methods optimize and solve nonlinear equations to find parameter values that result in desired hemodynamic characteristics including related flow and pressure at various locations in the cardiovascular system, movements of soft tissues, and changes for different physiological states. The modeling methods employ simplified models to approximate the behavior of more complex models with the goal of to reducing computational expense. The user describes the desired features of the final cardiovascular simulation and provides minimal input, and the system automates the search for the final patient-specific cardiovascular model.10-11-2012
20120259606Novel Kinase Inhibition Models and Their Uses - The present invention provides a c-Met inhibition model. The invention further provides a method to derive inhibition models for other kinases. The kinase inhibition models of the present invention can be used to design or screen for inhibitors for kinases.10-11-2012
20090018809COMPUTER GENE - The invention relates to the field of bioinformatics and in particular of biomolecular computing (‘DNA computing’). “Computational genes” comprising nucleic acids are provided which, via autonomous spontaneous self-assembly, can be produced in vivo by means of a biomolecular finite automaton.01-15-2009
20120232874BIOLOGICAL DATA NETWORKS AND METHODS THEREFOR - A system and method for facilitating simulation of a biological process within a network including a plurality of nodes is disclosed herein. The method includes receiving, at a first of the plurality of nodes, processing results generated at a second of the plurality of nodes. The method further includes performing, with respect to at least the processing results, a function related to the simulation of the biological process and thereby generating additional processing results. In addition, the method includes sending the additional processing results to a third of the plurality of nodes.09-13-2012
20120239365Model For Glutamate Racemase inhibitors and Glutamate Racemase Antibacterial Agents - Antibiotics that target the enzyme glutamate racemase are disclosed. Ligand based glutamate racemase inhibitors are developed using software to extract a pharmacophore model from a group of known glutamate racemase inhibitors. These compounds are assayed against 09-20-2012
20120239364METHOD FOR (SEMI-) AUTOMATIC DENTAL IMPLANT PLANNING - A method for (semi-) automatic dental implant planning (A) is described including (a) creating 3D models of a tooth setup (b) and/or creating 3D models of parts of the jaw, (c) detecting zones in the jaw where implants can (or optionally cannot be placed), (d) detecting restorative elements in the tooth setup, (e) determining candidate implant dimensions, positions, orientations and configurations, (f) obtaining implant plans, (g) comparing implant plans to each other or to given criteria, (h) selecting or improving an implant plan.09-20-2012
20120239367METHOD AND SYSTEM FOR EVALUATING A POTENTIAL LIGAND-RECEPTOR INTERACTION - A method for evaluating a potential interaction between a ligand and a receptor is disclosed. The method comprises the step of: evaluating the potential interaction between the ligand and the receptor based on a predictive model trained using a database. The database describes the affinity with the receptor of a source ligand, and a plurality of additional ligands derived from the source ligand.09-20-2012
20110131029CRYSTAL STRUCTURE OF THE INFLUENZA VIRUS POLYMERASE PAC-PB1N COMPLEX AND USES THEREOF - Provided are the expression method of influenza virus polymerase PAc-PB106-02-2011
20120265514DESIGN OF MOLECULES - A method for computational drug design using an evolutionary algorithm, comprises evaluating virtual molecules according to vector distance (VD) to at least one achievement objective that defines a desired ideal molecule. In one method the invention comprises defining a set of n achievement objectives (O10-18-2012
20120265513METHODS AND SYSTEMS FOR DESIGNING STABLE PROTEINS - Methods and computing systems for generating a protein stability lookup table and a predictive model. These methods and systems are useful for predicting the thermal stability of a protein sequence and for predicting mutations that may enhance the thermal stability of a protein given its amino acid sequence and/or three dimensional structure. The protein stability lookup table and a predictive model are based on a combination and analysis of related protein sequences and, where available, protein structure data, and relative stability data from mesophilic and thermophilic organisms and experimentally determined stability changes of wild type proteins and their mutants.10-18-2012
20120323546Method For Pre-Operative Visualization Of Instrumentation Used With A Surgical Guide For Dental Implant Placement - A surgical guide to be placed in a patient's mouth. The patient's mouth is scanned to obtain surgical-region scan data at a region where an implant is to be located. The patient's mouth is also scanned in the opened position to acquire dental conditions opposite from the surgical region so as to obtain opposing-condition scan data. A virtual model is developed using the surgical-region scan data and the opposing-condition scan data. Using the virtual model, a surgical plan is developed that includes the location of the implant to be installed in the patient. A virtual surgical guide is also developed based on the surgical plan. The dimensions of instrumentation to be used with the surgical guide are checked to ensure they will fit within the mouth by use of the opposing-condition scan data. After checking, final surgical-guide manufacturing information is obtained for manufacturing the surgical guide.12-20-2012
20120323547METHOD FOR INTRACRANIAL ANEURYSM ANALYSIS AND ENDOVASCULAR INTERVENTION PLANNING12-20-2012
20120323545DEVICE FOR PLANNING A TRANSCATHETER AORTIC VALVE IMPLANTATION - A device for planning a transcatheter aortic valve implantation is disclosed. The device includes a segmentation module for segmenting the aorta ascendens with the aorta annulus, the aortic valves and the coronary ostia as well as the left ventricle; a determination module, which determines on the basis of the segmented data the aorta annulus plane and from this one or more angiography projections for setting an angiography device, with which the aorta annulus and the coronary ostia are able to be detected in the optimum manner for positioning the transcatheter heart valve; and an output module that outputs this information. The proposed device supports the user in the planning of a transcatheter aortic valve implantation.12-20-2012
20120271611Modeling Wound Healing - Provided are methods of simulating tissue healing. The methods comprise using a mechanistic computer model of the interrelated effects of inflammation, tissue damage or dysfunction and tissue healing to predict an outcome of healing of damaged tissue in vivo, thereby predicting the outcome of healing of damaged tissue in vivo. Implementations of these methods on a computing device also are provided. Non-limiting examples of diseases and/or conditions that are amenable to simulation according to the methods described herein include: a diabetes, diabetic foot ulcers, necrotizing enterocolitis, ulcerative colitis, Crohn's disease, inflammatory bowel disease, restenosis (post-angioplasty or stent implantation), incisional wounding, excisional wounding, surgery, accidental trauma, pressure ulcer, stasis ulcer, tendon rupture, vocal fold phonotrauma, otitis media and pancreatitis.10-25-2012
