메뉴 건너뛰기




Volumn 14, Issue 10, 2013, Pages

Open-Phylo: A customizable crowd-computing platform for multiple sequence alignment

Author keywords

[No Author keywords available]

Indexed keywords

ACCESS TO INFORMATION; ACCURACY; ARTICLE; COMPUTER INTERFACE; COMPUTER PROGRAM; COMPUTER SYSTEM; INFORMATION PROCESSING; INTERNET; SEQUENCE ALIGNMENT; ALGORITHM; GENOMICS; METHODOLOGY; RECREATION; SEQUENCE ANALYSIS; THEORETICAL MODEL;

EID: 84886913685     PISSN: None     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2013-14-10-r116     Document Type: Article
Times cited : (23)

References (26)
  • 1
    • 38449083186 scopus 로고    scopus 로고
    • Computation and analysis of genomic multi-sequence alignments
    • 10.1146/annurev.genom.8.080706.092300, 17489682
    • Blanchette M. Computation and analysis of genomic multi-sequence alignments. Annu Rev Genomics Hum Genet 2007, 8:193-213. 10.1146/annurev.genom.8.080706.092300, 17489682.
    • (2007) Annu Rev Genomics Hum Genet , vol.8 , pp. 193-213
    • Blanchette, M.1
  • 2
    • 0028679709 scopus 로고
    • On the complexity of multiple sequence alignment
    • 10.1089/cmb.1994.1.337, 8790475
    • Wang L, Jiang T. On the complexity of multiple sequence alignment. J Comput Biol 1994, 1:337-348. 10.1089/cmb.1994.1.337, 8790475.
    • (1994) J Comput Biol , vol.1 , pp. 337-348
    • Wang, L.1    Jiang, T.2
  • 3
    • 34548400364 scopus 로고    scopus 로고
    • Recent evolutions of multiple sequence alignment algorithms
    • 10.1371/journal.pcbi.0030123, 1963500, 17784778
    • Notredame C. Recent evolutions of multiple sequence alignment algorithms. PLoS Comput Biol 2007, 3:e123. 10.1371/journal.pcbi.0030123, 1963500, 17784778.
    • (2007) PLoS Comput Biol , vol.3
    • Notredame, C.1
  • 5
    • 84863230440 scopus 로고    scopus 로고
    • Phylo: a citizen science approach for improving multiple sequence alignment
    • 10.1371/journal.pone.0031362, 3296692, 22412834, Players phylo
    • Kawrykow A, Roumanis G, Kam A, Kwak D, Leung C, Wu C, Zarour E, Sarmenta L, Blanchette M, Waldispühl J. Players phylo Phylo: a citizen science approach for improving multiple sequence alignment. PLoS ONE 2012, 7:e31362. 10.1371/journal.pone.0031362, 3296692, 22412834, Players phylo.
    • (2012) PLoS ONE , vol.7
    • Kawrykow, A.1    Roumanis, G.2    Kam, A.3    Kwak, D.4    Leung, C.5    Wu, C.6    Zarour, E.7    Sarmenta, L.8    Blanchette, M.9    Waldispühl, J.10
  • 6
    • 84888009990 scopus 로고    scopus 로고
    • Phylo - DNA puzzles
    • Phylo - DNA puzzles. [http://phylo.cs.mcgill.ca].
  • 8
    • 77955491294 scopus 로고    scopus 로고
    • Predicting protein structures with a multiplayer online game
    • 10.1038/nature09304, 2956414, 20686574, Foldit players
    • Cooper S, Khatib F, Treuille A, Barbero J, Lee J, Beenen M, Leaver-Fay A, Baker D, Popovic Z. Foldit players Predicting protein structures with a multiplayer online game. Nature 2010, 466:756-760. 10.1038/nature09304, 2956414, 20686574, Foldit players.
    • (2010) Nature , vol.466 , pp. 756-760
    • Cooper, S.1    Khatib, F.2    Treuille, A.3    Barbero, J.4    Lee, J.5    Beenen, M.6    Leaver-Fay, A.7    Baker, D.8    Popovic, Z.9
  • 9
    • 84888005165 scopus 로고    scopus 로고
    • EteRNA
    • EteRNA. [http://eterna.cmu.edu].
  • 10
    • 84881329862 scopus 로고    scopus 로고
    • Dizeez: an online game for human gene-disease annotation
    • 10.1371/journal.pone.0071171, 3737187, 23951102
    • Loguercio S, Good BM, Su AI. Dizeez: an online game for human gene-disease annotation. PLoS ONE 2013, 8:e71171. 10.1371/journal.pone.0071171, 3737187, 23951102.
    • (2013) PLoS ONE , vol.8
    • Loguercio, S.1    Good, B.M.2    Su, A.I.3
  • 11
    • 84887991161 scopus 로고    scopus 로고
