Automatic gene collection system for genome-scale overview of G-protein coupled receptors in eukaryotes

Gene

Volumn 364, Issue 1-2, 2005, Pages 63-73

  Ono, Yukiteru ^a,b   Fujibuchi, Wataru ^a   Suwa, Makiko ^a  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^b Information and Mathematics Science Laboratory Inc   (Japan)

Author keywords

Comparative genomics; Gene cluster; Gene finding; GPCR

Indexed keywords

CHEMOKINE RECEPTOR; G PROTEIN COUPLED RECEPTOR;

AUTOMATION; CHROMOSOME; COMPUTER PROGRAM; CONFERENCE PAPER; DATA BASE; EUKARYOTE; FLY; GENE CLUSTER; GENE SEQUENCE; GENOME; HUMAN; KOLMOGOROV SMIRNOV TEST; MEMBRANE; MULTIGENE FAMILY; NEMATODE; NONHUMAN; OLFACTORY RECEPTOR; PREDICTION; PRIORITY JOURNAL; PROKARYOTE; PROTEIN DOMAIN; PROTEIN MOTIF; SCALE UP; SEQUENCE ALIGNMENT; SPECIES DIFFERENCE; TASTE BUD; WORM;

ANIMALS; AUTOMATION; DATABASES, NUCLEIC ACID; GENOME; HUMANS; PLANTS; RECEPTORS, G-PROTEIN-COUPLED; SPECIES SPECIFICITY;

EUKARYOTA; PROKARYOTA;

EID: 28844497461     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2005.05.038     Document Type: Conference Paper

References (39)