20120271613INTRA-OPERATIVE SURGICAL PLAN CHANGING - A system and computer implemented method for use in determining the deviation-of an intra-operative position of an orthopaedic implant from a planned position is described. The position of the orthopaedic implant in the bone is defined by a plurality of implant position parameters. The distance of a plurality of anatomical features in a three dimensional model of the surface of the bone relative to a model of the implant at a first position is calculated. The first position corresponds to a first set of values for the implant position parameters. The distance of the plurality of anatomical features to a model of the implant at a second position in the bone is calculated. The second position corresponds to a second set of values for the implant position parameters, and the second position is different to the first position.10-25-2012
20120271612PREDICTIVE MODELING - This disclosure relates to predictive modeling. Systems and methods can be utilized extract data from a plurality of data sources to provide a set of predictor variables. The predictor variables can be analyzed to generate a model having a portion of the predictor variables with weighted coefficients according to an event or outcome for which the model is generated. A prediction tool can employ the model to predict the even or outcome for one or more patients.10-25-2012
20110060577Methods Of Use Of A Nonwoven Keratinous Tissue Mimic - In one embodiment, a method of modeling interactions with keratinous tissue may comprise the steps of providing a nonwoven mimic and performing an act on the mimic as may be performed on keratinous tissue. The nonwoven mimic has a surface energy representative of keratinous tissue. In another embodiment, a method of modeling interactions with keratinous tissue may comprise the steps of: providing a mimic comprising from about 60% or greater rayon, from about 40% or less polyester, and a surface energy representative of keratinous tissue; and performing an act on the mimic as may be performed on keratinous tissue. The mimic is preferably a nonwoven mimic.03-10-2011
20110060576Method and System for Computational Modeling of the Aorta and Heart - A method and system for generating a patient specific anatomical heart model is disclosed. A sequence of volumetric image data, such as computed tomography (CT), echocardiography, or magnetic resonance (MR) image data of a patient's cardiac region is received. A multi-component patient specific 4D geometric model of the heart and aorta estimated from the sequence of volumetric cardiac imaging data. A patient specific 4D computational model based on one or more of personalized geometry, material properties, fluid boundary conditions, and flow velocity measurements in the 4D geometric model is generated. Patient specific material properties of the aortic wall are estimated using the 4D geometrical model and the 4D computational model. Fluid Structure Interaction (FSI) simulations are performed using the 4D computational model and estimated material properties of the aortic wall, and patient specific clinical parameters are extracted based on the FSI simulations. Disease progression modeling and risk stratification are performed based on the patient specific clinical parameters.03-10-2011
20110238396MOLECULAR STRUCTURE PREDICTION SYSTEM, METHOD, AND PROGRAM - A molecular structure prediction method for predicting the most stable molecular structure of a molecule based on results obtained by a plurality of appraisal systems includes steps of: generating a plurality of data sets by re-sampling from a training data set, determining a parameter set for each data set that has been generated to obtain a plurality of parameter sets, using the plurality of parameter sets to calculate energy of a molecule for molecular data for prediction, taking a consensus based on the results of a plurality of energies or three-dimensional structures, and predicting the most stable molecular structure based on the results of consensus.09-29-2011
20110238395METHOD FOR GENERATING MODEL FOR PREOPERATIVE SIMULATION - The invention is directed to the provision of a method for generating a model for a preoperative simulation, wherein the method includes: a first step of constructing volume data for necessary organs by acquiring geometrical information from a medical image; a second step of manipulating the volume data to reposition and reorient an operator-designated organ to achieve a position and orientation appropriate for a surgical operation; a third step of generating a blood-vessel model, depicting a blood vessel to be joined to the designated organ, so as to match the position and orientation of the designated organ; a fourth step of generating volume data by forming a fat model of prescribed thickness around a prescribed organ contained in the earlier constructed volume data, after the blood-vessel model has been joined to the designated organ; a fifth step of thereafter meshing the organ represented by the generated volume data; a sixth step of manipulating a template model of a prescribed shape by using a template, and arranging the template model around the generated blood-vessel model; and a seventh step of generating a line-segment model based on the thus arranged template model.09-29-2011
20100241412Methods of Calculating Differences of Binding Affinities Between Congeneric Pairs of Ligands by Way of a Displaced Solvent Functional - Described is a technique to exhaustively enumerate the thermodynamic properties of the water molecules solvating the active site of a protein in its apostate and calculate the relative binding affinities of congeneric compounds that bind to this protein. The subject matter includes sampling the configurations of the solvating water in the active site; extracting the thermodynamic information about the solvating water from these configurations by clustering the observed water configurations into regions of high water occupancy (e.g., “hydration sites”), computing the average system interaction energies of water molecules occupying the various hydrations sites, computing excess entropies of water molecules occupying the hydration sites; constructing a 3 dimensional hydration thermodynamics map of the protein active site; and computing relative binding affinities of congeneric ligands based on the principle that tighter binding ligands can displace more entropically structured and energetically depleted hydration sites from the active site into the bulk fluid.09-23-2010
20120278055MOTION CORRECTION IN RADIATION THERAPY - A diagnostic imaging system includes a tomographic scanner 11-01-2012
20120278054METHOD FOR AFFINITY SCORING OF PEPTIDE/PROTEIN COMPLEXES - The present invention is related to a quantitative structure-based affinity scoring method for peptide/protein complexes. More specifically, the present invention comprises a method that operates on the basis of a highly specific force field function (e.g. CHARMM) that is applied to all-atom structural representations of peptide/receptor complexes. Peptide side-chain contributions to total affinity are scored after detailed rotameric sampling followed by controlled energy refinement. The method of the invention further comprises a de novo approach to estimate dehydration energies from the simulation of individual amino acids in a solvent box filled with explicit water molecules and applying the same force field function as used to evaluate peptide/receptor complex interactions.11-01-2012
