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Volumn 10, Issue , 2009, Pages

EDGAR: A software framework for the comparative analysis of prokaryotic genomes

Author keywords

[No Author keywords available]

Indexed keywords

COMPARATIVE APPROACH; EVOLUTIONARY RELATIONSHIPS; HIGH-THROUGHPUT APPROACHES; NEXT-GENERATION SEQUENCING; PHYLOGENETIC STUDIES; PLATFORM INDEPENDENT; SCIENTIFIC COMMUNITY; TRADITIONAL APPROACHES;

EID: 67649159262     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-10-154     Document Type: Article
Times cited : (349)

References (50)
  • 1
    • 84891576647 scopus 로고    scopus 로고
    • Microbial systematics - Species Don't Really Mean Anything in the Bacterial World
    • Hollricher K Microbial systematics - Species Don't Really Mean Anything in the Bacterial World Lab Times 2007, 5:22-25.
    • (2007) Lab Times , vol.5 , pp. 22-25
    • Hollricher, K.1
  • 7
    • 34249042613 scopus 로고    scopus 로고
    • The pan-genome: Towards a knowledge-based discovery of novel targets for vaccines and antibacterials
    • 17532526
    • Muzzi A Masignani V Rappuoli R The pan-genome: Towards a knowledge-based discovery of novel targets for vaccines and antibacterials Drug Discov Today 2007, 12(11-12):429-439. 17532526
    • (2007) Drug Discov Today , vol.12 , Issue.11-12 , pp. 429-439
    • Muzzi, A.1    Masignani, V.2    Rappuoli, R.3
  • 9
    • 33644876482 scopus 로고    scopus 로고
    • XBASE, a collection of online databases for bacterial comparative genomics
    • (Database): 1347502 16381881
    • Chaudhuri RR Pallen MJ xBASE, a collection of online databases for bacterial comparative genomics Nucleic Acids Res 2006, 34(Database):D335-D337. 1347502 16381881
    • (2006) Nucleic Acids Res , vol.34
    • Chaudhuri, R.R.1    Pallen, M.J.2
  • 13
    • 0037249403 scopus 로고    scopus 로고
    • MBGD: Microbial genome database for comparative analysis
    • 165556 12519947
    • Uchiyama I MBGD: Microbial genome database for comparative analysis Nucleic acids research 2003, 31:58. 165556 12519947
    • (2003) Nucleic Acids Research , vol.31 , pp. 58
    • Uchiyama, I.1
  • 15
    • 0014800108 scopus 로고
    • Distinguishing homologous from analogous proteins
    • 5449325
    • Fitch W Distinguishing homologous from analogous proteins Systematic zoology 1970:99-113. 5449325
    • (1970) Systematic Zoology , pp. 99-113
    • Fitch, W.1
  • 17
    • 0030660581 scopus 로고    scopus 로고
    • A genomic perspective on protein families
    • 9381173
    • Tatusov R Koonin E Lipman D A genomic perspective on protein families Science 1997, 278(5338):631. 9381173
    • (1997) Science , vol.278 , Issue.5338 , pp. 631
    • Tatusov, R.1    Koonin, E.2    Lipman, D.3
  • 18
    • 13444256478 scopus 로고    scopus 로고
    • Inparanoid: A comprehensive database of eukaryotic orthologs
    • (Database): 540061 15608241
    • O'Brien K Remm M Sonnhammer E Inparanoid: A comprehensive database of eukaryotic orthologs Nucleic acids research 2005, 33(Database):D476. 540061 15608241
    • (2005) Nucleic Acids Research , vol.33
    • O'Brien, K.1    Remm, M.2    Sonnhammer, E.3
  • 22
    • 33747817416 scopus 로고    scopus 로고
    • Roundup: A multi-genome repository of orthologs and evolutionary distances
    • 16777906
    • DeLuca T Wu I et al. Roundup: A multi-genome repository of orthologs and evolutionary distances Bioinformatics 2006, 22(16):2044. 16777906
    • (2006) Bioinformatics , vol.22 , Issue.16 , pp. 2044
    • DeLuca, T.1    Wu, I.2
  • 23
    • 38549177928 scopus 로고    scopus 로고
    • EggNOG: Automated construction and annotation of orthologous groups of genes
    • (Database issue): 2238944 17942413
