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In Table 3, all 60 clusters that have more than 4 proteins are listed, and it also shows their topological characteristics and their assigned molecular functions from MIPS functional categories.
In this study, GOOD is presented as a gene-oriented comparison platform of functionalities based on orthology for researchers to derive interested molecular functions from experiments in model organisms to speed up the process of functional annotation.
We therefore discuss the importance of the reported lipidomes in individual disease pathologies and underlying molecular functions from biological fluids.
Top ranking cellular and molecular functions from pathway analysis.
The data were annotated using gene annotation headings, bioprocesses and molecular functions from the NetsAffx database.
We generate an RDF representation of molecular functions from a download of the Gene Ontology.
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For E.coli we excluded the GO category 'Molecular function' from the analysis because this category contained only 100 terms.
They included KEGG, Reactome, GO Biological Process, GO Cell Component, and GO Molecular Function from KEGG [ 12] and MSigDB [ 2].
In sum, GOOD can improve the interpretation in the molecular function from experiments in the model organism and provide clear comparative genomic annotation across organisms.
Out of 2,101 gene sets of canonical pathway gene sets and GO gene sets of biological process and molecular function from MSigDB, 2,067 gene sets (98.4%) with up to 500 genes were tested using GSEA.
These were associated with 18 cellular and molecular functions ranging from cell cycle to metabolism and are involved in the development and function of 10 organ systems including nervous, cardiovascular, haematological, reproductive, and hepatic systems.
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