1. S.F. Altschul Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Nucleic Acids Res. 25 1997 3389 3402
2. K. Asai, K. Itou, Y. Ueno, and T. Yada Recognition of Human Genes by Stochastic Parsing Pacific Symposium on Biocomputing vol. 98 1998 228 239 PSB98, 1998
3. A. Bairoch Prosite: a dictionary of sites and patterns in proteins Nucleic Acids Res. 20 1992 2013 2018
4. A. Bateman, E. Birney, R. Durbin, S.R. Eddy, K.L. Howe, and E.L. Sonnhammer The Pfam protein families' database Nucleic Acids Res. 28 2000 263 266
5. Bauer, H. et al. 2000. Characterization of p40/GPR69A as a peripheral membrane protein related to the lantibiotic s ynthetase component C, Biochemical and Biophysical Research Communications. 275, Issue 1, 18, 69-74.
6. N. Ben-Arie Olfactory receptor gene cluster on human chromosome 17: possible duplication of an ancestral receptor repertoire Hum. Mol. Genet. 3 1994 229 235
7. J.A. Buettner Organization and evolution of olfactory receptor genes on human chromosome 11 Genomics 53 1998 56 68
8. I.M. Chakravarti, R.G. Laha, and J. Roy Handbook of Methods of Applied Statistics vol. I 1967 John Wiley and Sons 392 394
9. N. Chen Identification of a nematode chemosensory gene family Proc. Natl. Acad. Sci. U. S. A. 4 2005 146 151
10. C. Crasto Olfactory receptor database: a metadata-driven automated population from sources of gene and protein sequences Nucl. Acids Res. 30 2002 354 360
11. J. Drews Genomic sciences and the medicine of tomorrow Nat. Biotechnol. 14 1996 1516 1518
12. R. Fredriksson, and H.B. Schioh The repertoire of G-protein coupled receptors in fully sequence genomes Mol. Pharmacol. 67 2005 1414 1425
13. R. Fredriksson The G-protein-coupled receptors in the human genome form five main families. Phylogenetic analysis, paralogon groups, and fingerprints Mol. Pharmacol. 63 2003 1202 1205
14. I. Gaillard, S. Rouquier, and D. Giorgi Olfactory receptors Cell. Mol. Life Sci. 61 2004 456 469
15. G. Glusman The complete human olfactory subgenome Genome Res. 11 2001 685 702
16. O. Gotoh Homology-based gene structure prediction: simplified matching algorithm using a translated codon (tron) and improved accuracy by allowing for long gaps Bioinformatics 16 2000 190 202
17. D.S. Hekmat-Scafe Genome-wide analysis of the odorant-binding protein gene family in Drosophila melanogaster Genome Res. 12 2002 1357 1369
18. C.A. Hill G protein-coupled receptors in Anopheles gambiae Science 298 2002 176 178
19. T. Hirokawa, S. Boon-Chieng, and S. Mitaku SOSUI: classification and secondary structure prediction system for membrane proteins Bioinformatics 14 1998 378 379
20. P.E. Hodges Annotating the human proteome: the Human Proteome Survey Database (HumanPSDTM) and an in-depth target database for G protein-coupled receptors (GPCR-PDTM) from Incyte Genomics Nucleic Acids Res. 30 2002 137 141
21. F. Horn, G. Vriend, and F.E. Cohen Collecting and harvesting biological data: the GPCRDB and NucleaRDB information systems Nucleic Acids Res. 29 2001 346 349
22. International Human Genome Sequencing Consortium Initial sequencing and analysis of the human genome Nature 409 2001 860 921
23. E. Jacquin-Joly, and C. Merlin Insect olfactory receptors: contributions of molecular biology to chemical ecology J. Chem. Ecol. 30 2004 2359 2397
24. L.G. Josefsson Evidence for kinship between diverse G-protein coupled receptors Gene 239 1999 333 340
25. H. Mayer Isolation, molecular characterization, and tissue-specific expression of a novel putative G protein-coupled receptor Biochim. Biophys. Acta 1395 1998 301 308
26. Y. Niimura, and M. Nei Evolution of olfactory receptor genes in the human genome Proc. Natl. Acad. Sci. U. S. A. 100 2003 12235 12240
27. Y. Niimura, and M. Nei Comparative evolutionary analysis of olfactory receptor gene clusters between humans and mice Gene 7 2005 (Electronic publication ahead of print)
28. T. Okada, I. Le Trong, B.A. Fox, C.A. Behnke, R.E. Stenkamp, and K. Palczewski X-ray diffraction analysis of three-dimensional crystals of bovine rhodopsin obtained from mixed micelles J. Struct. Biol. 130 2000 73 80
29. L. Perfus-Barbeoch, A.M. Jones, and S.M. Assmann Plant heterotrimeric G protein function: insights from Arabidopsis and rice mutants Curr. Opin. Plant Biol. 7 2004 719 731
30. C.G. Richard, and S. Wolfgang Evolutionary relationships among G protein-coupled receptors using a clustered database approach AAPS. PharmSci. 3 2001 E12
31. H.M. Robertson Molecular evolution of the insect chemoreceptor gene superfamily in Drosophila melanogaster PNAS 25 100 Suppl. 2 2003 14537 14542
32. S. Rouquier Distribution of olfactory receptors gene in human genome Nat. Genet. Mar. 18 3 1998 243 250
33. G.M. Rubin Comparative genomics of the eucaryotes Science 287 2000 2204 2214
34. T.F. Smith, and M.S. Waterman Identification of common molecular subsequences J. Mol. Biol. 147 1981 195 197
35. M. Tegoni Mammalian odorant binding proteins Biochem. Biophys. Acta 1482 2000 229 240
36. B.J. Trask Members of olfactory receptor gene family are contained in large blocks of DNA duplicated polymoephically near the ends of human chromosomes Hum. Mol. Genet. 7 1998 13 26
37. D.K. Vassilatis The G protein-coupled receptor repertoires of human and mouse Proc Natl. Acad. Sci. U. S. A. 100 2003 4903 4908 (Electronic publication Apr. 4)
38. J.C. Venter The sequence of the human genome Science 291 2001 1304 1351
39. S. Zozulya The human olfactory receptor repertoire Genome Biol. 2 2001 (RESEARCH0018. Electronic publication 2001 Jun 1)