A methodology is proposed to automatically detect protein associations in genomic databases. A new statistical test is defined to assess the significance of a group of proteins when found in several genesets of a given database. Applied to protein pairs, the thresholded p-values of the test define a graph structure on the set of proteins . The cliques of that graph are significant protein groups , linked to a set of genesets where they can be found. The method can be applied to any database, and is illustrated on the KEGG database and on specific selections from the MSygDB C2 database. Most of the protein associations detected in KEGG and cancer-related genesets of MSigDB C2 match already known interactions. On more specific selections of C2, many previously unkown protein associations have been detected. They could indicate potentially interesting protein-protein interactions, if validated by biological evidence.
A methodology is proposed to automatically detect significant symbol associations in genomic databases. A new statistical test is proposed to assess the significance of a group of symbols when found in several genesets of a given database. Applied to symbol pairs, the thresholded p-values of the test define a graph structure on the set of symbols . The cliques of that graph are significant symbol associations , linked to a set of genesets where they can be found. The method can be applied to any database, and is illustrated MSigDB C2 database. Many of the symbol associations detected in C2 or in non-specific selections did correspond to already known interactions. On more specific selections of C2, many previously unkown symbol associations have been detected. These associations unveal new candidates for gene or protein interactions, needing further investigation for biological evidence.
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protein
significant symbol
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defined
proposed
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proteins
symbols
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protein
symbol
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proteins
symbols
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protein groups
symbol associations
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on the KEGG database and on specific selections from the MSygDB
MSigDB
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Most of the protein
Many of the symbol
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KEGG and cancer-related genesets of MSigDB
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match
or in non-specific selections did correspond to
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protein
symbol
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They could indicate potentially interesting protein-protein interactions, if validated by
These associations unveal new candidates for gene or protein interactions, needing further investigation for