20120330635SYSTEM AND METHOD FOR CORRECTING DATA FOR DEFORMATIONS DURING IMAGE-GUIDED PROCEDURES - Systems and methods for collecting and processing physical space data for use while performing an image-guided surgical (IGS) procedure are provided. The system and method includes obtaining a computer model of a non-rigid structure of interest in a patient and performing a rigid alignment of the computer model and surface data in a patient space associated with at least a portion of the non-rigid structure. The system and method also include computing a deformation of the computer model that provides a non-rigid alignment of the computer model and surface data, the deformation computed using a set of boundary conditions defined for each node of the computer model based on the rigid alignment and a kernel function. Additionally, the system and method can include displaying data for facilitating the IGS procedure based on the deformation.12-27-2012
20110295582Crystal Structure of Queuosine Biosynthesis Enzyme QueF Bound to Substrate PreQ0 - This invention provides for the design of novel nitrile oxidoreductases that can be used as biocatalysts for industrial chemical processes and; and thus, provide attractive alternatives to traditional chemical synthesis. Generally, this technology relates to crystal structures of nitrile oxidoreductases, and of crystal structures of nitrile oxidoreductases complexed with substrates and co-factors. For example, the invention provides for the crystalline structure of the nitrile oxidoreductase, QueF, as well as for a computer-readable medium having QueF crystal structure information stored thereon.12-01-2011
20120290278PROCESS, COMPUTER-ACCESSIBLE MEDIUM AND SYSTEM FOR OBTAINING DIAGNOSIS, PROGNOSIS, RISK EVALUATION, THERAPEUTIC AND/OR PREVENTIVE CONTROL BASED ON CANCER HALLMARK AUTOMATA - The present disclosure relates to exemplary embodiments of method, computer-accessible medium, system and software arrangements for, e.g., Cancer Hallmark Automata, a formalism to model the progression of cancers through discrete phenotypes (so-called hallmarks). The precise computational model described herein includes the automatic verification of progression models (e.g., consistency, causal connections, etc.), classification of unreachable or unstable states (e.g., “anti-hallmarks”) and computer-generated (individualized or universal) therapy plans. Exemplary embodiments abstractly model transition timings between hallmarks as well as the effects of drugs and clinical tests, and thus allows formalization of temporal statements about the progression as well as notions of timed therapies. Certain exemplary models discussed herein can be based on hybrid automata (e.g., with multiple clocks), for which relevant verification and planning algorithms exist.11-15-2012
20100185429Prognostic method - A method for prognosing recurrence of prostate cancer (PCa) in a subject following prostatectomy using the outcomes of selected single nucleotide polymorphisms (SNPs) and clinical variables. A method for genotyping PCa associated genetic variations comprising use of a DNA microarray. A microarray for use in the described methods.07-22-2010
20100198571Individualized Ranking of Risk of Health Outcomes - An apparatus for creating a graphical representation of personalized healthcare information is provided. A data processing apparatus that has one or more processors is disclosed. Query component logic receives a request comprising patient identification information. Query execution logic, based on the patient information determines a first metric and one or more intervention metrics. The first metric represents a current health related metric for the patient, while the intervention metrics represent a predicted health related metric, assuming that the patient conforms to the intervention. A graphical representation of the two metrics is created.08-05-2010
20100169063System and Method of Modeling the Pharmacodynamic Effect to Drugs Delivered to a Patient - A system and method of modeling the pharmacodynamic effect of drugs delivered to a patient. The system includes a model database comprising a first drug interaction model and a second drug interaction model. A processing unit determines a first pharmacodynamic effect and a second pharmacodynamic effect and using a dominance rule to compare the first pharmacodynamic effect and a second pharmacodynamic effect to determine a dominant interaction model. A graphical display connected to the processing unit presents the determined dominant interaction model. The method includes the steps of obtaining first, second, and third drug concentrations, applying a first model that models a first pharmacodynamic effect, applying a second model that models a second pharmacodynamic effect and comparing the first pharmacodynamic effect to the second pharmacodynamic effect to determine which of the first model and the second model is the dominant pharmacodynamic model, and presenting the determined dominant pharmacodynamic model on a graphic display.07-01-2010
20110161062METHOD AND DEVICE FOR DECONTAMINATING A METALLIC SURFACE - A model of evolution of a signal of a chromatographic column is formed, then inversed as a function of the measured signals, to calculate solute concentrations by using the entire signal. The model is based on equations that govern the transport of solutes in the column as a function of various physical parameters, which can be re-evaluated. The method can be used for searching and measuring rare components, such as proteins, in liquid biological samples.06-30-2011
20130024175METHODS FOR MODELING AND ANALYSIS OF INTERFACE BETWEEN POINT PATTERNS - Methods, systems, and articles of manufacture are described that facilitate computation of a model of an interface between two molecules and analyzing characteristics of the interface. The complex of the two molecules can be modeled, and location of the atoms on the surface can be determined. One of the two molecules can be similarly modeled, and the location of the atoms on the surface can be determined. An interface model utilizing atoms that are located in the same place on the complex and the molecule can be calculated. Properties of the interface can be utilized to analyze the interaction between the two molecules.01-24-2013
20080294403Systems and Methods for Reconstructing Gene Networks in Segregating Populations - The reconstruction of genetic networks in mammalian systems is one of the primary goals in biological research, especially as such reconstructions relate to elucidating not only common, polygenic human disease, but living systems more generally. The present invention provides novel gene network reconstruction algorithms that utilize naturally occurring genetic variations as a source of perturbations to elucidate the networks. The algorithms incorporate relative transcript abundance and genotypic data from segregating populations by employing a generalized scoring function of maximum likelihood commonly used in Bayesian network reconstruction problems. The utility of these novel algorithms can be demonstrated via application to gene expression data from a segregating mouse population. The network derived from such data using the novel network reconstruction algorithm is able to capture causal associations between genes that result in increased predictive power, compared to more classically reconstructed networks derived from the same data.11-27-2008
