Patent application number | Description | Published |
20080206763 | METHODS FOR ISOLATING AND CHARACTERIZING ENDOGENOUS mRNA-PROTEIN (mRNP) COMPLEXES - Cellular mRNA-protein (mRNP) complexes are partitioned in vivo by contacting a biological sample with at least one ligand that specifically binds at least one component of a mRNP complex. Suitable biological samples comprise at least one mRNA-protein (mRNP) complex and include cell cultures, cell extracts, and whole tissue, including tumor tissue. Ligands include antibodies that specifically bind RNA-binding or RNA-associated proteins present in the mRNP complex. The mRNP complex is separated by binding the ligand with a binding molecule specific for the ligand, where the binding molecule is attached to a solid support. The mRNP complex is collected by removing the mRNP complex from the solid support. After collecting the mRNP complex, the mRNA bound within the complex may be characterized and identified. Subsets of the total mRNA population of a cell may accordingly be characterized, and a gene expression profile of the cell obtained. | 08-28-2008 |
20080248479 | Methods for Isolating and Characterizing Endogenous mRNA-Protein (mRNP) Complexes - Cellular mRNA-protein (mRNP) complexes are partitioned in vivo by contacting a biological sample with at least one ligand that specifically binds at least one component of a mRNP complex. Suitable biological samples comprise at least one mRNA-protein (mRNP) complex and include cell cultures, cell extracts, and whole tissue, including tumor tissue. Ligands include antibodies that specifically bind RNA-binding or RNA-associated proteins present in the mRNP complex. The mRNP complex is separated by binding the ligand with a binding molecule specific for the ligand, where the binding molecule is attached to a solid support. The mRNP complex is collected by removing the mRNP complex from the solid support. After collecting the mRNP complex, the mRNA bound within the complex may be characterized and identified. Subsets of the total mRNA population of a cell may accordingly be characterized, and a gene expression profile of the cell obtained. | 10-09-2008 |
20080254461 | METHODS FOR ISOLATING AND CHARACTERIZING ENDOGENOUS mRNA-PROTEIN (mRNP) COMPLEXES - Cellular mRNA-protein (mRNP) complexes are partitioned in vivo by contacting a biological sample with at least one ligand that specifically binds at least one component of a mRNP complex. Suitable biological samples comprise at least one mRNA-protein (mRNP) complex and include cell cultures, cell extracts, and whole tissue, including tumor tissue. Ligands include antibodies that specifically bind RNA-binding or RNA-associated proteins present in the mRNP complex. The mRNP complex is separated by binding the ligand with a binding molecule specific for the ligand, where the binding molecule is attached to a solid support. The mRNP complex is collected by removing the mRNP complex from the solid support. After collecting the mRNP complex, the mRNA bound within the complex may be characterized and identified. Subsets of the total mRNA population of a cell may accordingly be characterized, and a gene expression profile of the cell obtained. | 10-16-2008 |
20090263790 | Methods for Identifying Functionally Related Genes and Drug Targets - The identification and evaluation of mRNA and protein targets associated with mRNP complexes and implicated in the expression of proteins involved in common physiological pathways is described. Effective targets are useful for treating a disease, condition or disorder associated with the physiological pathway. | 10-22-2009 |
Patent application number | Description | Published |
20080281529 | GENOMIC DATA PROCESSING UTILIZING CORRELATION ANALYSIS OF NUCLEOTIDE LOCI OF MULTIPLE DATA SETS - Processing of genomic data is facilitated utilizing correlation analysis of mapped data sets, each data set including genomic data mapped and ordered relative to a genomic coordinate system. Correlation analysis identifies at a nucleotide level nucleotide positions wherein at least one nucleotide locus of each data set correlate. The analysis includes for each data set, selecting a nucleotide locus thereof closest to one end of the coordinate system, comparing the selected nucleotide loci for correlation, and if so, outputting results of the comparing, and updating the selected nucleotide loci by identifying the data set having a next nucleotide locus closest to the one end of the coordinate system, and inserting that next locus into the group of selected loci, and repeating the comparing for the newly selected loci. The process is repeated until nucleotide loci of the mapped data sets are compared and results of the comparison are output. | 11-13-2008 |
