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Volumn 22, Issue 4, 2006, Pages 187-193

Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons

Author keywords

[No Author keywords available]

Indexed keywords

COMPARATIVE STUDY; EXON; GENE SEQUENCE; GENOME ANALYSIS; HUMAN; METHODOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOLOGY; PHYLOGENY; PRIORITY JOURNAL; SEPARATION TECHNIQUE; SEQUENCE ALIGNMENT; SHORT SURVEY; SPECIES DIFFERENCE; SPECIES IDENTIFICATION; VERTEBRATE;

EID: 33645875606     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2006.02.005     Document Type: Short Survey
Times cited : (34)

References (25)
  • 1
    • 0344153727 scopus 로고    scopus 로고
    • Genomic regulatory regions: insights from comparative sequence analysis
    • Cooper G.M., and Sidow A. Genomic regulatory regions: insights from comparative sequence analysis. Curr. Opin. Genet. Dev. 13 (2003) 604-610
    • (2003) Curr. Opin. Genet. Dev. , vol.13 , pp. 604-610
    • Cooper, G.M.1    Sidow, A.2
  • 2
    • 3142740663 scopus 로고    scopus 로고
    • Hardison, R.C. (2003) Comparative genomics. PLoS Biol. DOI:10.1371/journal.pbio.0000058 (http://biology.plosjournals.org/)
  • 3
    • 0348184969 scopus 로고    scopus 로고
    • Comparative genomic analysis as a tool for biological discovery
    • Nobrega M.A., and Pennacchio L.A. Comparative genomic analysis as a tool for biological discovery. J. Physiol. 554 (2004) 31-39
    • (2004) J. Physiol. , vol.554 , pp. 31-39
    • Nobrega, M.A.1    Pennacchio, L.A.2
  • 4
    • 0037380723 scopus 로고    scopus 로고
    • Comparative genomics: genome-wide analysis in metazoan eukaryotes
    • Ureta-Vidal A., et al. Comparative genomics: genome-wide analysis in metazoan eukaryotes. Nat. Rev. Genet. 4 (2003) 251-262
    • (2003) Nat. Rev. Genet. , vol.4 , pp. 251-262
    • Ureta-Vidal, A.1
  • 6
    • 3042740671 scopus 로고    scopus 로고
    • Comparative genomics at the vertebrate extremes
    • Boffelli D., et al. Comparative genomics at the vertebrate extremes. Nat. Rev. Genet. 5 (2004) 456-465
    • (2004) Nat. Rev. Genet. , vol.5 , pp. 456-465
    • Boffelli, D.1
  • 7
    • 17244379179 scopus 로고    scopus 로고
    • The many faces of sequence alignment
    • Batzoglou S. The many faces of sequence alignment. Brief. Bioinform. 6 (2005) 6-22
    • (2005) Brief. Bioinform. , vol.6 , pp. 6-22
    • Batzoglou, S.1
  • 8
    • 0035011227 scopus 로고    scopus 로고
    • Comparison of genomic DNA sequences: solved and unsolved problems
    • Miller W. Comparison of genomic DNA sequences: solved and unsolved problems. Bioinformatics 17 (2001) 391-397
    • (2001) Bioinformatics , vol.17 , pp. 391-397
    • Miller, W.1
  • 9
    • 21144439147 scopus 로고    scopus 로고
    • Assessing computational tools for the discovery of transcription factor binding sites
    • Tompa M., et al. Assessing computational tools for the discovery of transcription factor binding sites. Nat. Biotechnol. 23 (2005) 137-144
    • (2005) Nat. Biotechnol. , vol.23 , pp. 137-144
    • Tompa, M.1
  • 10
    • 0037267806 scopus 로고    scopus 로고
    • Human-mouse alignments with BLASTZ
    • Schwartz S., et al. Human-mouse alignments with BLASTZ. Genome Res. 13 (2003) 103-107
    • (2003) Genome Res. , vol.13 , pp. 103-107
    • Schwartz, S.1
  • 11
    • 0037270315 scopus 로고    scopus 로고
    • AVID: A global alignment program
    • Bray N., et al. AVID: A global alignment program. Genome Res. 13 (2003) 97-102
    • (2003) Genome Res. , vol.13 , pp. 97-102
    • Bray, N.1
  • 12
    • 1542563409 scopus 로고    scopus 로고
    • Initial sequencing and comparative analysis of the mouse genome
    • International Mouse Genome Sequencing Consortium
    • International Mouse Genome Sequencing Consortium. Initial sequencing and comparative analysis of the mouse genome. Nature 420 (2002) 520-562
    • (2002) Nature , vol.420 , pp. 520-562
  • 13
    • 1842684068 scopus 로고    scopus 로고
    • Genome sequence of the Brown Norway rat yields insights into mammalian evolution
    • Rat Genome Sequencing Project Consortium
