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Volumn 12, Issue , 2011, Pages

Multithreaded comparative RNA secondary structure prediction using stochastic context-free grammars

Author keywords

[No Author keywords available]

Indexed keywords

MULTI-CORE MACHINES; PHYLOGENETIC ANALYSIS; PREDICTING THE SECONDARY STRUCTURES; RNA SECONDARY STRUCTURE PREDICTION; RNA SECONDARY STRUCTURES; STATE-OF-THE-ART ALGORITHMS; STOCHASTIC CONTEXT FREE GRAMMAR; STRUCTURAL ELEMENTS;

EID: 79955101349     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-12-103     Document Type: Article
Times cited : (28)

References (17)
  • 1
    • 77952882024 scopus 로고    scopus 로고
    • Prediction and design of DNA and RNA structures
    • Andersen ES. Prediction and design of DNA and RNA structures. New Biotechnol 2010, 27:184-193.
    • (2010) New Biotechnol , vol.27 , pp. 184-193
    • Andersen, E.S.1
  • 3
    • 0013693067 scopus 로고    scopus 로고
    • RNA Folding on Parallel Computers - The Minimum Free Energy Structures of Complete HIV Genomes
    • Hofacker IL, Huynen MA, Stadler PF, Stolorz PE. RNA Folding on Parallel Computers - The Minimum Free Energy Structures of Complete HIV Genomes. 1996,
    • (1996)
    • Hofacker, I.L.1    Huynen, M.A.2    Stadler, P.F.3    Stolorz, P.E.4
  • 4
    • 0034050938 scopus 로고    scopus 로고
    • Prediction of RNA base pairing probabilities on massively parallel computers
    • 10.1089/10665270050081441, 10890394
    • Fekete M, Hofacker IL, Stadler PF. Prediction of RNA base pairing probabilities on massively parallel computers. Journal of Computational Biology 2000, 7:171-182. 10.1089/10665270050081441, 10890394.
    • (2000) Journal of Computational Biology , vol.7 , pp. 171-182
    • Fekete, M.1    Hofacker, I.L.2    Stadler, P.F.3
  • 6
    • 27744530711 scopus 로고    scopus 로고
    • Parallel RNA secondary structure prediction using stochastic context-free grammars
    • Liu T, Schmidt B. Parallel RNA secondary structure prediction using stochastic context-free grammars. Concurrency Computat: Pract Exper 2005, 17:1669-1685.
    • (2005) Concurrency Computat: Pract Exper , vol.17 , pp. 1669-1685
    • Liu, T.1    Schmidt, B.2
  • 7
    • 0035105948 scopus 로고    scopus 로고
    • The massively parallel genetic algorithm for RNA folding: MIMD implementation and population variation
    • 10.1093/bioinformatics/17.2.137, 11238069
    • Shapiro BA, Wu JC, Bengali D, Potts MJ. The massively parallel genetic algorithm for RNA folding: MIMD implementation and population variation. Bioinformatics 2001, 17:137-148. 10.1093/bioinformatics/17.2.137, 11238069.
    • (2001) Bioinformatics , vol.17 , pp. 137-148
    • Shapiro, B.A.1    Wu, J.C.2    Bengali, D.3    Potts, M.J.4
  • 8
    • 77955428322 scopus 로고    scopus 로고
    • Fine-grained parallel RNA secondary structure prediction using SCFGs on FPGA
    • Xia F, Dou Y, Zhou D, Li X. Fine-grained parallel RNA secondary structure prediction using SCFGs on FPGA. Parallel Comput 2010, 36:516-530.
    • (2010) Parallel Comput , vol.36 , pp. 516-530
    • Xia, F.1    Dou, Y.2    Zhou, D.3    Li, X.4
  • 10
    • 0032796501 scopus 로고    scopus 로고
    • RNA secondary structure prediction using stochastic context-free grammars and evolutionary history
    • 10.1093/bioinformatics/15.6.446, 10383470
    • Knudsen B, Hein J. RNA secondary structure prediction using stochastic context-free grammars and evolutionary history. Bioinformatics 1999, 15:446-454. 10.1093/bioinformatics/15.6.446, 10383470.
    • (1999) Bioinformatics , vol.15 , pp. 446-454
    • Knudsen, B.1    Hein, J.2
  • 11
    • 0043123155 scopus 로고    scopus 로고
    • Pfold: RNA secondary structure prediction using stochastic context-free grammars
    • Knudsen B, Hein J. Pfold: RNA secondary structure prediction using stochastic context-free grammars. Nuc Acids Res 2003, 31:3423-3428.
    • (2003) Nuc Acids Res , vol.31 , pp. 3423-3428
    • Knudsen, B.1    Hein, J.2
  • 12
    • 13344262673 scopus 로고    scopus 로고
    • A comprehensive comparison of comparative RNA structure prediction approaches
    • 10.1186/1471-2105-5-140, 526219, 15458580
    • Gardner PP, Giegerich R. A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics 2004, 5:140. 10.1186/1471-2105-5-140, 526219, 15458580.
    • (2004) BMC Bioinformatics , vol.5 , pp. 140
    • Gardner, P.P.1    Giegerich, R.2
  • 13
    • 77953804302 scopus 로고    scopus 로고
    • The Mini-Grid Framework: Application Programming Support for Ad-Hoc, Peer-to-Peer Volunteer Grids
    • Springer Berlin/Heidelberg, Bellavista P, Chang RS, Chao HC, Lin SF, Sloot P
    • Bardram J, Venkataraman N. The Mini-Grid Framework: Application Programming Support for Ad-Hoc, Peer-to-Peer Volunteer Grids. Advances in Grid and Pervasive Computing, Volume 6104 of Lecture Notes in Computer Science 2010, 69-80. Springer Berlin/Heidelberg, Bellavista P, Chang RS, Chao HC, Lin SF, Sloot P.
    • (2010) Advances in Grid and Pervasive Computing, Volume 6104 of Lecture Notes in Computer Science , pp. 69-80
    • Bardram, J.1    Venkataraman, N.2
  • 15
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: a maximum likelihood approach
    • 10.1007/BF01734359, 7288891
    • Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981, 17:368-376. 10.1007/BF01734359, 7288891.
    • (1981) J Mol Evol , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 16
    • 0002532056 scopus 로고
    • The estimation of stochastic context-free grammars using the Inside-Outside algorithm
    • 10.1016/0885-2308(90)90022-X, 21498579
    • Lari K, Young SJ. The estimation of stochastic context-free grammars using the Inside-Outside algorithm. Computer Speech & Language 1990, 4:35-56. 10.1016/0885-2308(90)90022-X, 21498579.
    • (1990) Computer Speech & Language , vol.4 , pp. 35-56
    • Lari, K.1    Young, S.J.2
  • 17
    • 33845573982 scopus 로고    scopus 로고
    • JViz.Rna - An Interactive Graphical Tool for Visualizing RNA Secondary Structure Including Pseudoknots
    • Washington, DC, USA: IEEE Computer Society
    • Wiese KC, Glen E. jViz.Rna - An Interactive Graphical Tool for Visualizing RNA Secondary Structure Including Pseudoknots. Proceedings of the 19th IEEE Symposium on Computer-Based Medical Systems 2006, 659-664. Washington, DC, USA: IEEE Computer Society., http://portal.acm.org/citation.cfm?id=1152999.1153025
    • (2006) Proceedings of the 19th IEEE Symposium on Computer-Based Medical Systems , pp. 659-664
    • Wiese, K.C.1    Glen, E.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.