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Volumn 10, Issue 3, 2007, Pages 279-285

RNA structure: bioinformatic analysis

Author keywords

[No Author keywords available]

Indexed keywords

RNA; UNTRANSLATED RNA;

EID: 34250780035     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mib.2007.05.010     Document Type: Review
Times cited : (37)

References (67)
  • 2
    • 0036371843 scopus 로고    scopus 로고
    • Antisense RNAs in bacteria and their genetic elements
    • Wagner E.G., Altuvia S., and Romby P. Antisense RNAs in bacteria and their genetic elements. Adv Genet 46 (2002) 361-398
    • (2002) Adv Genet , vol.46 , pp. 361-398
    • Wagner, E.G.1    Altuvia, S.2    Romby, P.3
  • 3
    • 0347444723 scopus 로고    scopus 로고
    • MicroRNAs: genomics, biogenesis, mechanism, and function
    • Bartel D.P. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116 (2004) 281-297
    • (2004) Cell , vol.116 , pp. 281-297
    • Bartel, D.P.1
  • 5
    • 3042767202 scopus 로고    scopus 로고
    • MicroRNAs: small RNAs with a big role in gene regulation
    • He L., and Hannon G.J. MicroRNAs: small RNAs with a big role in gene regulation. Nat Rev Genet 5 (2004) 522-531
    • (2004) Nat Rev Genet , vol.5 , pp. 522-531
    • He, L.1    Hannon, G.J.2
  • 6
    • 4344682527 scopus 로고    scopus 로고
    • The small RNA regulators of Escherichia coli: roles and mechanisms
    • Gottesman S. The small RNA regulators of Escherichia coli: roles and mechanisms. Annu Rev Microbiol 58 (2004) 303-328
    • (2004) Annu Rev Microbiol , vol.58 , pp. 303-328
    • Gottesman, S.1
  • 7
    • 0035228079 scopus 로고    scopus 로고
    • X-chromosome inactivation: counting, choice and initiation
    • Avner P., and Heard E. X-chromosome inactivation: counting, choice and initiation. Nat Rev Genet 2 (2001) 59-67
    • (2001) Nat Rev Genet , vol.2 , pp. 59-67
    • Avner, P.1    Heard, E.2
  • 8
    • 0037075032 scopus 로고    scopus 로고
    • The non-coding Air RNA is required for silencing autosomal imprinted genes
    • Sleutels F., Zwart R., and Barlow D.P. The non-coding Air RNA is required for silencing autosomal imprinted genes. Nature 415 (2002) 810-813
    • (2002) Nature , vol.415 , pp. 810-813
    • Sleutels, F.1    Zwart, R.2    Barlow, D.P.3
  • 9
    • 0037123632 scopus 로고    scopus 로고
    • An expanding universe of noncoding RNAs
    • Storz G. An expanding universe of noncoding RNAs. Science 296 (2002) 1260-1263
    • (2002) Science , vol.296 , pp. 1260-1263
    • Storz, G.1
  • 12
    • 0042121256 scopus 로고    scopus 로고
    • Mfold web server for nucleic acid folding and hybridization prediction
    • Zuker M. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31 (2003) 3406-3415
    • (2003) Nucleic Acids Res , vol.31 , pp. 3406-3415
    • Zuker, M.1
  • 13
    • 0043123153 scopus 로고    scopus 로고
    • Vienna RNA secondary structure server
    • Hofacker I.L. Vienna RNA secondary structure server. Nucleic Acids Res 31 (2003) 3429-3431
    • (2003) Nucleic Acids Res , vol.31 , pp. 3429-3431
    • Hofacker, I.L.1
  • 14
    • 13344262673 scopus 로고    scopus 로고
    • A comprehensive comparison of comparative RNA structure prediction approaches
    • Gardner P.P., and Giegerich R. A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics 5 (2004) 140
    • (2004) BMC Bioinformatics , vol.5 , pp. 140
    • Gardner, P.P.1    Giegerich, R.2
  • 16
    • 33845986334 scopus 로고    scopus 로고
    • Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA
    • Freyhult E.K., Bollback J.P., and Gardner P.P. Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA. Genome Res 17 (2007) 117-125
    • (2007) Genome Res , vol.17 , pp. 117-125
    • Freyhult, E.K.1    Bollback, J.P.2    Gardner, P.P.3
  • 17
    • 17844386108 scopus 로고    scopus 로고
    • A benchmark of multiple sequence alignment programs upon structural RNAs
    • ••], these are very useful papers that test the performance of algorithms and the impact of pure sequence comparison in an RNA structural alignment. The authors define the 'twilight zone' of ncRNA alignment, that is, the homology range below which sequence alignment alone is unlikely to produce reliable results for RNA sequences.