    • Rat Genome Sequencing Project Consortium. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature 428 (2004) 493-521
    • (2004) Nature , vol.428 , pp. 493-521
  • 14
    • 20044362752 scopus 로고    scopus 로고
    • Comparative sequencing provides insights about the structure and conservation of marsupial and monotreme genomes
    • Margulies E.H., et al. Comparative sequencing provides insights about the structure and conservation of marsupial and monotreme genomes. Proc. Natl. Acad. Sci. U. S. A. 102 (2005) 3354-3359
    • (2005) Proc. Natl. Acad. Sci. U. S. A. , vol.102 , pp. 3354-3359
    • Margulies, E.H.1
  • 15
    • 0037398368 scopus 로고    scopus 로고
    • LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA
    • Brudno M., et al. LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA. Genome Res. 13 (2003) 721-731
    • (2003) Genome Res. , vol.13 , pp. 721-731
    • Brudno, M.1
  • 16
    • 1842667852 scopus 로고    scopus 로고
    • MAVID: constrained ancestral alignment of multiple sequences
    • Bray N., and Pachter L. MAVID: constrained ancestral alignment of multiple sequences. Genome Res. 14 (2004) 693-699
    • (2004) Genome Res. , vol.14 , pp. 693-699
    • Bray, N.1    Pachter, L.2
  • 17
    • 1542748076 scopus 로고    scopus 로고
    • Aligning multiple genomic sequences with the threaded blockset aligner
    • Blanchette M., et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 14 (2004) 708-715
    • (2004) Genome Res. , vol.14 , pp. 708-715
    • Blanchette, M.1
  • 18
    • 20144388947 scopus 로고    scopus 로고
    • An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing
    • Margulies E.H., et al. An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing. Proc. Natl. Acad. Sci. U. S. A. 102 (2005) 4795-4800
    • (2005) Proc. Natl. Acad. Sci. U. S. A. , vol.102 , pp. 4795-4800
    • Margulies, E.H.1
  • 19
    • 0037250168 scopus 로고    scopus 로고
    • The UCSC Genome Browser Database
    • Karolchik D., et al. The UCSC Genome Browser Database. Nucleic Acids Res. 31 (2003) 51-54
    • (2003) Nucleic Acids Res. , vol.31 , pp. 51-54
    • Karolchik, D.1
  • 20
    • 0036079158 scopus 로고    scopus 로고
    • The human genome browser at UCSC
    • Kent W.J., et al. The human genome browser at UCSC. Genome Res. 12 (2002) 996-1006
    • (2002) Genome Res. , vol.12 , pp. 996-1006
    • Kent, W.J.1
  • 21
    • 0041465867 scopus 로고    scopus 로고
    • Comparative analyses of multi-species sequences from targeted genomic regions
    • Thomas J.W., et al. Comparative analyses of multi-species sequences from targeted genomic regions. Nature 424 (2003) 788-793
    • (2003) Nature , vol.424 , pp. 788-793
    • Thomas, J.W.1
  • 22
    • 7444260846 scopus 로고    scopus 로고
    • The ENCODE (ENCyclopedia Of DNA Elements) Project
    • ENCODE Project Consortium
    • ENCODE Project Consortium. The ENCODE (ENCyclopedia Of DNA Elements) Project. Science 306 (2004) 636-640
    • (2004) Science , vol.306 , pp. 636-640
  • 23
    • 10744222156 scopus 로고    scopus 로고
    • Identification and characterization of multi-species conserved sequences
    • Margulies E.H., et al. Identification and characterization of multi-species conserved sequences. Genome Res. 13 (2003) 2507-2518
    • (2003) Genome Res. , vol.13 , pp. 2507-2518
    • Margulies, E.H.1
  • 24
    • 1542510106 scopus 로고    scopus 로고
    • Phylogenetic estimation of context-dependent substitution rates by maximum likelihood
    • Siepel A., and Haussler D. Phylogenetic estimation of context-dependent substitution rates by maximum likelihood. Mol. Biol. Evol. 21 (2004) 468-488
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 468-488
    • Siepel, A.1    Haussler, D.2
  • 25
    • 0036935568 scopus 로고    scopus 로고
    • PipTools: a computational toolkit to annotate and analyze pairwise comparisons of genomic sequences
    • Elnitski L., et al. PipTools: a computational toolkit to annotate and analyze pairwise comparisons of genomic sequences. Genomics 80 (2002) 681-690
    • (2002) Genomics , vol.80 , pp. 681-690
    • Elnitski, L.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.