메뉴 건너뛰기




Volumn 6, Issue 1, 2008, Pages 1-22

Two plus two does not equal three: Statistical testa for multiple genome comparison

Author keywords

Conserved linkage; Conserved synteny; Gene clusters; Spatial genomics

Indexed keywords

CHROMOSOME; COMPARATIVE STUDY; CONFERENCE PAPER; GENE CLUSTER; GENETIC ANALYSIS; GENETIC LINKAGE; GENETIC MODEL; GENOME; STATISTICAL ANALYSIS;

EID: 44049103784     PISSN: 02197200     EISSN: None     Source Type: Journal    
DOI: 10.1142/S0219720008003242     Document Type: Conference Paper
Times cited : (4)

References (27)
  • 1
    • 1842427830 scopus 로고    scopus 로고
    • The evolutionary dynamics of eukaryotic gene order
    • Hurst L, Pál C, Lercher M, The evolutionary dynamics of eukaryotic gene order, Nat Rev Genet 5(4):299-310, 2004.
    • (2004) Nat Rev Genet , vol.5 , Issue.4 , pp. 299-310
    • Hurst, L.1    Pál, C.2    Lercher, M.3
  • 2
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • Venter J et al., The sequence of the human genome, Science 291(5507):1304-1351, 2001.
    • (2001) Science , vol.291 , Issue.5507 , pp. 1304-1351
    • Venter, J.1
  • 3
    • 1042276327 scopus 로고    scopus 로고
    • Fast identification and statistical evaluation of segmental homologies in comparative maps
    • Calabrese P, Chakravarty S, Vision T, Fast identification and statistical evaluation of segmental homologies in comparative maps, Bioinformancs 19(Suppl 1):i74-i80, 2003.
    • (2003) Bioinformancs , vol.19 , Issue.SUPPL. 1
    • Calabrese, P.1    Chakravarty, S.2    Vision, T.3
  • 4
    • 0242606435 scopus 로고    scopus 로고
    • Tests for gene clustering
    • Durand D, Sankoff D, Tests for gene clustering. J Comput Biol 10(3-4): 453-482, 2003.
    • (2003) J Comput Biol , vol.10 , Issue.3-4 , pp. 453-482
    • Durand, D.1    Sankoff, D.2
  • 5
    • 27644546689 scopus 로고    scopus 로고
    • The statistical analysis of spatially clustered genes under the maximum gap criterion
    • Hoberman R, Sankoff D, Durand D, The statistical analysis of spatially clustered genes under the maximum gap criterion, J Comput Biol 12(8):1081-1100, 2005.
    • (2005) J Comput Biol , vol.12 , Issue.8 , pp. 1081-1100
    • Hoberman, R.1    Sankoff, D.2    Durand, D.3
  • 6
    • 0036613237 scopus 로고    scopus 로고
    • Extensive genomic duplication during early chordate evolution
    • McLysaght A, Hokamp K, Wolfe K, Extensive genomic duplication during early chordate evolution, Nat Genet 31(2):200-204, 2002.
    • (2002) Nat Genet , vol.31 , Issue.2 , pp. 200-204
    • McLysaght, A.1    Hokamp, K.2    Wolfe, K.3
  • 7
    • 33344477619 scopus 로고    scopus 로고
    • Raghupathy N, Durand D, Individual gene cluster statistics in noisy maps, in RECOMB 2005 Workshop on Comparative Genomics, 3678 of LNBI, Springer-Verlag, Berlin, pp. 106-120, 2005.
    • Raghupathy N, Durand D, Individual gene cluster statistics in noisy maps, in RECOMB 2005 Workshop on Comparative Genomics, Vol. 3678 of LNBI, Springer-Verlag, Berlin, pp. 106-120, 2005.
  • 8
    • 0035099929 scopus 로고    scopus 로고
    • Synteny of orthologous genes conserved in mammals, snake, fly, nematode, and fission yeast
    • 12:227-231
    • Trachtulec Z, Forejt J, Synteny of orthologous genes conserved in mammals, snake, fly, nematode, and fission yeast, Mamm Genome 3 12):227-231, 2001.
    • (2001) Mamm Genome , vol.3
    • Trachtulec, Z.1    Forejt, J.2
  • 9
    • 0036852286 scopus 로고    scopus 로고
    • The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice
    • Vandepoele K, Saeys Y, Simillion C, Raes J, Van De Peer Y, The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice, Genome Res 12(11):1792-1801, 2002.
    • (2002) Genome Res , vol.12 , Issue.11 , pp. 1792-1801
    • Vandepoele, K.1    Saeys, Y.2    Simillion, C.3    Raes, J.4    Van De Peer, Y.5