20080215301Method and apparatus for predicting protein structure - A method of determining predicting putative contacting sites of a target protein is disclosed. The method uses a substitution matrix for calculating contact probabilities for pairs of columns in a sequence alignment containing the amino acid sequence of the target protein. The contact probabilities can also be used for predicting the three-dimensional structure of the protein. The putative contacts and/or three-dimensional structure typically correspond to the hydrophobic core of the target protein.09-04-2008
20080228455Reverse Bioengineering a Vascular tree - Success of in vitro vasculogenesis has been limited to structuring relatively small leaky capillary networks and short scaffold-supported vascular-like, tubes that have in some cases, stimulated limited vasculogenesis in vivo. These attempts lacked the structural design millions of years of evolution has established in creating vascular structures. Many mathematical models have taken an approach at computing the anastomosis and patterning found in the vascular branching systems present tissue structures. These attempts at modeling a vascular tree system fall far short in being able to reproduce the structural specificity need for specialized tissue structure such as lung and kidney tissues. I define this vascular tree network as a blood vascular system that includes the capillary bed system, which supplies blood to and from a tissue structure.09-18-2008
20080221848Biomolecular Structure Determination Involving Swarm Intelligence - A method and computer program for determining biomolecular structures from experimental data that includes ambiguous experimental observables comprising the steps of: creating a swarm of molecular structure generators; having the ability to allow the communication between said generators via a global set of molecular restraints; determining said molecular structure in a cooperative manner by using self-optimization of a multi-agent system. In one embodiment, NOESY spectra are used to calculate inter-proton distances of the biomolecular structure and said distances are used as molecular restraints. Moreover, the method involves restrained molecular dynamics simulations, e.g. by simulated annealing.09-11-2008
20080221847METHOD OF DEVELOPING A PHARMACOKINETIC PROFILE OF A XENOBIOTIC DISPOSITION IN A MAMMALIAN TISSUE - There is provided a method of developing a pharmacokinetic profile of an xenobiotic disposition in a mammalian tissue, the method comprising inputting mammalian-specific data into a physiologically based pharmacokinetic (PBPK) model, where said mammalian-specific data comprises tansporter properties related data, where said transporter properties related data reflect genetic and environmental factors associated with said mammalian; inputting xenobiotic-specific data into said PBPK model; and simulating, using said PBPK model, a pharmacokinetic profile of said xenobiotic disposition as a function of said inputted data.09-11-2008
20130179138SYSTEMS AND METHODS FOR USING ADVERSE EVENT DATA TO PREDICT POTENTIAL SIDE EFFECTS - The present disclosure describes systems and methods for predicting a likely side effect profile for even new, untested medications. A predicted side effect profile may be generated based on intersections of side effect profiles of other medications that affect the same or related molecular entities, such as the nearby target proteins, involve the same pathways, or are otherwise similarly related. To generate a predicted side effect profile for a new drug targeting a novel or previously un-targeted protein target, an analyzer may query an adverse event database for records pertaining to patients who have taken drugs or combinations of drugs that target or affect molecular entities in the vicinity of the novel target within a global molecular entity graph, and, in some embodiments, may retrieve a plurality of adverse event records and generate an intersection of side effects associated with related targets to predict likely side effects for the novel target.07-11-2013
20130179139METHOD FOR APPLYING VIRTUAL PERSON AND PORTABLE ELECTRONIC DEVICE FOR USE WITH THE METHOD - Provided is a method for applying a virtual person and for use with a portable electronic device connected to a cloud server via a communication chain, wherein the cloud server executes a virtual person artificial intelligence simulation program. The portable electronic device displays a virtual person and detects and collects a user's biological feature signals and use status signals by a plurality of sensors of the portable electronic device, and then sends the signals to the cloud server. The virtual person artificial intelligence simulation program processes the signals and then outputs a plurality of response signals in response to the signals. The portable electronic device outputs and displays a plurality of animation frames and/or sounds which are performed by the virtual person and/or outputs vibrations in response to the response signals.07-11-2013
20120253771Syetem for Optimizing Treatment Strategies Using a Patient-Specific Rating System - The combined effects of a selected treatment option on multiple causes of morbidity or mortality are simulated for evaluation. Various patient-specific and model-specific parameters, including parameters related to diseases to be modeled, are used in modeling incidence and mortality rates for each disease. These disease-specific models are used for defining a set of health states having initial probabilities, which are used to formulate a transition matrix used in matrix calculation to obtain output matrix Q. If additional cycles are needed, the transition matrix is updated and matrix calculation is performed using the updated transition matrix. Otherwise, final output matrix Q is utilized for calculation of values needed for determining an overall treatment score. The calculated values and/or values from Q are combined with patient or numeric scores from other treatment choice-related domains to obtain a raw score that is used to produce a patient-specific score for a selected treatment option.10-04-2012
20130090909Method And System For Functional Evolutionary Assessment Of Genetic Variants - Embodiments of the present invention provide methods and systems that perform comprehensive assessment of genetic variation presenting in a personal genome and provide quantitative diagnosis of the impact of each variant on physiological function and patient health.04-11-2013
20130090908METHOD AND SYSTEM FOR NETWORK MODELING TO ENLARGE THE SEARCH SPACE OF CANDIDATE GENES FOR DISEASES - With the advent of low cost, high-throughput whole genome sequencing (“next generation sequencing”), tools are available to assay human genetic variation contributing to inherited disease syndromes. A method is disclosed for prioritization of genetic variants, and identification of disease genes, using network modeling of gene associations.04-11-2013