    • ••], these are very useful papers that test the performance of algorithms and the impact of pure sequence comparison in an RNA structural alignment. The authors define the 'twilight zone' of ncRNA alignment, that is, the homology range below which sequence alignment alone is unlikely to produce reliable results for RNA sequences.
    • (2005) Nucleic Acids Res , vol.33 , pp. 2433-2439
    • Gardner, P.P.1    Wilm, A.2    Washietl, S.3
  • 18
    • 0003157183 scopus 로고    scopus 로고
    • Noncoding RNA gene detection using comparative sequence analysis
    • Rivas E., and Eddy S.R. Noncoding RNA gene detection using comparative sequence analysis. BMC Bioinformatics 2 (2001) 8
    • (2001) BMC Bioinformatics , vol.2 , pp. 8
    • Rivas, E.1    Eddy, S.R.2
  • 19
    • 0037387973 scopus 로고    scopus 로고
    • A survey of small RNA-encoding genes in Escherichia coli
    • Hershberg R., Altuvia S., and Margalit H. A survey of small RNA-encoding genes in Escherichia coli. Nucleic Acids Res 31 (2003) 1813-1820
    • (2003) Nucleic Acids Res , vol.31 , pp. 1813-1820
    • Hershberg, R.1    Altuvia, S.2    Margalit, H.3
  • 20
    • 26444600764 scopus 로고    scopus 로고
    • Small RNA genes expressed from Staphylococcus aureus genomic and pathogenicity islands with specific expression among pathogenic strains
    • Pichon C., and Felden B. Small RNA genes expressed from Staphylococcus aureus genomic and pathogenicity islands with specific expression among pathogenic strains. Proc Natl Acad Sci USA 102 (2005) 14249-14254
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 14249-14254
    • Pichon, C.1    Felden, B.2
  • 24
    • 25144458057 scopus 로고    scopus 로고
    • Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure
    • ••], the programs studied in these two articles are among the first to intermingle in a coherent fashion and with ease for the user sequence and 3D data.
    • ••], the programs studied in these two articles are among the first to intermingle in a coherent fashion and with ease for the user sequence and 3D data.
    • (2005) Bioinformatics , vol.21 , pp. 3320-3321
    • Jossinet, F.1    Westhof, E.2
  • 25
    • 33751213606 scopus 로고    scopus 로고
    • 4SALE-a tool for synchronous RNA sequence and secondary structure alignment and editing
    • Seibel P.N., Muller T., Dandekar T., Schultz J., and Wolf M. 4SALE-a tool for synchronous RNA sequence and secondary structure alignment and editing. BMC Bioinformatics 7 (2006) 498
    • (2006) BMC Bioinformatics , vol.7 , pp. 498
    • Seibel, P.N.1    Muller, T.2    Dandekar, T.3    Schultz, J.4    Wolf, M.5
  • 26
    • 33747882459 scopus 로고    scopus 로고
    • SCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments
    • Tabei Y., Tsuda K., Kin T., and Asai K. SCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments. Bioinformatics 22 (2006) 1723-1729
    • (2006) Bioinformatics , vol.22 , pp. 1723-1729
    • Tabei, Y.1    Tsuda, K.2    Kin, T.3    Asai, K.4
  • 27
    • 33745612985 scopus 로고    scopus 로고
    • STRAL: progressive alignment of non-coding RNA using base pairing probability vectors in quadratic time
    • Dalli D., Wilm A., Mainz I., and Steger G. STRAL: progressive alignment of non-coding RNA using base pairing probability vectors in quadratic time. Bioinformatics 22 (2006) 1593-1599
    • (2006) Bioinformatics , vol.22 , pp. 1593-1599
    • Dalli, D.1    Wilm, A.2    Mainz, I.3    Steger, G.4
  • 28
    • 24044519380 scopus 로고    scopus 로고
    • MARNA: multiple alignment and consensus structure prediction of RNAs based on sequence structure comparisons