  • 10
    • 0037313579 scopus 로고    scopus 로고
    • A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome
    • Blanc G, Hokamp K, Wolfe K, A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome, Genome Res 13(2):137-144, 2003.
    • (2003) Genome Res , vol.13 , Issue.2 , pp. 137-144
    • Blanc, G.1    Hokamp, K.2    Wolfe, K.3
  • 11
    • 26444603772 scopus 로고    scopus 로고
    • Two rounds of whole genome duplication in the ancestral vertebrate
    • Dehal P, Boore J, Two rounds of whole genome duplication in the ancestral vertebrate, PLoS Biol 3(10):e314, 2005.
    • (2005) PLoS Biol , vol.3 , Issue.10
    • Dehal, P.1    Boore, J.2
  • 12
    • 0034668036 scopus 로고    scopus 로고
    • Automatic detection of conserved gene clusters in multiple genomes by graph compaxison and P-quasi grouping
    • Fujibuchi W, Ogata H, Matsuda H, Kanchisa M, Automatic detection of conserved gene clusters in multiple genomes by graph compaxison and P-quasi grouping, Nucleic Acids Res 28(20):4029-4036, 2000.
    • (2000) Nucleic Acids Res , vol.28 , Issue.20 , pp. 4029-4036
    • Fujibuchi, W.1    Ogata, H.2    Matsuda, H.3    Kanchisa, M.4
  • 13
    • 23844501306 scopus 로고    scopus 로고
    • Identifying conserved gene clusters in the presence of homology families
    • He X, Goldwasser M, Identifying conserved gene clusters in the presence of homology families, J Comput Biol 12(6):638-656, 2005.
    • (2005) J Comput Biol , vol.12 , Issue.6 , pp. 638-656
    • He, X.1    Goldwasser, M.2
  • 14
    • 0042423438 scopus 로고    scopus 로고
    • Gene teams: A new formalization of gene clusters for comparative genomics
    • Luc N, Risler J, Bergeron A, Raffinot M, Gene teams: A new formalization of gene clusters for comparative genomics, Comput Biol Chem 27 1):59-67, 2003.
    • (2003) Comput Biol Chem , vol.27 , Issue.1 , pp. 59-67
    • Luc, N.1    Risler, J.2    Bergeron, A.3    Raffinot, M.4
  • 15
    • 26444609698 scopus 로고    scopus 로고
    • Identifying evolutionarily conserved segments among multiple divergent and rearranged genomes
    • Lagergren J ed, RECOMB Satellite Workshop on Comparative Genomics, Springer-Verlag, Berlin, pp
    • Mau B, Darling A, Perna N, Identifying evolutionarily conserved segments among multiple divergent and rearranged genomes, in Lagergren J (ed.), RECOMB Satellite Workshop on Comparative Genomics, Lecture Notes in Bioinformatics, Springer-Verlag, Berlin, pp. 72-84, 2004.
    • (2004) Lecture Notes in Bioinformatics , pp. 72-84
    • Mau, B.1    Darling, A.2    Perna, N.3
  • 16
    • 0034667776 scopus 로고    scopus 로고
    • A heuristic graph comparison algorithm and its application to detect functionally related enzyme clusters
    • Ogata H, Fujibuchi W, Goto S, Kanehisa M, A heuristic graph comparison algorithm and its application to detect functionally related enzyme clusters, Nucleic Acids Res 28(20):4021-4028, 2000.
    • (2000) Nucleic Acids Res , vol.28 , Issue.20 , pp. 4021-4028
    • Ogata, H.1    Fujibuchi, W.2    Goto, S.3    Kanehisa, M.4
  • 17
    • 44049092598 scopus 로고    scopus 로고
    • Pasek S, Bergeron A, Risler J, Louis A, Ollivier E, Raffinot M, Identification of. genomic features using domain teams, Technical Report 01-07-2004-LGI, Laboratoire Génome et Informatique, Evry, France, 2004.
    • Pasek S, Bergeron A, Risler J, Louis A, Ollivier E, Raffinot M, Identification of. genomic features using domain teams, Technical Report 01-07-2004-LGI, Laboratoire Génome et Informatique, Evry, France, 2004.
  • 18
    • 7244259101 scopus 로고    scopus 로고
    • Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype
    • Jaillon O et al., Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype, Nature 431(7011):946-957, 2004.
    • (2004) Nature , vol.431 , Issue.7011 , pp. 946-957
    • Jaillon, O.1