20130103375METHOD FOR ASSISTING IN DETERMINING STRENGTH OF FIXING CRANIOFACIAL SURGERY PATCH AND COMPUTER USING THE SAME - A computer for assisting in determining the strength of fixing a craniofacial surgery patch comprises a storage device for storing a medical image and a central processing unit, the central processing unit carry out a method for assisting in determining the strength of fixing a craniofacial surgery patch. The method includes obtaining a medical image; establishing a skull model according to the medical image; receiving a patch setting command, and disposing a patch model on the skull model according to the patch setting command; generating an internal grid mesh data of the skull model disposed with the patch model; executing a biomechanical simulation of a patch structural strength according to the skull model disposed with the patch model, the internal grid mesh data and a boundary condition; and providing a stress distribution, a strain distribution or a displacement distribution of the patch model to assist in determining.04-25-2013
20080228457METHODS, COMPUTER-ACCESSIBLE MEDIUM, AND SYSTEMS FOR GENERATING A GENOME WIDE HAPLOTYPE SEQUENCE - Methods, computer-accessible medium, and systems for generating a genome wide probe map and/or a genome wide haplotype sequence are provided. In particular, a genome wide probe map can be generated by obtaining a plurality of detectable oligonucleotide probes hybridized to at least one double stranded nucleic acid molecule cleaved with at least one restriction enzyme, and detecting the location of the detectable oligonucleotide probes. For example, genome wide haplotype sequence can be generated by analyzing at least one genome wide restriction map in conjunction with at least one genome wide probe map to determine distances between restriction sites of the at least one genome wide restriction map and locations of detectable oligonucleotide probes of the at least one genome wide probe map and defining a consensus map indicating restriction sites based on each of the at least one genome wide restriction map and locations of detectable oligonucleotide probes based on each of the at least one genome wide probe map.09-18-2008
20130144584NETWORK MODELING FOR DRUG TOXICITY PREDICTION - A computational systems pharmacology framework consisting of statistical modeling and machine learning based on comprehensive integration of systems biology data, including drug target data, protein-protein interaction (PPI) networks, and gene ontology (GO) annotations, and reported drug side effects, can predict drug toxicity or drug adverse reactions (ADRs). Biomolecular network and gene annotation information can significantly improve the predictive accuracy of ADR of drugs under development. The use of PPI networks can increase prediction specificity, and the use of GO annotations can increase prediction sensitivity.06-06-2013
20130144585APPARATUS AND METHOD FOR IDENDIFICATON OF PROTEIN MODIFICATION - Provided is an apparatus for identification of a protein modification which identifies the protein modification, including: a fragment ion mass pattern producing unit for cutting a peptide modifier sequence with a virtual enzyme and producing a fragment ion mass pattern including mass information of the virtual fragment ions, a protein modification database for storing protein modification information including a kind and mass of protein modification, and a mass shift identifying unit for extracting a plurality of mass shift classes including fragment ions similar to each other in mass shift based on a mass shift of fragment ions extracted from a protein to be analyzed, combining the plurality of mass shift classes to produce a plurality of mass shift class sets, and identifying at least one protein modification included in at least one of the plurality of mass shift class sets based on the fragment ion mass pattern and the protein modification information.06-06-2013
20080208550Method and System for Modeling Bone Structure - The present invention relates to scanning confocal microscopy used to systematically quantify characteristic collagen fibril orientations by position within the lamellar thickness of secondary osteons along the osteon radial direction. Fully calcified lamellar specimens appear either extinct or bright in cross-section under circularly polarized light, and can be isolated from embedded osteon, flattened, and examined along the radial thickness direction of the original embedded osteon. Collagen orientation is measured from confocal image stacks. Extinct and bright lamellae display distinct patterns of collagen orientation distribution. Relative counts of collagen fibrils that are longitudinal to the osteon axis in extinct lamellae, transverse to the osteon axis in bright lamellae, and oblique to the osteon axis in both lamellar types, show parabolic distribution through the osteon radial direction.08-28-2008
20080201123Increased activity and efficiency of expansin-like proteins - The invention relates to crystal structure and activities of Beta-expansins and grass pollen allergens and identification of key regions essential to maximize activity and to identify sequence motifs which correlate with activity.08-21-2008
20080201122Method and Apparatus for Computer Modeling of an Adaptive Immune Response - The present invention relates generally to a computer model of an adaptive immune response. One embodiment of the invention relates to a computer model of an adaptive immune response within the framework of signals conveyed at the site of antigen exposure. Another embodiment of the model includes a representation of complex physiological regulatory mechanisms related to, for example, cellular dynamics, mediator production, antigen-presenting cell (APC) recruitment, APC maturation, lymphocyte activation, lymphocyte trafficking, and/or lymphocyte effector function. In another embodiment, the model can account for mediator production in response to antigen within a chronically inflamed peripheral tissue, as well as the regulatory effects of mediators on APC and lymphocyte population dynamics, including maturation, activation, and apoptosis, and the regulatory effects of mediators produced by APCs and lymphocytes on a chronically inflamed peripheral tissue. Another embodiment of the invention relates to an analytical model of an adaptive immune response.08-21-2008
20110213603COMPOSITIONS AND METHODS FOR MODELING HUMAN METABOLISM - The present invention provides 09-01-2011
20100286973Real-Time Process For Targeting Trait Phenotyping of Plant Breeding Experiments - A method for targeting trait phenotyping of a plant breeding experiment includes collecting soil data for at least one location, applying the soil data to a crop model, performing environmental monitoring at the at least one location to generate environmental data, updating the crop model with the environmental data, and using the crop model to provide predicted crop conditions. The method further includes determining environmental conditions for each of the plant breeding experiments, determining a likelihood of trait phenotype variations for each experiment using the environmental conditions and the predicted crop conditions, selecting a subset of the plant breeding experiments for collecting trait phenotype measurements based on the likelihood of trait phenotypic variation, and collecting trait phenotype measurements from the subset of the plant breeding experiments.11-11-2010