    • Jensen L Julien P Kuhn M von Mering C Muller J Doerks T Bork P eggNOG: automated construction and annotation of orthologous groups of genes Nucleic Acids Res 2008, 36(Database issue):D250-D254. 2238944 17942413
    • (2008) Nucleic Acids Res , vol.36
    • Jensen, L.1    Julien, P.2    Kuhn, M.3    von Mering, C.4    Muller, J.5    Doerks, T.6    Bork, P.7
  • 24
    • 33646152743 scopus 로고    scopus 로고
    • OMA, a comprehensive, automated project for the identification of orthologs from complete genome data: Introduction and first achievements
    • Dessimoz C Cannarozzi G Gil M Margadant D Roth A Schneider A Gonnet G OMA, a comprehensive, automated project for the identification of orthologs from complete genome data: Introduction and first achievements Lecture Notes in Computer Science 2005, 3678:61-72.
    • (2005) Lecture Notes in Computer Science , vol.3678 , pp. 61-72
    • Dessimoz, C.1    Cannarozzi, G.2    Gil, M.3    Margadant, D.4    Roth, A.5    Schneider, A.6    Gonnet, G.7
  • 25
    • 33745022802 scopus 로고    scopus 로고
    • Benchmarking ortholog identification methods using functional genomics data
    • 1557999 16613613
    • Hulsen T Huynen M de Vlieg J Groenen P Benchmarking ortholog identification methods using functional genomics data Genome biology 2006, 7(4):R31. 1557999 16613613
    • (2006) Genome Biology , vol.7 , Issue.4
    • Hulsen, T.1    Huynen, M.2    de Vlieg, J.3    Groenen, P.4
  • 26
    • 59149102602 scopus 로고    scopus 로고
    • Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods
    • 2612752 19148271
    • Altenhoff A Dessimoz C Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods PLoS Computational Biology 2009:5. 2612752 19148271
    • (2009) PLoS Computational Biology , vol.5
    • Altenhoff, A.1    Dessimoz, C.2
  • 27
    • 1342271382 scopus 로고    scopus 로고
    • From gene trees to organismal phylogeny in prokaryotes: The case of the gamma-Proteobacteria
    • 193605 12975657
    • Lerat E Daubin V Moran N From gene trees to organismal phylogeny in prokaryotes: The case of the gamma-Proteobacteria PLoS Biol 2003, 1:E19. 193605 12975657
    • (2003) PLoS Biol , vol.1
    • Lerat, E.1    Daubin, V.2    Moran, N.3
  • 28
    • 33845670418 scopus 로고    scopus 로고
    • Quantification of insect genome divergence
    • 17097187
    • Zdobnov E Bork P Quantification of insect genome divergence Trends in Genetics 2007, 23:16-20. 17097187
    • (2007) Trends in Genetics , vol.23 , pp. 16-20
    • Zdobnov, E.1    Bork, P.2
  • 29
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • 390337 15034147
    • Edgar R MUSCLE: Multiple sequence alignment with high accuracy and high throughput Nucleic Acids Research 2004, 32(5):1792. 390337 15034147
    • (2004) Nucleic Acids Research , vol.32 , Issue.5 , pp. 1792
    • Edgar, R.1
  • 30
    • 34547489084 scopus 로고    scopus 로고
    • Improvement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments
    • 17654362
    • Talavera G Improvement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments Systematic Biology 2007, 56(4):564-577. 17654362
    • (2007) Systematic Biology , vol.56 , Issue.4 , pp. 564-577
    • Talavera, G.1
  • 33
    • 13744253238 scopus 로고    scopus 로고
    • The genome sequence of Xanthomonas oryzae pathovar oryzae KACC10331, the bacterial blight pathogen of rice
    • 548351 15673718
    • Lee B Park Y Park D Kang H Kim J Song E Park I Yoon U Hahn J Koo B et al. The genome sequence of Xanthomonas oryzae pathovar oryzae KACC10331, the bacterial blight pathogen rice Nucleic Acids Research 2005, 33(2):577. 548351 15673718
    • (2005) Nucleic Acids Research , vol.33 , Issue.2 , pp. 577
    • Lee, B.1    Park, Y.2    Park, D.3    Kang, H.4    Kim, J.5    Song, E.6    Park, I.7    Yoon, U.8    Hahn, J.9    Koo, B.10