    • Siebert S., and Backofen R. MARNA: multiple alignment and consensus structure prediction of RNAs based on sequence structure comparisons. Bioinformatics 21 (2005) 3352-3359
    • (2005) Bioinformatics , vol.21 , pp. 3352-3359
    • Siebert, S.1    Backofen, R.2
  • 29
    • 23144449520 scopus 로고    scopus 로고
    • The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search
    • Havgaard J.H., Lyngso R.B., and Gorodkin J. The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search. Nucleic Acids Res 33 (2005) W650-W653
    • (2005) Nucleic Acids Res , vol.33
    • Havgaard, J.H.1    Lyngso, R.B.2    Gorodkin, J.3
  • 30
    • 25444433586 scopus 로고    scopus 로고
    • Accelerated probabilistic inference of RNA structure evolution
    • Holmes I. Accelerated probabilistic inference of RNA structure evolution. BMC Bioinformatics 6 (2005) 73
    • (2005) BMC Bioinformatics , vol.6 , pp. 73
    • Holmes, I.1
  • 31
    • 19544374354 scopus 로고    scopus 로고
    • Predicting a set of minimal free energy RNA secondary structures common to two sequences
    • Mathews D.H. Predicting a set of minimal free energy RNA secondary structures common to two sequences. Bioinformatics 21 (2005) 2246-2253
    • (2005) Bioinformatics , vol.21 , pp. 2246-2253
    • Mathews, D.H.1
  • 32
    • 25444512062 scopus 로고    scopus 로고
    • A method for aligning RNA secondary structures and its application to RNA motif detection
    • Liu J., Wang J.T., Hu J., and Tian B. A method for aligning RNA secondary structures and its application to RNA motif detection. BMC Bioinformatics 6 (2005) 89
    • (2005) BMC Bioinformatics , vol.6 , pp. 89
    • Liu, J.1    Wang, J.T.2    Hu, J.3    Tian, B.4
  • 33
    • 0029937428 scopus 로고    scopus 로고
    • Hidden Markov models
    • Eddy S.R. Hidden Markov models. Curr Opin Struct Biol 6 (1996) 361-365
    • (1996) Curr Opin Struct Biol , vol.6 , pp. 361-365
    • Eddy, S.R.1
  • 34
    • 20744449966 scopus 로고    scopus 로고
    • Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures
    • Matsui H., Sato K., and Sakakibara Y. Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures. Bioinformatics 21 (2005) 2611-2617
    • (2005) Bioinformatics , vol.21 , pp. 2611-2617
    • Matsui, H.1    Sato, K.2    Sakakibara, Y.3
  • 35
    • 27544451563 scopus 로고    scopus 로고
    • RNA secondary structural alignment with conditional random fields
    • Sato K., and Sakakibara Y. RNA secondary structural alignment with conditional random fields. Bioinformatics 21 Suppl 2 (2005) ii237-ii242
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 2
    • Sato, K.1    Sakakibara, Y.2
  • 36
    • 33744807172 scopus 로고    scopus 로고
    • The building blocks and motifs of RNA architecture
    • The authors describe all the computational tools dedicated to the annotation of RNA structural data and, consequently, to the discovery of RNA architecture rules. Because the current computational strategies are mainly limited to the secondary structure, the implementation of these rules will improve the bioinformatics analysis of RNA data.
    • Leontis N.B., Lescoute A., and Westhof E. The building blocks and motifs of RNA architecture. Curr Opin Struct Biol 16 (2006) 279-287. The authors describe all the computational tools dedicated to the annotation of RNA structural data and, consequently, to the discovery of RNA architecture rules. Because the current computational strategies are mainly limited to the secondary structure, the implementation of these rules will improve the bioinformatics analysis of RNA data.