20110246167SIMULATION METHOD AND PROGRAM - (a) Regarding a particle system S in which the number of particles is N, the mass of each particle is m, and inter-particle interaction potential energy can be expressed by εf, α greater than 1, γ equal to or greater than 0 and equal to or smaller than d, and δ equal to or greater than 0 are determined using a dimension number d of a space where the particle system S is arranged to obtain the number N′ of renormalized particles by N′=N/α10-06-2011
20130151223SIMULATION AND CONTROL SYSTEM AND METHOD USING CONTACT, PRESSURE WAVES AND FACTOR CONTROLS FOR CELL REGENERATION, TISSUE CLOSURE AND RELATED APPLICATIONS - A description of a device and method of use are provided for a containment chamber, accompanying sensing and monitoring instrumentation, and method of creation of a physical force wave that would be capable of mimicking physiologic waves such as pulse pressure, muscle contraction, peristalsis, acoustic waves and other desired waves to be studied. This device allows for the use of various biologic or biologically comparable fluids—alone or in combination—that would allow for the analysis of the passage of these waves through these media. Singularly, this device also allows for the manipulation of the external constraints that mimic the containment of that media in vivo. This allows for the analysis of the effects on the nature of the wave, its reflections, potential augmentation or dampening that occur in conjunction with various selected external and internal (baffle) constraints that mimic those found in nature or in therapeutic interventions.06-13-2013
20100299127SYSTEM AND METHODS FOR PREDICTING TRANSMEMBRANE DOMAINS IN MEMBRANE PROTEINS AND MINING THE GENOME FOR RECOGNIZING G-PROTEIN COUPLED RECEPTORS - The invention provides computer-implemented methods and apparatus implementing a hierarchical protocol using multiscale molecular dynamics and molecular modeling methods to predict the presence of transmembrane regions in proteins, such as G-Protein Coupled Receptors (GPCR), and protein structural models generated according to the protocol. The protocol features a coarse grain sampling method, such as hydrophobicity analysis, to provide a fast and accurate procedure for predicting transmembrane regions. Methods and apparatus of the invention are useful to screen protein or polynucleotide databases for encoded proteins with transmembrane regions, such as GPCRs.11-25-2010
20090006059Systems and methods for mapping binding site volumes in macromolecules - Systems, methods, and apparatus for evaluating a binding site of a macromolecule are disclosed in which the binding site is identified and a binding site volume map of the binding site is constructed. The binding site volume map has a surface with a plurality of regions. Each respective region in the plurality of regions of the surface is classified based upon a first characteristic that is complementary to a second characteristic of a portion of the macromolecule that is nearest to the respective region, thereby creating an interaction map. Systems, methods, and apparatus for comparing macromolecules are also disclosed in which a binding site volume map is constructed for each of the macromolecules. Then, a composite binding site volume map that comprises a volumetric combination of each of the binding site volume maps is constructed. An interaction map can be constructed from the composite binding site volume map.01-01-2009
20120284005SYSTEM AND METHODS FOR OPTIMIZED DRUG DELIVERY AND PROGRESSION OF DISEASED AND NORMAL CELLS - System for recommending an optimal treatment protocol for a specific individual are disclosed. The systems comprise generally a system model, a plurality of treatment protocols, a system model modifier, wherein said system model is modified by the system model modifier based on parameters specific to the individual; and a selector to select an optimal treatment protocol from said plurality of treatment protocols based on the modified system model. Systems embodying the above techniques but for a general patient are also disclosed. Systems for a general patient and an individual for various specific diseases are disclosed. Methods and computer program products embodying the above techniques are also disclosed.11-08-2012
20120284004INVERTEBRATE ACETYLCHOLINESTERASE INHIBITORS - Methods for determining invertebrate- and insect-specific, such as mosquito-specific, residues of acetylcholinesterases are provided herein. The methods can be used to design pesticides and insecticides that are specific for the invertebrate or insect (e.g., mosquito) enzymes, resulting in reduced toxicity concerns for mammals. Compositions for inhibiting invertebrate and insect (e.g., mosquito) acetylcholinesterases and methods for preparing the same are also provided.11-08-2012
20130158968GRAPHIC REPRESENTATIONS OF HEALTH-RELATED STATUS - Methods, computer systems, and computer-readable storage media for generating graphical representations of health-related variables are provided. The graphical representations include a first body-image representation of a user at a current period of time. The graphical representations also include a second body-image representation that represents the user at a future period of time, the user in a simulated clinical “what-if” scenario, or members of the population-at-large that share similar demographic traits with the user.06-20-2013
20130158969Method and Apparatus for Non-Invasive Blood Pressure Simulation - An apparatus and method of non-invasive blood pressure simulation uses a processor to calculate at least one transitory blood pressure envelope between an initial envelope representing an initial blood pressure and a final envelope representing a final blood pressure. The processor operates a pressure generator to create oscillatory pulse calculated by the processor from the at least one transitory envelope.06-20-2013
20130158970Method and Apparatus for Quantitative Analysis of a Tree of Recursively Splitting Tubular Organs - Method for quantitative analysis of a tree or part of a tree of recursively splitting tubular organs, the method comprising the following steps:—providing a 3D model of said tree or part of said tree, such 3D model giving a representation of the surface of the lumen wall of the tubular organs forming the tree or part of the tree;—defining the 3D centrelines of said tree or part of the tree;—identifying the branches of the tree;—identifying N-furcations of the tree or part of the tree, an N-furcation being a part of the tree where a proximal tubular organ branches into two or more distal tubular organs, further comprising the step of:—dividing, independently from the modality used for obtaining the 3D model, each branch in one or more regions, such regions being of two different types, named single vessel region and splitting region, different cross-section surfaces being defined in such regions, wherein the splitting regions can exist at the proximal side of a branch as well as at the distal side of said branch and each N-furcation comprises the distal splitting region of a branch and the proximal splitting regions of the N branches directly distal to said branch. A corresponding apparatus and computer program are also disclosed.06-20-2013
20110313746METHOD FOR PREPARING A PROCESSED VIRTUAL ANALYSIS PLATE - The invention relates to a method that includes the following steps: 12-22-2011
