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dc.contributor.authorPati, Amritaen_US
dc.contributor.authorJin, Yingen_US
dc.contributor.authorKlage, Karstenen_US
dc.contributor.authorHelm, Richard F.en_US
dc.contributor.authorHeath, Lenwood S.en_US
dc.contributor.authorRamakrishnan, Narenen_US
dc.date.accessioned2017-01-04T15:17:17Z
dc.date.available2017-01-04T15:17:17Z
dc.date.issued2008-01-01en_US
dc.identifier.issn0305-1048en_US
dc.identifier.urihttp://hdl.handle.net/10919/73934
dc.description.abstractCMGSDB (Database for Computational Modeling of Gene Silencing) is an integration of heterogeneous data sources about Caenorhabditis elegans with capabilities for compositional data mining (CDM) across diverse domains. Besides gene, protein and functional annotations, CMGSDB currently unifies information about 531 RNAi phenotypes obtained from heterogeneous databases using a hierarchical scheme. A phenotype browser at the CMGSDB website serves this hierarchy and relates phenotypes to other biological entities. The application of CDM to CMGSDB produces ‘chains’ of relationships in the data by finding two-way connections between sets of biological entities. Chains can, for example, relate the knock down of a set of genes during an RNAi experiment to the disruption of a pathway or specific gene expression through another set of genes not directly related to the former set. The web interface for CMGSDB is available at https://bioinformatics.cs.vt.edu/cmgs/CMGSDB/, and serves individual biological entity information as well as details of all chains computed by CDM.en
dc.format.extentD69 - D76 (8) page(s)en_US
dc.languageEnglishen_US
dc.publisherOxford Univ Pressen_US
dc.relation.urihttp://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000252545400013&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=930d57c9ac61a043676db62af60056c1en_US
dc.rightsCreative Commons Attribution-NonCommercial 2.0 UK: England & Wales (CC BY-NC 2.0 UK)*
dc.rights.urihttp://creativecommons.org/licenses/by-nc/2.0/uk/*
dc.subjectBiochemistry & Molecular Biologyen_US
dc.subjectBIOCHEMISTRY & MOLECULAR BIOLOGYen_US
dc.subjectGENOME-WIDE RNAIen_US
dc.subjectC-ELEGANSen_US
dc.subjectGENESen_US
dc.subjectSCREENen_US
dc.subjectINTERFERENCEen_US
dc.subjectLOCALIZATIONen_US
dc.subjectEMBRYOSen_US
dc.subjectRECEPTORen_US
dc.subjectEMBRYOGENESISen_US
dc.subjectESTABLISHMENTen_US
dc.titleCMGSDB: integrating heterogeneous Caenorhabditis elegans data sources using compositional data miningen_US
dc.typeArticle - Refereed
dc.description.versionPublished (Publication status)en_US
dc.rights.holderThe Author(s)en_US
dc.title.serialNUCLEIC ACIDS RESEARCHen_US
dc.identifier.doihttps://doi.org/10.1093/nar/gkm804
dc.identifier.volume36en_US
pubs.organisational-group/Virginia Tech
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/Biochemistry
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/CALS T&R Faculty
pubs.organisational-group/Virginia Tech/All T&R Faculty
pubs.organisational-group/Virginia Tech/Engineering
pubs.organisational-group/Virginia Tech/Engineering/COE T&R Faculty
pubs.organisational-group/Virginia Tech/Engineering/Computer Science
pubs.organisational-group/Virginia Tech/Faculty of Health Sciences


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Creative Commons Attribution-NonCommercial 2.0 UK: England & Wales (CC BY-NC 2.0 UK)
License: Creative Commons Attribution-NonCommercial 2.0 UK: England & Wales (CC BY-NC 2.0 UK)