    • (2006) Curr Opin Struct Biol , vol.16 , pp. 279-287
    • Leontis, N.B.1    Lescoute, A.2    Westhof, E.3
  • 37
    • 25844447772 scopus 로고    scopus 로고
    • HotKnots: heuristic prediction of RNA secondary structures including pseudoknots
    • Ren J., Rastegari B., Condon A., and Hoos H.H. HotKnots: heuristic prediction of RNA secondary structures including pseudoknots. RNA 11 (2005) 1494-1504
    • (2005) RNA , vol.11 , pp. 1494-1504
    • Ren, J.1    Rastegari, B.2    Condon, A.3    Hoos, H.H.4
  • 38
    • 0026483177 scopus 로고
    • Structural and functional aspects of RNA pseudoknots
    • Dam E., Pleij K., and Draper D. Structural and functional aspects of RNA pseudoknots. Biochemistry 31 (1992) 11665-11676
    • (1992) Biochemistry , vol.31 , pp. 11665-11676
    • Dam, E.1    Pleij, K.2    Draper, D.3
  • 39
    • 22744455135 scopus 로고    scopus 로고
    • Pseudoknots: RNA structures with diverse functions
    • Staple D.W., and Butcher S.E. Pseudoknots: RNA structures with diverse functions. PLoS Biol 3 (2005) e213
    • (2005) PLoS Biol , vol.3
    • Staple, D.W.1    Butcher, S.E.2
  • 40
    • 0033524952 scopus 로고    scopus 로고
    • A dynamic programming algorithm for RNA structure prediction including pseudoknots
    • Rivas E., and Eddy S.R. A dynamic programming algorithm for RNA structure prediction including pseudoknots. J Mol Biol 285 (1999) 2053-2068
    • (1999) J Mol Biol , vol.285 , pp. 2053-2068
    • Rivas, E.1    Eddy, S.R.2
  • 41
    • 13244252326 scopus 로고    scopus 로고
    • Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics
    • Reeder J., and Giegerich R. Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. BMC Bioinformatics 5 (2004) 104
    • (2004) BMC Bioinformatics , vol.5 , pp. 104
    • Reeder, J.1    Giegerich, R.2
  • 42
    • 22944464108 scopus 로고    scopus 로고
    • Predicting RNA structure using mutual information
    • Freyhult E., Moulton V., and Gardner P. Predicting RNA structure using mutual information. Appl Bioinformatics 4 (2005) 53-59
    • (2005) Appl Bioinformatics , vol.4 , pp. 53-59
    • Freyhult, E.1    Moulton, V.2    Gardner, P.3
  • 43
    • 24144497144 scopus 로고    scopus 로고
    • Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction
    • Reeder J., and Giegerich R. Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction. Bioinformatics 21 (2005) 3516-3523
    • (2005) Bioinformatics , vol.21 , pp. 3516-3523
    • Reeder, J.1    Giegerich, R.2
  • 44
    • 32544440797 scopus 로고    scopus 로고
    • RNAshapes: an integrated RNA analysis package based on abstract shapes
    • A description of an integrated software package working on the concept of RNA shape. This abstract representation of an RNA secondary structure reduces the computing requirements and the processing of thousands of near-optimal solutions. The package offers several convenient functions (e.g. graphical output, graphical user interface, interactive user input and so on).
    • Steffen P., Voss B., Rehmsmeier M., Reeder J., and Giegerich R. RNAshapes: an integrated RNA analysis package based on abstract shapes. Bioinformatics 22 (2006) 500-503. A description of an integrated software package working on the concept of RNA shape. This abstract representation of an RNA secondary structure reduces the computing requirements and the processing of thousands of near-optimal solutions. The package offers several convenient functions (e.g. graphical output, graphical user interface, interactive user input and so on).
