PubMed

Database development in toxicogenomics: issues and efforts.

Mattes WB, Pettit SD, Sansone SA, Bushel PR, Waters MD.

Environ Health Perspect. 2004 Mar;112(4):495-505. Review.PMID: 15033600 [PubMed - indexed for MEDLINE]Related articlesFree article

Toxicogenomic approach for assessing toxicant-related disease.

Waters MD, Olden K, Tennant RW.

Mutat Res. 2003 Nov;544(2-3):415-24. Review.PMID: 14644344 [PubMed - indexed for MEDLINE]Related articles

Clearing the standards landscape: the semantics of terminology and their impact on toxicogenomics.

Burgoon LD.

Toxicol Sci. 2007 Oct;99(2):403-12. Epub 2007 May 5.PMID: 17483496 [PubMed - indexed for MEDLINE]Related articlesFree article

Toxicogenomics in risk assessment: an overview of an HESI collaborative research program.

Pennie W, Pettit SD, Lord PG.

Environ Health Perspect. 2004 Mar;112(4):417-9. Review.PMID: 15033589 [PubMed - indexed for MEDLINE]Related articlesFree article

Systems toxicology and the Chemical Effects in Biological Systems (CEBS) knowledge base.

Waters M, Boorman G, Bushel P, Cunningham M, Irwin R, Merrick A, Olden K, Paules R, Selkirk J, Stasiewicz S, Weis B, Van Houten B, Walker N, Tennant R.

EHP Toxicogenomics. 2003 Jan;111(1T):15-28.PMID: 12735106 [PubMed - indexed for MEDLINE]Related articles

Toxicogenomics through the eyes of informatics: conference overview and recommendations.

Olden K, Call N, Sobral B, Oakes R.

Environ Health Perspect. 2004 May;112(7):805-7.PMID: 15159210 [PubMed - indexed for MEDLINE]Related articlesFree article

Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories.

Boedigheimer MJ, Wolfinger RD, Bass MB, Bushel PR, Chou JW, Cooper M, Corton JC, Fostel J, Hester S, Lee JS, Liu F, Liu J, Qian HR, Quackenbush J, Pettit S, Thompson KL.

BMC Genomics. 2008 Jun 12;9:285.PMID: 18549499 [PubMed - indexed for MEDLINE]Related articlesFree article

Toward a public toxicogenomics capability for supporting predictive toxicology: survey of current resources and chemical indexing of experiments in GEO and ArrayExpress.

Williams-Devane CR, Wolf MA, Richard AM.

Toxicol Sci. 2009 Jun;109(2):358-71. Epub 2009 Mar 30.PMID: 19332651 [PubMed - indexed for MEDLINE]Related articles

ArrayTrack--supporting toxicogenomic research at the U.S. Food and Drug Administration National Center for Toxicological Research.

Tong W, Cao X, Harris S, Sun H, Fang H, Fuscoe J, Harris A, Hong H, Xie Q, Perkins R, Shi L, Casciano D.

Environ Health Perspect. 2003 Nov;111(15):1819-26. Review.PMID: 14630514 [PubMed - indexed for MEDLINE]Related articlesFree article

Development of public toxicogenomics software for microarray data management and analysis.

Tong W, Harris S, Cao X, Fang H, Shi L, Sun H, Fuscoe J, Harris A, Hong H, Xie Q, Perkins R, Casciano D.

Mutat Res. 2004 May 18;549(1-2):241-53.PMID: 15120974 [PubMed - indexed for MEDLINE]Related articles

Chemical effects in biological systems--data dictionary (CEBS-DD): a compendium of terms for the capture and integration of biological study design description, conventional phenotypes, and 'omics data.

Fostel J, Choi D, Zwickl C, Morrison N, Rashid A, Hasan A, Bao W, Richard A, Tong W, Bushel PR, Brown R, Bruno M, Cunningham ML, Dix D, Eastin W, Frade C, Garcia A, Heinloth A, Irwin R, Madenspacher J, Merrick BA, Papoian T, Paules R, Rocca-Serra P, Sansone AS, Stevens J, Tomer K, Yang C, Waters M.

Toxicol Sci. 2005 Dec;88(2):585-601. Epub 2005 Sep 8.PMID: 16150882 [PubMed - indexed for MEDLINE]Related articlesFree article

Toward a checklist for exchange and interpretation of data from a toxicology study.

Fostel JM, Burgoon L, Zwickl C, Lord P, Corton JC, Bushel PR, Cunningham M, Fan L, Edwards SW, Hester S, Stevens J, Tong W, Waters M, Yang C, Tennant R.

Toxicol Sci. 2007 Sep;99(1):26-34. Epub 2007 Apr 17.PMID: 17442663 [PubMed - indexed for MEDLINE]Related articlesFree article

Large-scale databases in toxicogenomics.

Salter AH.

Pharmacogenomics. 2005 Oct;6(7):749-54. Review.PMID: 16207151 [PubMed - indexed for MEDLINE]Related articles

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.PMID: 15723693 [PubMed - indexed for MEDLINE]Related articlesFree article

EDGE: a centralized resource for the comparison, analysis, and distribution of toxicogenomic information.

Hayes KR, Vollrath AL, Zastrow GM, McMillan BJ, Craven M, Jovanovich S, Rank DR, Penn S, Walisser JA, Reddy JK, Thomas RS, Bradfield CA.

Mol Pharmacol. 2005 Apr;67(4):1360-8. Epub 2005 Jan 20.PMID: 15662043 [PubMed - indexed for MEDLINE]Related articlesFree article

Complementary roles for toxicologic pathology and mathematics in toxicogenomics, with special reference to data interpretation and oscillatory dynamics.

Morgan KT, Pino M, Crosby LM, Wang M, Elston TC, Jayyosi Z, Bonnefoi M, Boorman G.

Toxicol Pathol. 2004 Mar-Apr;32 Suppl 1:13-25. Review.PMID: 15209399 [PubMed - indexed for MEDLINE]Related articles

The impact of new technologies on human population studies.

Waters MD, Selkirk JK, Olden K.

Mutat Res. 2003 Nov;544(2-3):349-60. Review.PMID: 14644337 [PubMed - indexed for MEDLINE]Related articles

ArrayExpress--a public repository for microarray gene expression data at the EBI.

Brazma A, Parkinson H, Sarkans U, Shojatalab M, Vilo J, Abeygunawardena N, Holloway E, Kapushesky M, Kemmeren P, Lara GG, Oezcimen A, Rocca-Serra P, Sansone SA.

Nucleic Acids Res. 2003 Jan 1;31(1):68-71.PMID: 12519949 [PubMed - indexed for MEDLINE]Related articlesFree article

Chemical effects in biological systems (CEBS) object model for toxicology data, SysTox-OM: design and application.

Xirasagar S, Gustafson SF, Huang CC, Pan Q, Fostel J, Boyer P, Merrick BA, Tomer KB, Chan DD, Yost KJ 3rd, Choi D, Xiao N, Stasiewicz S, Bushel P, Waters MD.

Bioinformatics. 2006 Apr 1;22(7):874-82. Epub 2006 Jan 12.PMID: 16410321 [PubMed - indexed for MEDLINE]Related articlesFree article

Toxicogenomics.

Gomase VS, Tagore S.

Curr Drug Metab. 2008 Mar;9(3):250-4. Review.PMID: 18336230 [PubMed - indexed for MEDLINE]Related articles