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CellBase, a comprehensive collection of RESTful web services for retrieving relevant biological information from heterogeneous sources.

Bleda M, Tarraga J, de Maria A, Salavert F, Garcia-Alonso L, Celma M, Martin A, Dopazo J, Medina I.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W609-14. doi: 10.1093/nar/gks575.


CARGO: a web portal to integrate customized biological information.

Cases I, Pisano DG, Andres E, Carro A, Fernández JM, Gómez-López G, Rodriguez JM, Vera JF, Valencia A, Rojas AM.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W16-20.


A database and tool, IM Browser, for exploring and integrating emerging gene and protein interaction data for Drosophila.

Pacifico S, Liu G, Guest S, Parrish JR, Fotouhi F, Finley RL Jr.

BMC Bioinformatics. 2006 Apr 7;7:195.


DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis.

Sherman BT, Huang da W, Tan Q, Guo Y, Bour S, Liu D, Stephens R, Baseler MW, Lane HC, Lempicki RA.

BMC Bioinformatics. 2007 Nov 2;8:426.


VARIANT: Command Line, Web service and Web interface for fast and accurate functional characterization of variants found by Next-Generation Sequencing.

Medina I, De Maria A, Bleda M, Salavert F, Alonso R, Gonzalez CY, Dopazo J.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W54-8. doi: 10.1093/nar/gks572.


PathSys: integrating molecular interaction graphs for systems biology.

Baitaluk M, Qian X, Godbole S, Raval A, Ray A, Gupta A.

BMC Bioinformatics. 2006 Feb 7;7:55.


WAVe: web analysis of the variome.

Lopes P, Dalgleish R, Oliveira JL.

Hum Mutat. 2011 Jul;32(7):729-34. doi: 10.1002/humu.21499.


Inferring the regulatory network behind a gene expression experiment.

Bleda M, Medina I, Alonso R, De Maria A, Salavert F, Dopazo J.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W168-72. doi: 10.1093/nar/gks573.


BioMart Central Portal--unified access to biological data.

Haider S, Ballester B, Smedley D, Zhang J, Rice P, Kasprzyk A.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W23-7. doi: 10.1093/nar/gkp265.


GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information.

Nogales-Cadenas R, Carmona-Saez P, Vazquez M, Vicente C, Yang X, Tirado F, Carazo JM, Pascual-Montano A.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W317-22. doi: 10.1093/nar/gkp416.


ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data.

Yang JH, Li JH, Jiang S, Zhou H, Qu LH.

Nucleic Acids Res. 2013 Jan;41(Database issue):D177-87. doi: 10.1093/nar/gks1060.


Parasite genome databases and web-based resources.

Hertz-Fowler C, Hall N.

Methods Mol Biol. 2004;270:45-74.


DASMiner: discovering and integrating data from DAS sources.

Veiga DF, Deus HF, Akdemir C, Vasconcelos AT, Almeida JS.

BMC Syst Biol. 2009 Nov 17;3:109. doi: 10.1186/1752-0509-3-109.


Pathway Commons, a web resource for biological pathway data.

Cerami EG, Gross BE, Demir E, Rodchenkov I, Babur O, Anwar N, Schultz N, Bader GD, Sander C.

Nucleic Acids Res. 2011 Jan;39(Database issue):D685-90. doi: 10.1093/nar/gkq1039.


GDPC: connecting researchers with multiple integrated data sources.

Casstevens TM, Buckler ES.

Bioinformatics. 2004 Nov 1;20(16):2839-40.


Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'.

Kuhn A, Luthi-Carter R, Delorenzi M.

BMC Bioinformatics. 2008 Jan 17;9:26. doi: 10.1186/1471-2105-9-26.


Atlas - a data warehouse for integrative bioinformatics.

Shah SP, Huang Y, Xu T, Yuen MM, Ling J, Ouellette BF.

BMC Bioinformatics. 2005 Feb 21;6:34.


Biomolecular pathway databases.

Ooi HS, Schneider G, Lim TT, Chan YL, Eisenhaber B, Eisenhaber F.

Methods Mol Biol. 2010;609:129-44. doi: 10.1007/978-1-60327-241-4_8. Review.


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