  • 34
    • 30944445669 scopus 로고    scopus 로고
    • Genome Sequence of Xanthomonas oryzae pv. oryzae Suggests Contribution of Large Numbers of Effector Genes and Insertion Sequences to Its Race Diversity
    • Ochiai H Inoue Y Takeya M Sasaki A Kaku H Genome Sequence of Xanthomonas oryzae pv. oryzae Suggests Contribution of Large Numbers of Effector Genes and Insertion Sequences to Its Race Diversity Japan Agricultural Research Quarterly 2005, 39(4):275.
    • (2005) Japan Agricultural Research Quarterly , vol.39 , Issue.4 , pp. 275
    • Ochiai, H.1    Inoue, Y.2    Takeya, M.3    Sasaki, A.4    Kaku, H.5
  • 37
    • 27144440067 scopus 로고    scopus 로고
    • Insights into Genome Plasticity and Pathogenicity of the Plant Pathogenic Bacterium Xanthomonas campestris pv. vesicatoria Revealed by the Complete Genome Sequence
    • 1272972 16237009
    • Thieme F Koebnik R Bekel T Berger C Boch J Büttner D Caldana C Gaigalat L Goesmann A Kay S et al. Insights into Genome Plasticity and Pathogenicity of the Plant Pathogenic Bacterium Xanthomonas campestris pv. vesicatoria Revealed by the Complete Genome Sequence Journal of Bacteriology 2005, 187(21):7254-7266. 1272972 16237009
    • (2005) Journal of Bacteriology , vol.187 , Issue.21 , pp. 7254-7266
    • Thieme, F.1    Koebnik, R.2    Bekel, T.3    Berger, C.4    Boch, J.5    Büttner, D.6    Caldana, C.7    Gaigalat, L.8    Goesmann, A.9    Kay, S.10
  • 38
    • 22344455805 scopus 로고    scopus 로고
    • Comparative and functional genomic analyses of the pathogenicity of phytopathogen Xanthomonas campestris pv. campestris
    • 1142466 15899963
    • Qian W Jia Y Ren S He Y Feng J Lu L Sun Q Ying G Tang D Tang H et al. Comparative and functional genomic analyses of the pathogenicity of phytopathogen Xanthomonas campestris pv. campestris Genome Research 2005, 15(6):757-767. 1142466 15899963
    • (2005) Genome Research , vol.15 , Issue.6 , pp. 757-767
    • Qian, W.1    Jia, Y.2    Ren, S.3    He, Y.4    Feng, J.5    Lu, L.6    Sun, Q.7    Ying, G.8    Tang, D.9    Tang, H.10
  • 40
    • 0031688984 scopus 로고    scopus 로고
    • Xanthan gum biosynthesis and application: A biochemical?/genetic perspective
    • 9763683
    • Becker A Katzen F Pühler A Ielpi L Xanthan gum biosynthesis and application: A biochemical?/genetic perspective Appl Microbiol Biotechnol 1998, 50(2):145-152. 9763683
    • (1998) Appl Microbiol Biotechnol , vol.50 , Issue.2 , pp. 145-152
    • Becker, A.1    Katzen, F.2    Pühler, A.3    Ielpi, L.4
  • 46
    • 54849378000 scopus 로고    scopus 로고
    • A multilocus sequence analysis of the genus Xanthomonas
    • 18783906
    • Young J Park D Shearman H Fargier E A multilocus sequence analysis of the genus Xanthomonas Syst Appl Microbiol 2008, 31(5):366-377. 18783906
    • (2008) Syst Appl Microbiol , vol.31 , Issue.5 , pp. 366-377
    • Young, J.1    Park, D.2    Shearman, H.3    Fargier, E.4
  • 48
    • 34147132825 scopus 로고    scopus 로고
    • Identifying bacterial genes and endosymbiont DNA with Glimmer
    • 2387122 17237039
    • Delcher A Bratke K Powers E Salzberg S Identifying bacterial genes and endosymbiont DNA with Glimmer Bioinformatics 2007, 23(6):673. 2387122 17237039
    • (2007) Bioinformatics , vol.23 , Issue.6 , pp. 673
    • Delcher, A.1    Bratke, K.2    Powers, E.3    Salzberg, S.4
  • 50
    • 0036699481 scopus 로고    scopus 로고
    • Increased Taxon Sampling Greatly Reduces Phylogenetic Error
    • 12228001
    • Zwickl D Hillis D Increased Taxon Sampling Greatly Reduces Phylogenetic Error Systematic Biology 2002, 51(4):588-598. 12228001
    • (2002) Systematic Biology , vol.51 , Issue.4 , pp. 588-598
    • Zwickl, D.1    Hillis, D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.