20080281530 | GENOMIC DATA PROCESSING UTILIZING CORRELATION ANALYSIS OF NUCLEOTIDE LOCI - Processing of genomic data is provided utilizing correlation analysis of first and second nucleotide loci employing a selected comparison type and value. The comparison type is either intersection or proximity type, and the comparison value is either a number (n) of nucleotide positions, wherein n≧1, or a percent number (pn) of nucleotide positions, wherein pn≧0, to be employed in comparing the loci. When intersection type is selected, correlation is defined by the loci overlapping with at least the number (n) of nucleotide positions in common, or by the loci overlapping with at least the percent number (pn) of nucleotide positions in common relative to a smaller one of the first and second loci, or when proximity type is selected, correlation is defined by the first and second loci being within at least the number (n) of nucleotide positions. | 11-13-2008 |
20080281818 | SEGMENTED STORAGE AND RETRIEVAL OF NUCLEOTIDE SEQUENCE INFORMATION - Processing of genomic data is facilitated by providing a storage device with a database having a segmented sequence table. The table has a plurality of data subsets of common nucleotide sequence size n, wherein≧2, and each data subset of common nucleotide sequence n is separately indexed within the table. A database manager associated with the database retrieves a selected nucleotide sequence locus from the table. The selected nucleotide sequence locus is sized differently from the common nucleotide sequence size n, and the retrieving includes identifying each data subset of the segmented sequence table containing at least a portion of the selected nucleotide sequence locus, and retrieving the identified data subsets. The database manager processes the retrieved, identified data subsets to remove genomic data mapped to the nucleotide positions outside the selected nucleotide sequence locus, and outputs the selected nucleotide sequence locus. | 11-13-2008 |
20080281819 | NON-RANDOM CONTROL DATA SET GENERATION FOR FACILITATING GENOMIC DATA PROCESSING - Processing of genomic data is facilitated by providing a control data set generation system wherein a control generator tool or process creates matched data sets for facilitating informatics analysis. These matched data sets may include genomic loci or genomic sequences, or both. The data is taken from a database of actual genomic data, including sequence and annotation data, as opposed to ad-hoc generation, sequence scrambling or the like. This produces biologically relevant and accurate results which allow for stronger controls. The controls are matched against a user-provided data set via a number of parameters. | 11-13-2008 |
20120252876 | TRANS-ACTING RNA SWITCHES - Disclosed are RNA constructs which function to activate or inactivate a biological process, e.g., may be designed for attachment to a polypeptide coding region. Such RNA constructs modulate translation of a polypeptide from the coding region in response to the presence of a target polynucleotide in an expression environment. Such RNA constructs include a weakened stem-loop structure which, when bound to the target polynucleotide, assumes stem-loop secondary structure and associates with an RNA binding protein. Association with the RNA binding protein modulates translation of the polypeptide coding region. Such RNA constructs also have three-way junction joining regions 3′ and 5′ of the stem-loop structure. | 10-04-2012 |
20150045414 | TRANS-ACTING RNA SWITCHES - Disclosed are RNA constructs which function to activate or inactivate a biological process, e.g., may be designed for attachment to a polypeptide coding region. Such RNA constructs modulate translation of a polypeptide from the coding region in response to the presence of a target polynucleotide in an expression environment. Such RNA constructs include a weakened stem-loop structure which, when bound to the target polynucleotide, assumes stem-loop secondary structure and associates with an RNA binding protein. Association with the RNA binding protein modulates translation of the polypeptide coding region. Such RNA constructs also have three-way junction joining regions 3′ and 5′ of the stem-loop structure. | 02-12-2015 |