20130191097ERYTHROPOIETIC STIMULATING AGENT (ESA) DOSAGE DETERMINATION - An Erythropoietic Stimulating Agent (ESA) dosing system/method determines patient-specific ESA therapies for patients affected by insufficient hemoglobin production that may benefit from ESA treatment. The ESA dosing system includes a model that represents a process by which red blood cells are produced in humans. The model may include one or more parameters, the values of which are patient-specific. The model takes into account patient-specific historical hemoglobin (Hgb) data and corresponding historical ESA dosage data to estimate the patient-specific values of the model parameters, and determines a target therapeutic dose of the ESA that may maintain the patient's Hgb within a target range.07-25-2013
20130191100BLOOD FLOW COMPUTATION IN VESSELS WITH IMPLANTED DEVICES - A method for modeling blood flow through a flow diverter includes receiving a medical image containing blood vessels. Vessel geometry is extracted from the received medical image. Inlets and outlets are tagged within the extracted vessel geometry. A desired flow diverter is selected. A model of the selected flow diverter is generated within the imaged blood vessel, the model representing the flow diverter as a tube having a porous surface characterized by a viscous resistance and an inertial resistance. A course of blood flow though the flow diverter is predicted based on the generated model, the extracted vessel geometry, and the tagged inlets and outlets.07-25-2013
20130191101SYSTEMS AND METHODS FOR DETERMINING MUSCLE FORCE THROUGH DYNAMIC GAIN OPTIMIZATION OF A MUSCLE PID CONTROLLER - Systems and methods for determining muscle force are presented. Proportional, integral, and derivative control is used to simulate muscle forces for multiple muscles contributing to a kinematic profile. The simulated muscle forces arc modified by dynamic gains that are calculated in order to achieve a muscle recruitment objective such as minimizing collective muscle effort while still achieving the kinematic motion.07-25-2013
20130191099PROCESS FOR GENERATING A COMPUTER-ACCESSIBLE MEDIUM INCLUDING INFORMATION ON THE FUNCTIONING OF A JOINT - A process for generating a computer-accessible medium including information on the functioning of a joint includes the following steps: (i) obtaining an image dataset with the aid of a radiological examination of the joint, (ii) building a computer model of the joint using the image dataset, (iii) performing a biomechanical or kinematic simulation using the computer model and determining one or more biomechanical or kinematic simulation results, and (iv) receiving the biomechanical or kinematic simulation results as a multimedia object and integrating the multimedia object with a computer-accessible medium.07-25-2013
20130191098METHODS AND SYSTEMS FOR SIMULATIONS OF COMPLEX BIOLOGICAL NETWORKS USING GENE EXPRESSION INDEXING IN COMPUTATIONAL MODELS - A method has been developed for using genome-wide transcription profile (i.e., gene-expression level) values to derive a gene expression index used as a kinetic value for every biological reaction and process assigned to each and every gene. This kinetic value is used in computational biology programs, i.e., mathematical models integrating genome, transcriptome, proteome, reactome, fluxome, metabolome, physiome, and phenome, in any combination, for simulations or theoretical systematic analyses of all life forms. This approach allows a model to be generated for any individual organism at any state of life, health condition, or disease/traumatic process. The model can include any or all biological reactions and processes, because an exact kinetic value becomes available; and, thereby, the outcomes represent stable or dynamic states of the individual organism at the time the biological specimen or sample was collected. Model systems without and with regulatory steps and mechanisms can be used to assess the present state of the specimen or sample and an acute response to an intervention within the system for the former and to predict some future state or status of treatment by testing single or multiple interventions within the regulated, dynamically responsive system for the latter; providing a prognostic value. Additionally, for multicellular organisms, the model can be tissue or cell type specific, depending on the source of the sample. Because of this capability, combined simulations can be generated with subsets of cells/tissues/organs/organ systems represented in a single model, in essence a reconstruction of the partial or complete organism in a single (or separate but integrated) computational model(s). Because all gene-expression values become available with genome-wide transcriptomic methods, surrogate tissue or cell samples can be used to predict other cells, tissues, or whole organism-level status; a utility essential for personalized individual medical care and history recording. This hierarchical computational approach is based upon the assumption that the transcriptome drives the reactome; and the proteome and metabolome, and other organism-level functions thereby effected, are resultant accompaniments to this basic integrative process in all organisms. If the genome and gene annotation (function) are known, or once they become known, for an organism and the transcriptome can be generated (even if from the genome of another related species, e.g., bovine genome used for buffalo), then this method can be used to generate a computational model representing that organism, inclusive of all living domains, Archaea, Bacteria, and Eukarya. The secondary data sets generated by the simulations are used for commercial and health care or promotion purposes of maximized yield or biomass production, health monitoring for improvement or sustained quality (for plants and animals, as well as smaller multicellular or unicellular organisms, such as insects and parasites, and microbes in ecological and environmental management, toxicology, agriculture, horticulture, and health management in general), bioremediation and biomining of pollutants, toxic substances, and precious metals, metabolic management for weight control, biomarker identification for commercial value (e.g., novel biofuels and sources), disease identification and management for prognosis, drug target identification, development, and testing, wound and tissue healing, overcoming drug resistances of bacteria, fungus, and cancer cells, development of novel singular or multiple therapies to individualize cancer treatments to the patient and specific molecular characteristics of the cancer cells or for treatment of metabolic disorders, and, in general, any biology-based approach to impact the improvement of humankind where study and testing of cellular based specimens is included. Additionally, the linking of the biological reactions to the life-sustaining and life-reproducing processes within the simulations generates data sets on individuals and ever increasing numbers of group samples in diverse categories in order that more global applications such as epidemiology, ecobiology, longitudinal growth and development analytics, and population dynamics studies can be implemented and performed.07-25-2013
