메뉴 건너뛰기




Volumn 39, Issue SUPPL. 1, 2011, Pages

Rfam: Wikipedia, clans and the "decimal" release

Author keywords

[No Author keywords available]

Indexed keywords

UNTRANSLATED RNA;

EID: 78651323093     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkq1129     Document Type: Article
Times cited : (334)

References (50)
  • 1
    • 13244253776 scopus 로고    scopus 로고
    • A probabilistic model for the evolution of RNA structure
    • Holmes, I. (2004) A probabilistic model for the evolution of RNA structure. BMC Bioinformatics, 5, 166.
    • (2004) BMC Bioinformatics , vol.5 , pp. 166
    • Holmes, I.1
  • 2
    • 33747874580 scopus 로고    scopus 로고
    • CONTRAfold: RNA secondary structure prediction without physics-based models
    • Do, C.B., Woods, D.A. and Batzoglou, S. (2006) CONTRAfold: RNA secondary structure prediction without physics-based models. Bioinformatics, 22, e90-e98.
    • (2006) Bioinformatics , vol.22
    • Do, C.B.1    Woods, D.A.2    Batzoglou, S.3
  • 3
    • 32544452741 scopus 로고    scopus 로고
    • CMfinder - A covariance model based RNA motif finding algorithm
    • Yao, Z., Weinberg, Z. and Ruzzo, W.L. (2006) CMfinder-a covariance model based RNA motif finding algorithm. Bioinformatics, 22, 445-452.
    • (2006) Bioinformatics , vol.22 , pp. 445-452
    • Yao, Z.1    Weinberg, Z.2    Ruzzo, W.L.3
  • 4
    • 69249242896 scopus 로고    scopus 로고
    • Designing secondary structure profiles for fast ncRNA identification
    • Sun, Y. and Buhler, J. (2008) Designing secondary structure profiles for fast ncRNA identification. Comput. Syst. Bioinformatics Conf., 7, 145-156.
    • (2008) Comput. Syst. Bioinformatics Conf. , vol.7 , pp. 145-156
    • Sun, Y.1    Buhler, J.2
  • 5
    • 77955522220 scopus 로고    scopus 로고
    • Bcheck: A wrapper tool for detecting RNase P RNA genes
    • Yusuf, D., Marz, M., Stadler, P.F. and Hofacker, I.L. (2010) Bcheck: A wrapper tool for detecting RNase P RNA genes. BMC Genomics, 11, 432.
    • (2010) BMC Genomics , vol.11 , pp. 432
    • Yusuf, D.1    Marz, M.2    Stadler, P.F.3    Hofacker, I.L.4
  • 9
    • 65549111754 scopus 로고    scopus 로고
    • Infernal 1.0: Inference of RNA alignments
    • Nawrocki, E.P., Kolbe, D.L. and Eddy, S.R. (2009) Infernal 1.0: Inference of RNA alignments. Bioinformatics, 25, 1335-1337.
    • (2009) Bioinformatics , vol.25 , pp. 1335-1337
    • Nawrocki, E.P.1    Kolbe, D.L.2    Eddy, S.R.3
  • 11
    • 2942607685 scopus 로고    scopus 로고
    • A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure
    • Eddy, S.R. (2002) A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure. BMC Bioinformatics, 3, 18.
    • (2002) BMC Bioinformatics , vol.3 , pp. 18
    • Eddy, S.R.1
  • 14
    • 0027479821 scopus 로고
    • Evolutionary families of peptidases
    • Rawlings, N.D. and Barrett, A.J. (1993) Evolutionary families of peptidases. Biochem. J., 290(Pt 1), 205-218.
    • (1993) Biochem. J. , vol.290 , Issue.PART 1 , pp. 205-218
    • Rawlings, N.D.1    Barrett, A.J.2
  • 16
    • 70349587050 scopus 로고    scopus 로고
    • The RNase P family
    • Ellis, J.C. and Brown, J.W. (2009) The RNase P family. RNA Biol., 6, 362-369.
    • (2009) RNA Biol. , vol.6 , pp. 362-369
    • Ellis, J.C.1    Brown, J.W.2
  • 17
    • 41749124288 scopus 로고    scopus 로고
    • Two seemingly homologous noncoding RNAs act hierarchically to activate glmS mRNA translation
    • Urban, J.H. and Vogel, J. (2008) Two seemingly homologous noncoding RNAs act hierarchically to activate glmS mRNA translation. PLoS Biol., 6, e64.
    • (2008) PLoS Biol. , vol.6
    • Urban, J.H.1    Vogel, J.2
  • 18
    • 34248590379 scopus 로고    scopus 로고
