메뉴 건너뛰기




Volumn 340, Issue 5, 2004, Pages 991-1004

Clustering of protein domains in the human genome

Author keywords

bioinformatics; gene clustering; genome evolution; protein domains; tandem repeats

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; CHROMOSOME; DATA BASE; GENE CLUSTER; GENE DUPLICATION; GENE EXPRESSION; HUMAN; HUMAN GENOME; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN LOCALIZATION; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY; TANDEM REPEAT;

EID: 3242812950     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2004.05.036     Document Type: Article
Times cited : (8)

References (54)
  • 1
    • 0032103829 scopus 로고    scopus 로고
    • Gene clusters and polycistronic transcription in eukaryotes
    • Blumenthal T. Gene clusters and polycistronic transcription in eukaryotes. BioEssays. 20:1998;480-487
    • (1998) BioEssays , vol.20 , pp. 480-487
    • Blumenthal, T.1
  • 2
    • 0037194732 scopus 로고    scopus 로고
    • Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans
    • Roy P.J., Stuart J.M., Lund J., Kim S.K. Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans. Nature. 418:2002;975-979
    • (2002) Nature , vol.418 , pp. 975-979
    • Roy, P.J.1    Stuart, J.M.2    Lund, J.3    Kim, S.K.4
  • 3
    • 0037315946 scopus 로고    scopus 로고
    • Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes
    • Lercher M.J., Blumenthal T., Hurst L.D. Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes. Genome Res. 13:2003;238-243
    • (2003) Genome Res. , vol.13 , pp. 238-243
    • Lercher, M.J.1    Blumenthal, T.2    Hurst, L.D.3
  • 4
    • 0003328368 scopus 로고    scopus 로고
    • Evidence for large domains of similarly expressed genes in the Drosophila genome
    • Spellman P.T., Rubin G.M. Evidence for large domains of similarly expressed genes in the Drosophila genome. J. Biol. 1:2002;5
    • (2002) J. Biol. , vol.1 , pp. 5
    • Spellman, P.T.1    Rubin, G.M.2
  • 6
    • 0036613754 scopus 로고    scopus 로고
    • Clustering of housekeeping genes provides a unified model of gene order in the human genome
    • Lercher M.J., Urrutia A.O., Hurst L.D. Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nature Genet. 31:2002;180-183
    • (2002) Nature Genet. , vol.31 , pp. 180-183
    • Lercher, M.J.1    Urrutia, A.O.2    Hurst, L.D.3
  • 7
    • 18544400048 scopus 로고    scopus 로고
    • Positional clustering of differentially expressed genes on human chromosomes 20, 21 and 22
    • Megy K., Audic S., Claverie J.M. Positional clustering of differentially expressed genes on human chromosomes 20, 21 and 22. Genome Biol. 4:2003;1
    • (2003) Genome Biol. , vol.4 , pp. 1
    • Megy, K.1    Audic, S.2    Claverie, J.M.3
  • 8
    • 0038104857 scopus 로고    scopus 로고
    • Genomic gene clustering analysis of pathways in eukaryotes
    • Lee J.M., Sonnhammer E.L. Genomic gene clustering analysis of pathways in eukaryotes. Genome Res. 13:2003;875-882
    • (2003) Genome Res. , vol.13 , pp. 875-882
    • Lee, J.M.1    Sonnhammer, E.L.2
  • 9
    • 0035895502 scopus 로고    scopus 로고
    • The human transcriptome map: Clustering of highly expressed genes in chromosomal domains
    • Caron H., van Schaik B., van der Mee M., Baas F., Riggins G., van Sluis P., et al. The human transcriptome map: clustering of highly expressed genes in chromosomal domains. Science. 291:2001;1289-1292
    • (2001) Science , vol.291 , pp. 1289-1292
    • Caron, H.1    Van Schaik, B.2    Van Der Mee, M.3    Baas, F.4    Riggins, G.5    Van Sluis, P.6
  • 13
    • 0034529964 scopus 로고    scopus 로고
    • The origin of interspecific genomic incompatibility via gene duplication
    • Lynch M., Force A.G. The origin of interspecific genomic incompatibility via gene duplication. Am. Nat. 156:2000;590-605
    • (2000) Am. Nat. , vol.156 , pp. 590-605
    • Lynch, M.1    Force, A.G.2
  • 14
    • 0030716471 scopus 로고    scopus 로고
    • Comparable rates of gene loss and functional divergence after genome duplications early in vertebrate evolution
    • Nadeau J.H., Sankoff D. Comparable rates of gene loss and functional divergence after genome duplications early in vertebrate evolution. Genetics. 147:1997;1259-1266
    • (1997) Genetics , vol.147 , pp. 1259-1266
    • Nadeau, J.H.1    Sankoff, D.2
  • 17
    • 0037047587 scopus 로고    scopus 로고
