GOToolBox: functional analysis of gene datasets based on Gene Ontology.

Martin D, Brun C, Remy E, Mouren P, Thieffry D, Jacq B.

Genome Biol. 2004;5(12):R101. Epub 2004 Nov 26.

PMID: 15575967 [PubMed - indexed for MEDLINE]

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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.

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AgBase: a unified resource for functional analysis in agriculture.

McCarthy FM, Bridges SM, Wang N, Magee GB, Williams WP, Luthe DS, Burgess SC.

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GObar: a gene ontology based analysis and visualization tool for gene sets.

Lee JS, Katari G, Sachidanandam R.

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DynGO: a tool for visualizing and mining of Gene Ontology and its associations.

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GOLEM: an interactive graph-based gene-ontology navigation and analysis tool.

Sealfon RS, Hibbs MA, Huttenhower C, Myers CL, Troyanskaya OG.

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The Gene Ontology (GO) database and informatics resource.

Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, Eilbeck K, Lewis S, Marshall B, Mungall C, Richter J, Rubin GM, Blake JA, Bult C, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Balakrishnan R, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel S, Fisk DG, Hirschman JE, Hong EL, Nash RS, Sethuraman A, Theesfeld CL, Botstein D, Dolinski K, Feierbach B, Berardini T, Mundodi S, Rhee SY, Apweiler R, Barrell D, Camon E, Dimmer E, Lee V, Chisholm R, Gaudet P, Kibbe W, Kishore R, Schwarz EM, Sternberg P, Gwinn M, Hannick L, Wortman J, Berriman M, Wood V, de la Cruz N, Tonellato P, Jaiswal P, Seigfried T, White R; Gene Ontology Consortium.

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Automatic extraction of gene ontology annotation and its correlation with clusters in protein networks.

Daraselia N, Yuryev A, Egorov S, Mazo I, Ispolatov I.

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FunnyBase: a systems level functional annotation of Fundulus ESTs for the analysis of gene expression.

Paschall JE, Oleksiak MF, VanWye JD, Roach JL, Whitehead JA, Wyckoff GJ, Kolell KJ, Crawford DL.

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GeneTools--application for functional annotation and statistical hypothesis testing.

Beisvag V, Jünge FK, Bergum H, Jølsum L, Lydersen S, Günther CC, Ramampiaro H, Langaas M, Sandvik AK, Laegreid A.

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GOing from functional genomics to biological significance.

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AgBase: a functional genomics resource for agriculture.

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A procedure for assessing GO annotation consistency.

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MILANO--custom annotation of microarray results using automatic literature searches.

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Recent additions and improvements to the Onto-Tools.

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ESTree db: a tool for peach functional genomics.

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