    • SCOOP: A simple method for identification of novel protein superfamily relationships
    • Bateman, A. and Finn, R.D. (2007) SCOOP: A simple method for identification of novel protein superfamily relationships. Bioinformatics, 23, 809-814.
    • (2007) Bioinformatics , vol.23 , pp. 809-814
    • Bateman, A.1    Finn, R.D.2
  • 19
    • 55749113550 scopus 로고    scopus 로고
    • Profile Comparer: A program for scoring and aligning profile hidden Markov models
    • Madera, M. (2008) Profile Comparer: A program for scoring and aligning profile hidden Markov models. Bioinformatics, 24, 2630-2631.
    • (2008) Bioinformatics , vol.24 , pp. 2630-2631
    • Madera, M.1
  • 20
    • 0032894591 scopus 로고    scopus 로고
    • A comprehensive database for the small nucleolar RNAs from Saccharomyces cerevisiae
    • Samarsky, D.A. and Fournier, M.J. (1999) A comprehensive database for the small nucleolar RNAs from Saccharomyces cerevisiae. Nucleic Acids Res., 27, 161-164.
    • (1999) Nucleic Acids Res. , vol.27 , pp. 161-164
    • Samarsky, D.A.1    Fournier, M.J.2
  • 22
    • 18144378047 scopus 로고    scopus 로고
    • Identification and functional analysis of 20 box H/ACA small nucleolar RNAs (snoRNAs) from Schizosaccharomyces pombe
    • DOI 10.1074/jbc.M500326200
    • Li, S.G., Zhou, H., Luo, Y.P., Zhang, P. and Qu, L.H. (2005) Identification and functional analysis of 20 Box H/ACA small nucleolar RNAs (snoRNAs) from Schizosaccharomyces pombe. J. Biol. Chem., 280, 16446-16455. (Pubitemid 40616775)
    • (2005) Journal of Biological Chemistry , vol.280 , Issue.16 , pp. 16446-16455
    • Li, S.-G.1    Zhou, H.2    Luo, Y.-P.3    Zhang, P.4    Qu, L.-H.5
  • 23
    • 33644875300 scopus 로고    scopus 로고
    • SnoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs
    • (Database issue)
    • Lestrade, L. and Weber, M.J. (2006) snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. Nucleic Acids Res., 34(Database issue), D158-D162.
    • (2006) Nucleic Acids Res. , vol.34
    • Lestrade, L.1    Weber, M.J.2
  • 25
    • 78651284628 scopus 로고    scopus 로고
    • Stockholm format. Stockholm format, 19 June 2010, date last accessed
    • Stockholm format. http://en.wikipedia.org/wiki/Stockholm-format Stockholm format (19 June 2010, date last accessed).
  • 29
  • 32
    • 77949884893 scopus 로고    scopus 로고
    • Comparative analysis of eukaryotic U3 snoRNA
    • Marz, M. and Stadler, P.F. (2009) Comparative analysis of eukaryotic U3 snoRNA. RNA Biol., 6, 503-507.
    • (2009) RNA Biol. , vol.6 , pp. 503-507
    • Marz, M.1    Stadler, P.F.2
  • 34
    • 67650434032 scopus 로고    scopus 로고
    • The Yfr2 ncRNA family, a group of abundant RNA molecules widely conserved in cyanobacteria
    • Gierga, G., Voss, B. and Hess, W.R. (2009) The Yfr2 ncRNA family, a group of abundant RNA molecules widely conserved in cyanobacteria. RNA Biol., 6, 222-227.
    • (2009) RNA Biol. , vol.6 , pp. 222-227
    • Gierga, G.1    Voss, B.2    Hess, W.R.3
  • 35
    • 84869623966 scopus 로고    scopus 로고
    • Families of H/ACA ncRNA molecules in trypanosomatids
    • Doniger, T., Michaeli, S. and Unger, R. (2009) Families of H/ACA ncRNA molecules in trypanosomatids. RNA Biol., 6, 370-374.
    • (2009) RNA Biol. , vol.6 , pp. 370-374
    • Doniger, T.1    Michaeli, S.2    Unger, R.3
  • 36
    • 85011941669 scopus 로고    scopus 로고
    • Group I introns: Moving in new directions
    • Nielsen, H. and Johansen, S.D. (2009) Group I introns: Moving in new directions. RNA Biol., 6, 375-383.
    • (2009) RNA Biol. , vol.6 , pp. 375-383
    • Nielsen, H.1    Johansen, S.D.2
  • 37
    • 77953753310 scopus 로고    scopus 로고
    • A family of non-classical pseudoknots in influenza A and B viruses