    • Genomics. Gene duplication and evolution
    • Lynch M. Genomics. Gene duplication and evolution. Science. 297:2002;945-947
    • (2002) Science , vol.297 , pp. 945-947
    • Lynch, M.1
  • 21
    • 0036245495 scopus 로고    scopus 로고
    • Segmental duplications and the evolution of the primate genome
    • Samonte R.V., Eichler E.E. Segmental duplications and the evolution of the primate genome. Nature Rev. Genet. 3:2002;65-72
    • (2002) Nature Rev. Genet. , vol.3 , pp. 65-72
    • Samonte, R.V.1    Eichler, E.E.2
  • 23
    • 0035500899 scopus 로고    scopus 로고
    • Recent duplication, domain accretion and the dynamic mutation of the human genome
    • Eichler E.E. Recent duplication, domain accretion and the dynamic mutation of the human genome. Trends Genet. 17:2001;661-669
    • (2001) Trends Genet. , vol.17 , pp. 661-669
    • Eichler, E.E.1
  • 24
    • 0034831138 scopus 로고    scopus 로고
    • Segmental duplications: Organization and impact within the current human genome project assembly
    • Bailey J.A., Yavor A.M., Massa H.F., Trask B.J., Eichler E.E. Segmental duplications: organization and impact within the current human genome project assembly. Genome Res. 11:2001;1005-1017
    • (2001) Genome Res. , vol.11 , pp. 1005-1017
    • Bailey, J.A.1    Yavor, A.M.2    Massa, H.F.3    Trask, B.J.4    Eichler, E.E.5
  • 25
    • 0042027896 scopus 로고    scopus 로고
    • Structural dynamics of eukaryotic chromosome evolution
    • Eichler E.E., Sankoff D. Structural dynamics of eukaryotic chromosome evolution. Science. 301:2003;793-797
    • (2003) Science , vol.301 , pp. 793-797
    • Eichler, E.E.1    Sankoff, D.2
  • 26
    • 0034634395 scopus 로고    scopus 로고
    • The evolutionary fate and consequences of duplicate genes
    • Lynch M., Conery J.S. The evolutionary fate and consequences of duplicate genes. Science. 290:2000;1151-1155
    • (2000) Science , vol.290 , pp. 1151-1155
    • Lynch, M.1    Conery, J.S.2
  • 27
    • 0242380296 scopus 로고    scopus 로고
    • Conservation, relocation and duplication in genome evolution
    • Castillo-Davis C.I., Hartl D.L. Conservation, relocation and duplication in genome evolution. Trends Genet. 19:2003;593-597
    • (2003) Trends Genet. , vol.19 , pp. 593-597
    • Castillo-Davis, C.I.1    Hartl, D.L.2
  • 28
    • 0037270015 scopus 로고    scopus 로고
    • The evolutionary demography of duplicate genes
    • Lynch M., Conery J.S. The evolutionary demography of duplicate genes. J. Struct. Funct. Genomics. 3:2003;35-44
    • (2003) J. Struct. Funct. Genomics , vol.3 , pp. 35-44
    • Lynch, M.1    Conery, J.S.2
  • 31
    • 0028961335 scopus 로고
    • SCOP: A structural classification of proteins database for the investigation of sequences and structures
    • Murzin A.G., Brenner S.E., Hubbard T., Chothia C. SCOP: a structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol. 247:1995;536-540
    • (1995) J. Mol. Biol. , vol.247 , pp. 536-540
    • Murzin, A.G.1    Brenner, S.E.2    Hubbard, T.3    Chothia, C.4
  • 34
    • 0022706389 scopus 로고
    • The relation between the divergence of sequence and structure in proteins
    • Chothia C., Lesk A.M. The relation between the divergence of sequence and structure in proteins. EMBO J. 5:1986;823-826
    • (1986) EMBO J. , vol.5 , pp. 823-826
    • Chothia, C.1    Lesk, A.M.2
  • 35
    • 0031897589 scopus 로고    scopus 로고
    • Predicting functions from protein sequences-where are the bottlenecks?
    • Bork P., Koonin E.V. Predicting functions from protein sequences-where are the bottlenecks? Nature Genet. 18:1998;313-318
    • (1998) Nature Genet. , vol.18 , pp. 313-318
    • Bork, P.1    Koonin, E.V.2
  • 36
    • 0033597176 scopus 로고    scopus 로고
    • The relationship between protein structure and function: A comprehensive survey with application to the yeast genome
    • Hegyi H., Gerstein M. The relationship between protein structure and function: a comprehensive survey with application to the yeast genome. J. Mol. Biol. 288:1999;147-164
    • (1999) J. Mol. Biol. , vol.288 , pp. 147-164
    • Hegyi, H.1    Gerstein, M.2
  • 38
    • 0035815113 scopus 로고    scopus 로고
    • Evolution of function in protein superfamilies, from a structural perspective
    • Todd A.E., Orengo C.A., Thornton J.M. Evolution of function in protein superfamilies, from a structural perspective. J. Mol. Biol. 307:2001;1113-1143