    • (2006) Bioinformatics , vol.22 , pp. 500-503
    • Steffen, P.1    Voss, B.2    Rehmsmeier, M.3    Reeder, J.4    Giegerich, R.5
  • 46
    • 33750996431 scopus 로고    scopus 로고
    • Structural analysis of aligned RNAs
    • Voss B. Structural analysis of aligned RNAs. Nucleic Acids Res 34 (2006) 5471-5481
    • (2006) Nucleic Acids Res , vol.34 , pp. 5471-5481
    • Voss, B.1
  • 47
    • 33744945759 scopus 로고    scopus 로고
    • Identification of consensus RNA secondary structures using suffix arrays
    • Anwar M., Nguyen T., and Turcotte M. Identification of consensus RNA secondary structures using suffix arrays. BMC Bioinformatics 7 (2006) 244
    • (2006) BMC Bioinformatics , vol.7 , pp. 244
    • Anwar, M.1    Nguyen, T.2    Turcotte, M.3
  • 48
    • 0032796501 scopus 로고    scopus 로고
    • RNA secondary structure prediction using stochastic context-free grammars and evolutionary history
    • Knudsen B., and Hein J. RNA secondary structure prediction using stochastic context-free grammars and evolutionary history. Bioinformatics 15 (1999) 446-454
    • (1999) Bioinformatics , vol.15 , pp. 446-454
    • Knudsen, B.1    Hein, J.2
  • 49
    • 33749412683 scopus 로고    scopus 로고
    • Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints
    • Dowell R.D., and Eddy S.R. Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints. BMC Bioinformatics 7 (2006) 400
    • (2006) BMC Bioinformatics , vol.7 , pp. 400
    • Dowell, R.D.1    Eddy, S.R.2
  • 50
    • 33747874580 scopus 로고    scopus 로고
    • CONTRAfold: RNA secondary structure prediction without physics-based models
    • Do C.B., Woods D.A., and Batzoglou S. CONTRAfold: RNA secondary structure prediction without physics-based models. Bioinformatics 22 (2006) e90-e98
    • (2006) Bioinformatics , vol.22
    • Do, C.B.1    Woods, D.A.2    Batzoglou, S.3
  • 51
    • 33344469705 scopus 로고    scopus 로고
    • RNA secondary structure prediction from sequence alignments using a network of k-nearest neighbor classifiers
    • Bindewald E., and Shapiro B.A. RNA secondary structure prediction from sequence alignments using a network of k-nearest neighbor classifiers. RNA 12 (2006) 342-352
    • (2006) RNA , vol.12 , pp. 342-352
    • Bindewald, E.1    Shapiro, B.A.2
  • 52
    • 32544452741 scopus 로고    scopus 로고
    • CMfinder-a covariance model based RNA motif finding algorithm
    • Yao Z., Weinberg Z., and Ruzzo W.L. CMfinder-a covariance model based RNA motif finding algorithm. Bioinformatics 22 (2006) 445-452
    • (2006) Bioinformatics , vol.22 , pp. 445-452
    • Yao, Z.1    Weinberg, Z.2    Ruzzo, W.L.3
  • 53
    • 0028272315 scopus 로고
    • RNA sequence analysis using covariance models
    • Eddy S.R., and Durbin R. RNA sequence analysis using covariance models. Nucleic Acids Res 22 (1994) 2079-2088
    • (1994) Nucleic Acids Res , vol.22 , pp. 2079-2088
    • Eddy, S.R.1    Durbin, R.2
  • 54
    • 33749845559 scopus 로고    scopus 로고
    • Mining frequent stem patterns from unaligned RNA sequences
    • Hamada M., Tsuda K., Kudo T., Kin T., and Asai K. Mining frequent stem patterns from unaligned RNA sequences. Bioinformatics 22 (2006) 2480-2487
    • (2006) Bioinformatics , vol.22 , pp. 2480-2487
    • Hamada, M.1    Tsuda, K.2    Kudo, T.3    Kin, T.4    Asai, K.5
  • 55
    • 33748672893 scopus 로고    scopus 로고
    • Searching RNA motifs and their intermolecular contacts with constraint networks
    • The ability to search for intermolecular interactions is not frequently observed among the available RNA tools. Despite the fact that only a full duplex constraint is allowed, MilPat can be a valuable program to identify RNA partners in genomes.
    • Thebault P., de Givry S., Schiex T., and Gaspin C. Searching RNA motifs and their intermolecular contacts with constraint networks. Bioinformatics 22 (2006) 2074-2080. The ability to search for intermolecular interactions is not frequently observed among the available RNA tools. Despite the fact that only a full duplex constraint is allowed, MilPat can be a valuable program to identify RNA partners in genomes.