  • 19
    • 0034255126 scopus 로고    scopus 로고
    • Comparing sequenced segments of the tomato and Arabidopsis genomes: Large-scale duplication followed by selective gene loss creates a network of synteny
    • Ku H, Vision T, Liu J, Tanksley S, Comparing sequenced segments of the tomato and Arabidopsis genomes: Large-scale duplication followed by selective gene loss creates a network of synteny, Proc Natl Acad Sci USA 97(16):9121-9126, 2000.
    • (2000) Proc Natl Acad Sci USA , vol.97 , Issue.16 , pp. 9121-9126
    • Ku, H.1    Vision, T.2    Liu, J.3    Tanksley, S.4
  • 20
    • 0036889658 scopus 로고    scopus 로고
    • Detecting the undetectable: Uncovering duplicated segments in Arabidopsis by comparison with rice
    • Vandepoele K, Simillion C, Van de Peer Y, Detecting the undetectable: Uncovering duplicated segments in Arabidopsis by comparison with rice, Trends Genet 18(12):604-606, 2002.
    • (2002) Trends Genet , vol.18 , Issue.12 , pp. 604-606
    • Vandepoele, K.1    Simillion, C.2    Van de Peer, Y.3
  • 21
    • 0141564555 scopus 로고    scopus 로고
    • Evidence that rice and other cereals are ancient aneuploids
    • Vandepoele K, Simillion C, Van de Peer Y, Evidence that rice and other cereals are ancient aneuploids, Plant Cell 15(9):2192-2202, 2003.
    • (2003) Plant Cell , vol.15 , Issue.9 , pp. 2192-2202
    • Vandepoele, K.1    Simillion, C.2    Van de Peer, Y.3
  • 22
    • 33645023614 scopus 로고    scopus 로고
    • Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts
    • Scannell D, Byrne K, Gordon J, Wong S, Wolfe K, Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts, Nature 440(7082):341-345, 2006.
    • (2006) Nature , vol.440 , Issue.7082 , pp. 341-345
    • Scannell, D.1    Byrne, K.2    Gordon, J.3    Wong, S.4    Wolfe, K.5
  • 23
    • 8844271705 scopus 로고    scopus 로고
    • Recent developments in computational approaches for uncovering genomic homology
    • Simillion C, Vandepoele K, Van de Peer Y, Recent developments in computational approaches for uncovering genomic homology, Bioessays 26(11):1225-1235, 2004.
    • (2004) Bioessays , vol.26 , Issue.11 , pp. 1225-1235
    • Simillion, C.1    Vandepoele, K.2    Van de Peer, Y.3
  • 24
    • 28944431533 scopus 로고    scopus 로고
    • Conserved synteny between the Ciona genome and human paralogons identifies large duplications events in the molecular evolution of the insulin-relaxin gene family
    • Olinski R, Lundin L, Hallböök F, Conserved synteny between the Ciona genome and human paralogons identifies large duplications events in the molecular evolution of the insulin-relaxin gene family, Mol Biol Evol 23(1):10-22, 2006.
    • (2006) Mol Biol Evol , vol.23 , Issue.1 , pp. 10-22
    • Olinski, R.1    Lundin, L.2    Hallböök, F.3
  • 25
    • 0030660581 scopus 로고    scopus 로고
    • A genomic perspective on protein families
    • Tatusov R, Koonin E, Lipman D, A genomic perspective on protein families, Science 278(5338):631-637, 1997.
    • (1997) Science , vol.278 , Issue.5338 , pp. 631-637
    • Tatusov, R.1    Koonin, E.2    Lipman, D.3
  • 26
    • 25844471721 scopus 로고    scopus 로고
    • The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species
    • Byrne KP, Wolfe K, The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species, Genome Res 15(10):1456-1461, 2005.
    • (2005) Genome Res , vol.15 , Issue.10 , pp. 1456-1461
    • Byrne, K.P.1    Wolfe, K.2
  • 27
    • 1942452749 scopus 로고    scopus 로고
    • Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae
    • Kellis M, Birren B, Lander E, Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae, Nature 428(6983):617-624, 2004.
    • (2004) Nature , vol.428 , Issue.6983 , pp. 617-624
    • Kellis, M.1    Birren, B.2    Lander, E.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.