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Items: 1 to 20 of 22


Preferential regulation of miRNA targets by environmental chemicals in the human genome.

Wu X, Song Y.

BMC Genomics. 2011 May 18;12:244. doi: 10.1186/1471-2164-12-244.


Methods and strategies for gene structure curation in WormBase.

Williams GW, Davis PA, Rogers AS, Bieri T, Ozersky P, Spieth J.

Database (Oxford). 2011 May 3;2011:baq039. doi: 10.1093/database/baq039. Print 2011.


A new face and new challenges for Online Mendelian Inheritance in Man (OMIM®).

Amberger J, Bocchini C, Hamosh A.

Hum Mutat. 2011 May;32(5):564-7. doi: 10.1002/humu.21466. Epub 2011 Apr 5.


The Rat Genome Database curation tool suite: a set of optimized software tools enabling efficient acquisition, organization, and presentation of biological data.

Laulederkind SJ, Shimoyama M, Hayman GT, Lowry TF, Nigam R, Petri V, Smith JR, Wang SJ, de Pons J, Kowalski G, Liu W, Rood W, Munzenmaier DH, Dwinell MR, Twigger SN, Jacob HJ; RGD Team.

Database (Oxford). 2011 Feb 14;2011:bar002. doi: 10.1093/database/bar002. Print 2011.


Activity profiles of 309 ToxCastâ„¢ chemicals evaluated across 292 biochemical targets.

Knudsen TB, Houck KA, Sipes NS, Singh AV, Judson RS, Martin MT, Weissman A, Kleinstreuer NC, Mortensen HM, Reif DM, Rabinowitz JR, Setzer RW, Richard AM, Dix DJ, Kavlock RJ.

Toxicology. 2011 Mar 28;282(1-2):1-15. doi: 10.1016/j.tox.2010.12.010. Epub 2011 Jan 18.


Database resources of the National Center for Biotechnology Information.

Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Federhen S, Feolo M, Fingerman IM, Geer LY, Helmberg W, Kapustin Y, Landsman D, Lipman DJ, Lu Z, Madden TL, Madej T, Maglott DR, Marchler-Bauer A, Miller V, Mizrachi I, Ostell J, Panchenko A, Phan L, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Shumway M, Sirotkin K, Slotta D, Souvorov A, Starchenko G, Tatusova TA, Wagner L, Wang Y, Wilbur WJ, Yaschenko E, Ye J.

Nucleic Acids Res. 2011 Jan;39(Database issue):D38-51. doi: 10.1093/nar/gkq1172. Epub 2010 Nov 21.


Reactome: a database of reactions, pathways and biological processes.

Croft D, O'Kelly G, Wu G, Haw R, Gillespie M, Matthews L, Caudy M, Garapati P, Gopinath G, Jassal B, Jupe S, Kalatskaya I, Mahajan S, May B, Ndegwa N, Schmidt E, Shamovsky V, Yung C, Birney E, Hermjakob H, D'Eustachio P, Stein L.

Nucleic Acids Res. 2011 Jan;39(Database issue):D691-7. doi: 10.1093/nar/gkq1018. Epub 2010 Nov 9.


The Comparative Toxicogenomics Database: update 2011.

Davis AP, King BL, Mockus S, Murphy CG, Saraceni-Richards C, Rosenstein M, Wiegers T, Mattingly CJ.

Nucleic Acids Res. 2011 Jan;39(Database issue):D1067-72. doi: 10.1093/nar/gkq813. Epub 2010 Sep 22.


GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles.

Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Hampton TH, Mattingly CJ.

Bioinformation. 2009 Oct 15;4(4):173-4.


Integrating text mining into the MGI biocuration workflow.

Dowell KG, McAndrews-Hill MS, Hill DP, Drabkin HJ, Blake JA.

Database (Oxford). 2009;2009:bap019. Epub 2009 Nov 21.


Text mining and manual curation of chemical-gene-disease networks for the comparative toxicogenomics database (CTD).

Wiegers TC, Davis AP, Cohen KB, Hirschman L, Mattingly CJ.

BMC Bioinformatics. 2009 Oct 8;10:326. doi: 10.1186/1471-2105-10-326.


BioPortal: ontologies and integrated data resources at the click of a mouse.

Noy NF, Shah NH, Whetzel PL, Dai B, Dorf M, Griffith N, Jonquet C, Rubin DL, Storey MA, Chute CG, Musen MA.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W170-3. doi: 10.1093/nar/gkp440. Epub 2009 May 29.


The toxicity data landscape for environmental chemicals.

Judson R, Richard A, Dix DJ, Houck K, Martin M, Kavlock R, Dellarco V, Henry T, Holderman T, Sayre P, Tan S, Carpenter T, Smith E.

Environ Health Perspect. 2009 May;117(5):685-95. doi: 10.1289/ehp.0800168. Epub 2008 Dec 22. Review.


Genetic and environmental pathways to complex diseases.

Gohlke JM, Thomas R, Zhang Y, Rosenstein MC, Davis AP, Murphy C, Becker KG, Mattingly CJ, Portier CJ.

BMC Syst Biol. 2009 May 5;3:46. doi: 10.1186/1752-0509-3-46.


The Comparative Toxicogenomics Database facilitates identification and understanding of chemical-gene-disease associations: arsenic as a case study.

Davis AP, Murphy CG, Rosenstein MC, Wiegers TC, Mattingly CJ.

BMC Med Genomics. 2008 Oct 9;1:48. doi: 10.1186/1755-8794-1-48.


Comparative Toxicogenomics Database: a knowledgebase and discovery tool for chemical-gene-disease networks.

Davis AP, Murphy CG, Saraceni-Richards CA, Rosenstein MC, Wiegers TC, Mattingly CJ.

Nucleic Acids Res. 2009 Jan;37(Database issue):D786-92. doi: 10.1093/nar/gkn580. Epub 2008 Sep 9.


KEGG for linking genomes to life and the environment.

Kanehisa M, Araki M, Goto S, Hattori M, Hirakawa M, Itoh M, Katayama T, Kawashima S, Okuda S, Tokimatsu T, Yamanishi Y.

Nucleic Acids Res. 2008 Jan;36(Database issue):D480-4. Epub 2007 Dec 12.


The comparative toxicogenomics database: a cross-species resource for building chemical-gene interaction networks.

Mattingly CJ, Rosenstein MC, Davis AP, Colby GT, Forrest JN Jr, Boyer JL.

Toxicol Sci. 2006 Aug;92(2):587-95. Epub 2006 May 4.


Medical subject headings used to search the biomedical literature.

Coletti MH, Bleich HL.

J Am Med Inform Assoc. 2001 Jul-Aug;8(4):317-23. Erratum in: J Am Med Inform Assoc 2001 Nov-Dec;8(6):597.


Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.

Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G.

Nat Genet. 2000 May;25(1):25-9. No abstract available.

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