    • Eyewire
    • Eyewire. [https://eyewire.org].
  • 12
    • 84888014566 scopus 로고    scopus 로고
    • Open-Phylo
    • (MSA submission interface)
    • Open-Phylo. (MSA submission interface) [http://phylo.cs.mcgill.ca/submit/].
  • 13
    • 84888004534 scopus 로고    scopus 로고
    • Phylo expert version
    • Phylo expert version. [http://phylo.cs.mcgill.ca/expert/].
  • 15
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • 10.1093/nar/gkh340, 390337, 15034147
    • Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004, 32:1792-1797. 10.1093/nar/gkh340, 390337, 15034147.
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 16
    • 78649319201 scopus 로고    scopus 로고
    • WebPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser
    • Löytynoja A, Goldman N. webPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser. BMC Bioinforma 2010, 11:579.
    • (2010) BMC Bioinforma , vol.11 , pp. 579
    • Löytynoja, A.1    Goldman, N.2
  • 18
    • 75249091585 scopus 로고    scopus 로고
    • Ancestors 1.0: a web server for ancestral sequence reconstruction
    • 10.1093/bioinformatics/btp600, 19850756
    • Diallo AB, Makarenkov V, Blanchette M. Ancestors 1.0: a web server for ancestral sequence reconstruction. Bioinformatics 2010, 26:130-131. 10.1093/bioinformatics/btp600, 19850756.
    • (2010) Bioinformatics , vol.26 , pp. 130-131
    • Diallo, A.B.1    Makarenkov, V.2    Blanchette, M.3
  • 20
    • 77954270711 scopus 로고    scopus 로고
    • GUIDANCE: a web server for assessing alignment confidence scores
    • 10.1093/nar/gkq443, 2896199, 20497997
    • Penn O, Privman E, Ashkenazy H, Landan G, Graur D, Pupko T. GUIDANCE: a web server for assessing alignment confidence scores. Nucleic Acids Res 2010, 38:W23-W28. 10.1093/nar/gkq443, 2896199, 20497997.
    • (2010) Nucleic Acids Res , vol.38
    • Penn, O.1    Privman, E.2    Ashkenazy, H.3    Landan, G.4    Graur, D.5    Pupko, T.6
  • 21
    • 65449188232 scopus 로고    scopus 로고
    • Jalview version 2-a multiple sequence alignment editor and analysis workbench
    • 10.1093/bioinformatics/btp033, 2672624, 19151095
    • Waterhouse AM, Procter JB, Martin DMA, Clamp M, Barton GJ. Jalview version 2-a multiple sequence alignment editor and analysis workbench. Bioinformatics 2009, 25:1189-1191. 10.1093/bioinformatics/btp033, 2672624, 19151095.
    • (2009) Bioinformatics , vol.25 , pp. 1189-1191
    • Waterhouse, A.M.1    Procter, J.B.2    Martin, D.M.A.3    Clamp, M.4    Barton, G.J.5
  • 22
    • 84959747425 scopus 로고
    • Toward defining the course of evolution: minimum change for a specific tree topology
    • Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971, 20:406-416.
    • (1971) Syst Zool , vol.20 , pp. 406-416
    • Fitch, W.M.1
  • 23
    • 84870647022 scopus 로고    scopus 로고
    • UCSC Genome Browser
    • UCSC Genome Browser. [http://genome.ucsc.edu/].
  • 24
    • 84888007388 scopus 로고    scopus 로고
    • 2013 Open-Phylo Benchmark
    • 2013 Open-Phylo Benchmark. [http://phylo.cs.mcgill.ca/benchmarks/2013/].
  • 26
    • 21144431642 scopus 로고    scopus 로고
    • Optimal multiple parsimony alignment with affine gap cost using a phylogenetic tree
    • Springer Berlin Heidelberg, Benson G, Page RDM, doi: 10.1007/978-3-540-39763-2_31
    • Knudsen B. Optimal multiple parsimony alignment with affine gap cost using a phylogenetic tree. Proceedings of the Third Workshop on Algorithms in Bioinformatics: 15-20 September 2003; Budapest 2003, 433-446. Springer Berlin Heidelberg, Benson G, Page RDM, doi: 10.1007/978-3-540-39763-2_31.
    • (2003) Proceedings of the Third Workshop on Algorithms in Bioinformatics: 15-20 September 2003; Budapest , pp. 433-446
    • Knudsen, B.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.