20120029896SYSTEM AND METHOD FOR PREDICTION OF DRUG METABOLISM, TOXICITY, MODE OF ACTION, AND SIDE EFFECTS OF NOVEL SMALL MOLECULE COMPOUNDS - A system is provided for the prediction of human drug metabolism and toxicity of novel compounds. The system enables the visualization of pre-clinical and clinical high-throughput data in the context of a complete biological organism. Substructure and similarity structure searches can be performed using the underlying databases of xenobiotics, active ligands, and endobiotics. The system also has an analytical component for the parsing, integration, and network analysis of genomics, proteomics, and metabolomics high-throughput data. From this information, the system further generates networks around proteins, genes and compounds to assess toxicity and drug-drug interactions.02-02-2012
20130197893METHODS FOR MODELING HEPATIC INFLAMMATION - Provided herein are in silico methods of modeling hepatic inflammation, fibrosis/cirrhosis, and cancer. The models are computer-implemented agent-based models and are useful in determining patient prognoses in hepatic conditions, including viral infections, damage, inflammation, and cancer. The modeling system also is useful in modeling the effects of active agents on normal hepatic tissue or hepatic tissue perturbed by inflammation, infection, damage, fibrosis/cirrhosis, and cancer.08-01-2013
20130197894SYSTEMS AND METHODS FOR DRUG DEVELOPMENT - Systems and methods are provided for drug development under a fully transparent development model. The model is configured to provide transparency to the patients, the researchers, clinicians, physicians, and any other registered users of the system who wish to contribute. According to various embodiments, the system and model enable drug development that leverage the combined wisdom and insight of the user population eliminating many of the drawbacks of conventional development approaches. In one embodiment, the system includes drug development engine configured to manage execution of parameters of a clinical trial, including collection of health and treatment information from a patient population. The development engine can publish collected execution data for review and analysis.08-01-2013
20130204599VIRTUALLY TESTING FORCE PLACED ON A TOOTH - Embodiments of the present disclosure include computing device related, system, and method embodiments for virtually testing force placed on a tooth are described herein. One method embodiment includes receiving initial orthodontic data (IOD) of teeth, and receiving a desired position of a tooth contained in the IOD. The method embodiment can also include computing a desired force and torque to be applied to the tooth to reach the desired position, wherein the force and torque are applied using a dental attachment. The method embodiment can include virtually testing and adjusting the attachment iteratively to reach the desired force and torque, and displaying the force and torque applied to the tooth via a user interface.08-08-2013
20130204600Virtual articulator - The invention is a three dimensional virtual articulator used for but not limited to diagnosing and treatment planning for dental and medical specialties, including orthodontics, prosthodontics, endodontics, periodontics, orthognathic surgery, implant positioning, crown and bridge and prosthesis design.08-08-2013
20130204601METHOD FOR MANIPULATING A DENTAL VIRTUAL MODEL, METHOD FOR CREATING PHYSICAL ENTITIES BASED ON A DENTAL VIRTUAL MODEL THUS MANIPULATED, AND DENTAL MODELS THUS CREATED - A 3D virtual model of an intra oral cavity in which at least a part of a finish line of a preparation is obscured is manipulated in virtual space by means of a computer or the like to create, recreate or reconstruct finish line data and other geometrical corresponding to the obscured part. Trimmed virtual models, and trimmed physical models, can then be created utilizing data thus created. The virtual models and/or the physical models may be used in the design and manufacture of copings or of prostheses.08-08-2013
20090177452Virtual Tool Manipulation System - In the field of virtual reality, virtual tool manipulation systems and related methods and software are described in the present disclosure. One implementation of a virtual tool manipulation system, among others, comprises a motion tracking system configured to generate motion information related to the position of a part of a user's body. The virtual tool manipulation system also comprises a haptic feedback system configured to provide a haptic sensation to the user based on the motion information, the position of a virtual tool, and characteristics of the virtual tool.07-09-2009
20120078602METHOD FOR PREDICTING ANEURYSM GROWTH - A method for predicting aneurysm growth based on CFD simulations derived from at least two angiography recordings is proposed. A first 3-D recording of the aneurysm is recorded at a first time and a first vascular geometry is determined for simulating a first CFD simulation. A second 3-D recording is recorded at a second time and a second vascular geometry is determined for simulating a second CFD simulation. The two 3-D recordings are registered and a local growth rate is determined from the two 3-D recordings. The local growth rate is correlated between the two vascular geometries with hemodynamically derived parameters from the first CFD simulation. A future vascular geometry and/or a future local growth rate is predicted based on the correlation parameters, the hemodynamic parameters from the second CFD simulation and the second vascular geometry.03-29-2012
20120095743MOLECULAR STRUCTURE ANALYSIS AND MODELING - The invention generally relates to computational analysis and modeling of molecular structures and intermolecular interactions. More particularly, the invention concerns methods for determining the conformation of molecules including biomolecules, and methods for determining the molecular structure of complexes comprising such molecules. The invention may generally involve a reiterative communication between a docking and side-chain packing simulation on the one hand and a molecular dynamics (MD) simulation on the other hand. This allows to analyze backbone conformation changes that may arise due to intermolecular interactions upon the formation of a complex, yielding information more representative of the actual conformational events in and/or state of the complex. The invention may be used inter alia for analyzing and modeling the structure of proteins, protein-protein and protein-ligand interactions, and for protein and ligand design and engineering.04-19-2012
20120095742SYSTEM AND METHOD FOR PROCESSING SIGNALS FOR THE REAL-TIME DETECTION OF A FUNCTIONAL CYCLIC ACTIVITY - A system and method for processing signals for the real-time detection of a functional cyclic activity, include: elements for simultaneously receiving signals acquired by a sensor array having at least two sensors; elements for recording and preprocessing the acquired signals during a plurality of consecutive cycles; elements for identifying event combinations from the recordings of the acquired signals, enabling a calibration to be carried out, including: elements for identifying a plurality of events in the acquired signals, each signal including an identified event; elements for defining a model of the functional activity, consisting of a time order of the events and the mean delays between the events, and elements for defining a detection time window from the functional activity model.04-19-2012

Patent applications in class Biological or biochemical