    • Gultyaev, A.P. and Olsthoorn, R.C. (2010) A family of non-classical pseudoknots in influenza A and B viruses. RNA Biol., 7, 125-129.
    • (2010) RNA Biol. , vol.7 , pp. 125-129
    • Gultyaev, A.P.1    Olsthoorn, R.C.2
  • 38
    • 77953763659 scopus 로고    scopus 로고
    • RsaOG, a new staphylococcal family of highly transcribed non-coding RNA
    • Marchais, A., Bohn, C., Bouloc, P. and Gautheret, D. (2010) RsaOG, a new staphylococcal family of highly transcribed non-coding RNA. RNA Biol., 7, 116-119.
    • (2010) RNA Biol. , vol.7 , pp. 116-119
    • Marchais, A.1    Bohn, C.2    Bouloc, P.3    Gautheret, D.4
  • 39
    • 77953802392 scopus 로고    scopus 로고
    • A novel family of plasmid-transferred anti-sense ncRNAs
    • Findeiss, S., Schmidtke, C., Stadler, P.F. and Bonas, U. (2010) A novel family of plasmid-transferred anti-sense ncRNAs. RNA Biol., 7, 120-124.
    • (2010) RNA Biol. , vol.7 , pp. 120-124
    • Findeiss, S.1    Schmidtke, C.2    Stadler, P.F.3    Bonas, U.4
  • 40
    • 57349189421 scopus 로고    scopus 로고
    • Small toxic proteins and the antisense RNAs that repress them
    • Fozo, E.M., Hemm, M.R. and Storz, G. (2008) Small toxic proteins and the antisense RNAs that repress them. Microbiol. Mol. Biol. Rev., 72, 579-589.
    • (2008) Microbiol. Mol. Biol. Rev. , vol.72 , pp. 579-589
    • Fozo, E.M.1    Hemm, M.R.2    Storz, G.3
  • 43
    • 77951606278 scopus 로고    scopus 로고
    • Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes
    • Weinberg, Z., Wang, J.X., Bogue, J., Yang, J., Corbino, K., Moy, R.H. and Breaker, R.R. (2010) Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes. Genome. Biol., 11, R31.
    • (2010) Genome. Biol. , vol.11
    • Weinberg, Z.1    Wang, J.X.2    Bogue, J.3    Yang, J.4    Corbino, K.5    Moy, R.H.6    Breaker, R.R.7
  • 44
    • 30344443658 scopus 로고    scopus 로고
    • Sequence-based heuristics for faster annotation of non-coding RNA families
    • Weinberg, Z. and Ruzzo, W.L. (2006) Sequence-based heuristics for faster annotation of non-coding RNA families. Bioinformatics, 22, 35-39.
    • (2006) Bioinformatics , vol.22 , pp. 35-39
    • Weinberg, Z.1    Ruzzo, W.L.2
  • 45
    • 44949157290 scopus 로고    scopus 로고
    • A probabilistic model of local sequence alignment that simplifies statistical significance estimation
    • Eddy, S.R. (2008) A probabilistic model of local sequence alignment that simplifies statistical significance estimation. PLoS Comput. Biol., 4, e1000069.
    • (2008) PLoS Comput. Biol. , vol.4
    • Eddy, S.R.1
  • 46
    • 77952988108 scopus 로고    scopus 로고
    • A new generation of homology search tools based on probabilistic inference
    • Eddy, S.R. (2009) A new generation of homology search tools based on probabilistic inference. Genome Inform., 23, 205-211.
    • (2009) Genome Inform. , vol.23 , pp. 205-211
    • Eddy, S.R.1
  • 47
    • 77955591777 scopus 로고    scopus 로고
    • Hidden Markov model speed heuristic and iterative HMM search procedure
    • Johnson, L.S., Eddy, S.R. and Portugaly, E. (2010) Hidden Markov model speed heuristic and iterative HMM search procedure. BMC Bioinformatics, 11, 431.
    • (2010) BMC Bioinformatics , vol.11 , pp. 431
    • Johnson, L.S.1    Eddy, S.R.2    Portugaly, E.3
  • 48
    • 71049176982 scopus 로고    scopus 로고
    • Genome 10K: A proposal to obtain whole-genome sequence for 10, 000 vertebrate species
    • Genome 10K Community of Scientists C.
    • Genome 10K Community of Scientists, C. (2009) Genome 10K: A proposal to obtain whole-genome sequence for 10, 000 vertebrate species. J. Hered., 100, 659-674.
    • (2009) J. Hered. , vol.100 , pp. 659-674


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.