Bioinformatics: Not just for sequences anymore

Drug Discovery Today: BIOSILICO

Volumn 1, Issue 3, 2003, Pages 103-111

  Jackson, Donald G ^a   Healy, Matthew D ^a   Davison, Daniel B ^a  

^a BRISTOL MYERS SQUIBB   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; LIGAND; MESSENGER RNA;

AMINO ACID SEQUENCE; BIOINFORMATICS; COMPUTER PROGRAM; DATA BASE; DNA MICROARRAY; DRUG INFORMATION; DRUG RESEARCH; GENBANK; GENE EXPRESSION; GENE SEQUENCE; GENETIC ANALYSIS; GENOME ANALYSIS; INFORMATION PROCESSING; INTERMETHOD COMPARISON; MEDICAL INFORMATION; NONHUMAN; PROTEIN EXPRESSION; QUANTITATIVE ANALYSIS; REAL TIME POLYMERASE CHAIN REACTION; REVIEW; SCIENCE; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 15944396521     PISSN: 17418364     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (36)

1. Cheung, K.H. et al. (1998) A metadata approach to query interoperation between molecular biology databases. Bioinformatics 14, 486-497
2. Gruber, T.R. (1993) A translation approach to portable ontologies. Knowledge Acquisition 5, 199-220
3. Baxevanis, A.D. (2003) The molecular biology database collection: 2003 update. Nucleic Acids Res. 31, 1-12
4. Pruitt, K.D. and Maglott, D.R. (2001) RefSeq and locusLink: NCBI gene-centered resources. Nucleic Acids Res. 29, 137-140
5. Schwartz, S. et al. (2000) PipMaker-a web server for aligning two genomic DNA sequences. Genome Res. 10, 577-586
6. Ashburner, M. et al. (2000) Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat. Genet. 25, 25-29
7. Schuffenhauer, A. et al. (2002) An ontology for pharmaceutical ligands and its application for in silica screening and library design. J. Chem. Inf. Comput. Sci. 42, 947-955
8. Altschul, S.F. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402
9. Ning, Z. et al. (2001) SSAHA: a fast search method for large DNA databases. Genome Res. 11, 1725-1729
10. Kent, W.J. (2002) BLAT-the BLAST-like alignment tool. Genome Res. 12, 656-664
11. Florea, L. et al. (1998) A computer program for aligning a cDNA sequence with a genomic DNA sequence. Genome Res. 8, 967-974
12. Rice, P. et al. (2000) EMBOSS: the European molecular biology open software suite. Trends Genet. 16, 276-277
13. Pearson, W.R. (1994) Using the FASTA program to search protein and DNA sequence databases. Methods Mol. Biol. 24, 307-331
14. Bateman, A. et al. (2002) The Pfam protein families database. Nucleic Acids Res. 30, 276-280
15. Birney, E. et al. (2002) Databases and tools for browsing genomes. Annu. Rev. Genomics Hum. Genet. 3, 293-310
16. Hubbard, T. et al. (2002) The Ensembl genome database project. Nucleic Acids Res. 30, 38-41
17. Stein, L.D. et al. (2002) The generic genome browser: a building block for a model organism system database. Genome Res. 12, 1599-1610
18. Dermitzakis, E.T. et al. (2002) Numerous potentially functional but non-genic conserved sequences on human chromosome 21. Nature 420, 578-582
19. Gitton, Y. et al. (2002) A gene expression map of human chromosome 21 orthologues in the mouse. Nature 420, 586-590
20. Reymond, A. et al. (2002) Human chromosome 21 gene expression atlas in the mouse. Nature 420, 582-586
21. Cockett, M. et al. (2000) Applied genomics: integration of the technology within pharmaceutical research and development. Curr. Opin. Biotechnol. 11, 602-609
22. Holden, A.L. (2002) The SNP consortium: summary of a private consortium effort to develop an applied map of the human genome. Biotechniques Suppl 22-24, 26
23. Hirakawa, M. et al. (2002) JSNP: a database of common gene variations in the Japanese population. Nucleic Acids Res. 30, 158-162
24. Sherry, S.T. et al. (2001) dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 29, 308-311
25. Bassett, D.E., Jr et al. (1999) Gene expression informatics-it's all in your mine. Nat. Genet. 21(Suppl. 1), 51-55
26. Tamayo, P. et al. (1999) Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation. Proc. Natl. Acad. Sci. U. S. A. 96, 2907-2912
27. Ikaha, R. and Gentlemen, R. (1996) A language for data analysis and graphics. J. Comput. Graph. Stat. 5, 299-314
28. Mootha, V.K. et al. (2003) Identification of a gene causing human cytochrome c oxidase deficiency by integrative genomics. Proc. Natl. Acad. Sci. U. S. A. 100, 605-610
29. Brazma, A. et al. (2001) Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nat. Genet. 29, 365-371
30. Zhou, H. et al. (2002) Quantitative proteome analysis by solid-phase isotope tagging and mass spectrometry. Nat. Biotechnol. 20, 512-515
31. Hodges, P.E. et al. (1999) The Yeast Proteome Database (YPD): a model for the organization and presentation of genome-wide functional data. Nucleic Acids Res. 27, 69-73
32. Hodges, P.E. et al. (2002) Annotating the human proteome: the human proteome survey database (HumanPSD) and an in-depth target database for G protein-coupled receptors (GPCR-PD) from Incyte Genomics. Nucleic Acids Res. 30, 137-141
33. Dowell, R.D. et al. (2001) The distributed annotation system. BMC Bioinformatics 2, 7
34. Kitano, H. (2002) Computational systems biology. Nature 420, 206-210
35. Ideker, T. et al. (2001) A new approach to decoding life: systems biology. Annu. Rev. Genomics Hum. Genet. 2, 343-372
36. No authors (1999) Annote bene. Nat. Genet. 23, 125-126