Annotation and cross-indexing of array elements on multiple platforms

Environmental Health Perspectives

Volumn 112, Issue 4, 2004, Pages 506-510

  Mattes, William B ^a,b  

^a PFIZER INC   (United States)

^b Gene Logic   (United States)

Author keywords

Annotation; Cross platform; Indexing; LocusLink; Microarray; UniGene

Indexed keywords

ARTICLE; DNA MICROARRAY; GENBANK; GENE EXPRESSION; GENE LOCUS; GENETIC ALGORITHM; GENETIC DATABASE; GENETIC TOXICOLOGY; LOCUSLINK; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE DATABASE; UNIGENE;

EID: 1542331972     PISSN: 00916765     EISSN: None     Source Type: Journal    
DOI: 10.1289/ehp.6698     Document Type: Article

References (17)

1. 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.
2. Bouton CM, Pevsner J. 2000. DRAGON: Database referencing of array genes online. Bioinformatics 16:1038-1039.
3. Chao KM, Pearson WR, Miller W. 1992. Aligning two sequences within a specified diagonal band. Comput Appl Biosci 8:481-487.
4. Dennis G Jr, Sherman ST, Hosack DA, Yang J, Gao W, Lane HC, et al. 2003. DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol 4:P3.
5. Kokame K, Kato H, Miyata T. 1996. Homocysteine-respondent genes in vascular endothelial cells identified by differential display analysis. GRP78/BiP and novel genes. J Biol Chem 271:29695-29765.
6. Kramer JA, Pettit SD, Amin RP, Bertram TA, Car BD, Cunningham M, et al. 2004. Overview of the application of transcription profiling using selected nephrotoxicants for toxicology assessment. Environ Health Perspect 112:495-505.
7. Liu G, Loraine AE, Shigeta R, Cline M, Cheng J, Valmeekam V, et al. 2003. NetAffx: Affymetrix probesets and annotations. Nucleic Acids Res 31:82-86.
8. Mattes WB, Pettit SD, Sansone S-A, Bushel PR, Waters M, et al. 2004. Database development in toxicogenomics: Issues and efforts. Environ Health Perspect 112:495-505.
9. Pruitt KD, Maglott DR. 2001. RefSeq and LocusLink: NCBI gene-centered resources. Nucleic Acids Res 29:137-140.
10. Thompson KL, Afshari CA, Amin R, Bertram TA, Car B, Cunningham M, et al. 2004. Identification of platform-independent gene expression markers of cisplatin nephrotoxicity. Environ Health Perspect 112:488-494
11. Tsai J, Sulatan R, Lee Y, Pertea G, Karamycheva S, Antonescu V, et al. 2001. Resourcerer: A database for annotating and linking microarray resources within and across species. Genome Biol 2:1-4.
12. Van BN, Dinjens WN, Diesveld MP, Groan NA, Van der Made AC, Nozawa Y, et al. 1997. A novel gene which is up-regulated during colon epithelial cell differentiation and down-regulated in colorectal neoplasms. Lab Invest 77:85-92.
13. Wain H, White J, Povey S. 1999. The changing challenges of nomenclature. Cytogenet Cell Genet 86:162-164.
14. Wheeler DL, Chappey C, Lash AE, Leipe DD, Madden TL, Schuler GD, et al. 2000. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 28:10-14.
15. White J, Wain H, Bruford E, Povey S. 1999. Promoting a standard nomenclature for genes and proteins. Nature 402:347.
16. Zhong S, Li C, Wong WH. 2003. ChipInfo: Software for extracting gene annotation and gene ontology information for microarray analysis. Nucleic Acids Res 31:3483-3486.
17. 2+ compounds. Cancer Res 58:2182-2189.