ARC: automated resource classifier for agglomerative functional classification of prokaryotic proteins using annotation texts.

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dc.contributor.authorGnanamani, Muthiahen_US
dc.contributor.authorKumar, Naveenen_US
dc.contributor.authorRamachandran, Srinivasanen_US
dc.date.accessioned2007-08-05en_US
dc.date.accessioned2009-06-01T14:09:59Z
dc.date.available2007-08-05en_US
dc.date.available2009-06-01T14:09:59Z
dc.date.issued2007-08-05en_US
dc.description.abstractFunctional classification of proteins is central to comparative genomics. The need for algorithms tuned to enable integrative interpretation of analytical data is felt globally. The availability of a general,automated software with built-in flexibility will significantly aid this activity. We have prepared ARC (Automated Resource Classifier), which is an open source software meeting the user requirements of flexibility. The default classification scheme based on keyword match is agglomerative and directs entries into any of the 7 basic non-overlapping functional classes: Cell wall, Cell membrane and Transporters (C), Cell division (D), Information (I), Translocation (L), Metabolism (M), Stress(R), Signal and communication (S) and 2 ancillary classes: Others (O) and Hypothetical (H).The keyword library of ARC was built serially by first drawing keywords from Bacillus subtilis and Escherichia coli K12. In subsequent steps,this library was further enriched by collecting terms from archaeal representative Archaeoglobus fulgidus, Gene Ontology, and Gene Symbols. ARC is 94.04% successful on 6,75,663 annotated proteins from 348 prokaryotes. Three examples are provided to illuminate the current perspectives on mycobacterial physiology and costs of proteins in 333 prokaryotes. ARC is available at https://arc.igib.res.in.en_US
dc.description.affiliationG N Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110 007, India.en_US
dc.identifier.citationGnanamani M, Kumar N, Ramachandran S. ARC: automated resource classifier for agglomerative functional classification of prokaryotic proteins using annotation texts. Journal of Biosciences. 2007 Aug; 32(5): 937-45en_US
dc.identifier.urihttps://imsear.searo.who.int/handle/123456789/110634
dc.language.isoengen_US
dc.source.urihttps://www.ias.ac.in/jbiosci/index.htmlen_US
dc.subject.meshAlgorithmsen_US
dc.subject.meshArchaeal Proteins --classificationen_US
dc.subject.meshArchaeoglobus fulgidus --chemistryen_US
dc.subject.meshBacillus subtilis --chemistryen_US
dc.subject.meshBacterial Proteins --classificationen_US
dc.subject.meshComputational Biologyen_US
dc.subject.meshEscherichia coli K12 --chemistryen_US
dc.subject.meshEscherichia coli Proteins --classificationen_US
dc.subject.meshMycobacterium bovis --chemistryen_US
dc.subject.meshMycobacterium leprae --chemistryen_US
dc.subject.meshMycobacterium tuberculosis --chemistryen_US
dc.subject.meshProtein Array Analysisen_US
dc.titleARC: automated resource classifier for agglomerative functional classification of prokaryotic proteins using annotation texts.en_US
dc.typeComparative Studyen_US
dc.typeJournal Articleen_US
dc.typeResearch Support, Non-U.S. Gov'ten_US
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