Array track - Supporting toxicogenomic research at the U.S. Food and Drug Administration National Center for Toxicological Research

Environmental Health Perspectives

Volumn 111, Issue 15, 2003, Pages 1819-1826

  Tong, Weida ^a   Cao, Xiaoxi ^b   Harris, Stephen ^b   Sun, Hongmei ^b   Fang, Hong ^b   Fuscoe, James ^c   Harris, Angela ^a   Hong, Huixiao ^b   Xie, Qian ^b   Perkins, Roger ^b   Shi, Leming ^a   Casciano, Dan ^a  

^a NATIONAL CENTER FOR TOXICOLOGICAL RESEARCH   (United States)

^b NORTHROP GRUMMAN CORPORATION   (United States)

^c US Food and Drug Admistration   (United States)

Author keywords

Bioinformatics; Data analysis; Database; Genomics; Infrastructure; MIAME; Microarray; Systems toxicology; Toxicogenomics; Toxicology

Indexed keywords

DNA;

ANALYTIC METHOD; ARTICLE; BIOINFORMATICS; DATA ANALYSIS; DNA MICROARRAY; FOOD AND DRUG ADMINISTRATION; GENE FUNCTION; GENE MAPPING; GENETIC DATABASE; GENETIC TOXICOLOGY; GENOMICS; HUMAN; IN VITRO STUDY; IN VIVO STUDY; MEDICAL RESEARCH; METABOLISM; MOLECULAR GENETICS; PRIORITY JOURNAL; PROTEOMICS; STANDARDIZATION; UNITED STATES; FACTUAL DATABASE; GENE LIBRARY; MEDICAL INFORMATICS; ORGANIZATION AND MANAGEMENT; PROTEIN MICROARRAY; REFERENCE VALUE; REVIEW; STANDARD; STATISTICS; TOXICOGENETICS; TOXICOLOGY;

DATABASES, FACTUAL; GENE LIBRARY; HUMANS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEIN ARRAY ANALYSIS; PUBLIC HEALTH INFORMATICS; PUBLIC SECTOR; REFERENCE VALUES; STATISTICS; TOXICOGENETICS; TOXICOLOGY; UNITED STATES; UNITED STATES FOOD AND DRUG ADMINISTRATION;

EID: 0346243568     PISSN: 00916765     EISSN: None     Source Type: Journal    
DOI: 10.1289/ehp.6497     Document Type: Article

References (32)

1. Anonymous. 2002. Microarray standards at last [Letter]. Nature 419:323.
2. Aardema MJ, MacGregor JT. 2002. Toxicology and genetic toxicology in the new era of "toxicogenomics": impact of "-omics" technologies. Mutat Res 499:13-25.
3. Afshari CA, Nuwaysir EF, Barrett JC. 1999. Application of complementary DNA microarray technology to carcinogen identification, toxicology, and drug safety evaluation. Cancer Res 59:4759-4760.
4. Anonymous. 2002. Microarray standards at last [Letter]. Nature 419:323.
5. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, et al. 2000. Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat Genet 25:25-29.
6. Ball CA, Sherlock G, Parkinson H, Rocca-Sera P, Brooksbank C, Causton HC, et al. 2002. An open letter to the scientific journals [Letter]. Science 298(5593):539;
7. Bioinformatics 18(11):1409;
8. Lancet 360:1019.
9. Baxevanis AD. 2003. The molecular biology database collection: 2003 update. Nucleic Acids Res 31:1-12.
10. Bellenson JL. 1999. Expression data and the bioinformatics challenges. In: DNA Microarrays: A Practical Approach (Schena M, ed). Oxford, UK:Oxford University Press.
11. Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. 2003. GenBank. Nucleic Acids Res 31:23-27.
12. Boeckmann B, Bairoch A, Apweiler R, Blatter MC, Estreicher A, Gasteiger E, et al. 2003. The SWISS-PROT protein knowledgebase and its supplement TREMBL in 2003. Nucleic Acids Res 31:365-370.
13. Brazma A, Hingamp P, Quackenbush J, Sherlock G, Spellman P, Stoeckert C, et al. 2001. Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nat Genet 29:365-371.
14. Brazma A, Parkinson H, Sarkans U, Shojatalab M, Vilo J, Abeygunawardena N, et al. 2003. ArrayExpress - a public repository for microarray gene expression data at the EBI. Nucleic Acids Res 31:68-71.
15. Edgar R, Domrachev M, Lash AE. 2002. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res 30:207-210.
16. Gardiner-Garden M, Littlejohn TG. 2001. A comparison of microarray databases. Brief Bioinform 2:143-158.
17. Gold LS, Zeiger E. 1997. Handbook of Carcinogenic Potency and Genotoxicity Databases. Boca Raton, FL:CRC Press.
18. Hamadeh HK, Amin RP, Paules RS, Afshari CA. 2002. An overview of toxicogenomics. Curr Issues Mol Biol 4:45-56.
19. Kanehisa M. 2002. The KEGG database. Novartis Found Symp 247:91-101.
20. Marshall A, Hodgson J. 1998. DNA chips: an array of possibilities. Nat Biotechnol 16:27-31.
21. Medlin J. 2002. Toxicogenomics research consortium sails into uncharted waters. Environ Health Perspect 110:A744-A746.
22. Nucleic Acids Research. 2003. 2003 database issue. Nucleic Acids Res 31(1):1-516.
23. Nuwaysir EF, Bittner M, Trent J, Barrett JC, Afshari CA. 1999. Microarrays and toxicology: the advent of toxigenomics. Mol Carcinog 24:153-159.
24. Ramsay G. 1998. DNA chips: state-of-the art. Nat Biotechnol 16:40-44.
25. Schmidt CW. 2002. Toxicogenomics: an emerging discipline. Environ Health Perspect 110:A750-A755.
26. Spellman PT, Miller M, Stewart J, Troup C, Sarkans U, Chervitz S, et al. 2002. A. Design and implementation of microarray gene expression markup language (MAGE-ML). Genome Biol 3(9):R46.
27. Spengler SJ. 2000. Techview: computers and biology. Bioinformatics in the information age. Science 287:1221, 1223.
28. Tennant RW. 2002. The national center for toxicogenomics: using new technologies to inform mechanistic toxicology. Environ Health Perspect 110:A8-A10.
29. Tong W, Hong H, Fang H, Xie Q, Perkins R. 2003. Decision forest: combining the predictions of multiple independent decision tree model. J Chem Info Comput Sci 43:525-531.
30. Tong W, Perkins R, Fang H, Hong H, Xie Q, Branham SW, et al. 2002. Development of quantitative structure-activity relationships (QSARs) and their use for priority setting in the testing strategy of endocrine disruptors. Regul Res Perspect 1:1-16.
31. Ulrich R, Friend SH. 2002. Toxicogenomics and drug discovery: will new technologies help us produce better drugs? Nat Rev Drug Discov 1:84-88.
32. Waters M, Boorman G, Bushel P, Cunningham M, Irwin R, Merrick A, et al. 2003. Systems toxicology and the chemical effects in biological systems (CEBS) knowledge base. Environ Health Perspect 111:811-824.