    • (2001) J. Mol. Biol. , vol.307 , pp. 1113-1143
    • Todd, A.E.1    Orengo, C.A.2    Thornton, J.M.3
  • 39
    • 0034677669 scopus 로고    scopus 로고
    • Assessing annotation transfer for genomics: Quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores
    • Wilson C.A., Kreychman J., Gerstein M. Assessing annotation transfer for genomics: quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores. J. Mol. Biol. 297:2000;233-249
    • (2000) J. Mol. Biol. , vol.297 , pp. 233-249
    • Wilson, C.A.1    Kreychman, J.2    Gerstein, M.3
  • 40
    • 0036308741 scopus 로고    scopus 로고
    • Enzyme function less conserved than anticipated
    • Rost B. Enzyme function less conserved than anticipated. J. Mol. Biol. 318:2002;595-608
    • (2002) J. Mol. Biol. , vol.318 , pp. 595-608
    • Rost, B.1
  • 41
    • 0142106373 scopus 로고    scopus 로고
    • How well is enzyme function conserved as a function of pairwise sequence identity?
    • Tian W., Skolnick J. How well is enzyme function conserved as a function of pairwise sequence identity? J. Mol. Biol. 333:2003;863-882
    • (2003) J. Mol. Biol. , vol.333 , pp. 863-882
    • Tian, W.1    Skolnick, J.2
  • 43
    • 0038438514 scopus 로고    scopus 로고
    • IMPALA: Matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices
    • Schaffer A.A., Wolf Y.I., Ponting C.P., Koonin E.V., Aravind L., Altschul S.F. IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices. Bioinformatics. 15:1999;1000-1011
    • (1999) Bioinformatics , vol.15 , pp. 1000-1011
    • Schaffer, A.A.1    Wolf, Y.I.2    Ponting, C.P.3    Koonin, E.V.4    Aravind, L.5    Altschul, S.F.6
  • 44
    • 0347125239 scopus 로고    scopus 로고
    • 3D-GENOMICS: A database to compare structural and functional annotations of proteins between sequenced genomes
    • Fleming K., Muller A., MacCallum R.M., Sternberg M.J. 3D-GENOMICS: a database to compare structural and functional annotations of proteins between sequenced genomes. Nucl. Acids Res. 32:2004;D245-D250
    • (2004) Nucl. Acids Res. , vol.32
    • Fleming, K.1    Muller, A.2    MacCallum, R.M.3    Sternberg, M.J.4
  • 46
    • 0036613237 scopus 로고    scopus 로고
    • Extensive genomic duplication during early chordate evolution
    • McLysaght A., Hokamp K., Wolfe K.H. Extensive genomic duplication during early chordate evolution. Nature Genet. 31:2002;200-204
    • (2002) Nature Genet. , vol.31 , pp. 200-204
    • McLysaght, A.1    Hokamp, K.2    Wolfe, K.H.3
  • 47
    • 0036613509 scopus 로고    scopus 로고
    • Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate evolution
    • Gu X., Wang Y., Gu J. Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate evolution. Nature Genet. 31:2002;205-209
    • (2002) Nature Genet. , vol.31 , pp. 205-209
    • Gu, X.1    Wang, Y.2    Gu, J.3
  • 49
    • 0037213551 scopus 로고    scopus 로고
    • Vertebrate evolution: Doubling and shuffling with a full deck
    • Durand D. Vertebrate evolution: doubling and shuffling with a full deck. Trends Genet. 19:2003;2-5
    • (2003) Trends Genet. , vol.19 , pp. 2-5
    • Durand, D.1
  • 50
    • 0037227485 scopus 로고    scopus 로고
    • The temporal distribution of gene duplication events in a set of highly conserved human gene families
    • Friedman R., Hughes A.L. The temporal distribution of gene duplication events in a set of highly conserved human gene families. Mol. Biol. Evol. 20:2003;154-161
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 154-161
    • Friedman, R.1    Hughes, A.L.2
  • 51
    • 0037266536 scopus 로고    scopus 로고
    • 2R or not 2R: Testing hypotheses of genome duplication in early vertebrates
    • Hughes A.L., Friedman R. 2R or not 2R: testing hypotheses of genome duplication in early vertebrates. J. Struct. Funct. Genomics. 3:2003;85-93
    • (2003) J. Struct. Funct. Genomics , vol.3 , pp. 85-93
    • Hughes, A.L.1    Friedman, R.2
  • 53
    • 0033977581 scopus 로고    scopus 로고
    • The ASTRAL compendium for protein structure and sequence analysis
    • Brenner S.E., Koehl P., Levitt M. The ASTRAL compendium for protein structure and sequence analysis. Nucl. Acids Res. 28:2000;254-256
    • (2000) Nucl. Acids Res. , vol.28 , pp. 254-256
    • Brenner, S.E.1    Koehl, P.2    Levitt, M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.