    • (2006) Bioinformatics , vol.22 , pp. 2074-2080
    • Thebault, P.1    de Givry, S.2    Schiex, T.3    Gaspin, C.4
  • 56
    • 33747857387 scopus 로고    scopus 로고
    • RNAMST: efficient and flexible approach for identifying RNA structural homologs
    • Chang T.H., Huang H.D., Chuang T.N., Shien D.M., and Horng J.T. RNAMST: efficient and flexible approach for identifying RNA structural homologs. Nucleic Acids Res 34 (2006) W423-W428
    • (2006) Nucleic Acids Res , vol.34
    • Chang, T.H.1    Huang, H.D.2    Chuang, T.N.3    Shien, D.M.4    Horng, J.T.5
  • 57
    • 30344443658 scopus 로고    scopus 로고
    • Sequence-based heuristics for faster annotation of non-coding RNA families
    • Weinberg Z., and Ruzzo W.L. Sequence-based heuristics for faster annotation of non-coding RNA families. Bioinformatics 22 (2006) 35-39
    • (2006) Bioinformatics , vol.22 , pp. 35-39
    • Weinberg, Z.1    Ruzzo, W.L.2
  • 58
    • 2942544566 scopus 로고    scopus 로고
    • RSEARCH: finding homologs of single structured RNA sequences
    • Klein R.J., and Eddy S.R. RSEARCH: finding homologs of single structured RNA sequences. BMC Bioinformatics 4 (2003) 44
    • (2003) BMC Bioinformatics , vol.4 , pp. 44
    • Klein, R.J.1    Eddy, S.R.2
  • 59
    • 24644476482 scopus 로고    scopus 로고
    • MicroRNA identification based on sequence and structure alignment
    • Wang X., Zhang J., Li F., Gu J., He T., Zhang X., and Li Y. MicroRNA identification based on sequence and structure alignment. Bioinformatics 21 (2005) 3610-3614
    • (2005) Bioinformatics , vol.21 , pp. 3610-3614
    • Wang, X.1    Zhang, J.2    Li, F.3    Gu, J.4    He, T.5    Zhang, X.6    Li, Y.7
  • 61
    • 33747871855 scopus 로고    scopus 로고
    • Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data
    • Hertel J., and Stadler P.F. Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data. Bioinformatics 22 (2006) e197-e202
    • (2006) Bioinformatics , vol.22
    • Hertel, J.1    Stadler, P.F.2
  • 62
    • 20444445386 scopus 로고    scopus 로고
    • Web services in the life sciences
    • Curcin V., Ghanem M., and Guo Y. Web services in the life sciences. Drug Discov Today 10 (2005) 865-871
    • (2005) Drug Discov Today , vol.10 , pp. 865-871
    • Curcin, V.1    Ghanem, M.2    Guo, Y.3
  • 63
    • 33645472732 scopus 로고    scopus 로고
    • The RNA Ontology Consortium: an open invitation to the RNA community
    • An introduction to the concept of ontology and to its application to the RNA field of research. The definition and construction of such an ontology should improve the interconnection of sequence and structural data, and will lead to the development of new computational tools.
    • Leontis N.B., Altman R.B., Berman H.M., Brenner S.E., Brown J.W., Engelke D.R., Harvey S.C., Holbrook S.R., Jossinet F., and Lewis S.E. The RNA Ontology Consortium: an open invitation to the RNA community. RNA 12 (2006) 533-541. An introduction to the concept of ontology and to its application to the RNA field of research. The definition and construction of such an ontology should improve the interconnection of sequence and structural data, and will lead to the development of new computational tools.
    • (2006) RNA , vol.12 , pp. 533-541
    • Leontis, N.B.1    Altman, R.B.2    Berman, H.M.3    Brenner, S.E.4    Brown, J.W.5    Engelke, D.R.6    Harvey, S.C.7    Holbrook, S.R.8    Jossinet, F.9    Lewis, S.E.10
  • 64
    • 13444274741 scopus 로고    scopus 로고
    • Gene Ontology: looking backwards and forwards
    • Lewis S.E. Gene Ontology: looking backwards and forwards. Genome Biol 6 (2005) 103
    • (2005) Genome Biol , vol.6 , pp. 103
    • Lewis, S.E.1
  • 65
    • 0037046558 scopus 로고    scopus 로고
    • Creating a bioinformatics nation
    • Stein L. Creating a bioinformatics nation. Nature 417 (2002) 119-120
    • (2002) Nature , vol.417 , pp. 119-120
    • Stein, L.1
  • 66
    • 34247598415 scopus 로고    scopus 로고
    • Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering
    • Original work focused on the automatic classification of ncRNAs into families, according to structural criteria. The authors demonstrate that their strategy is able to discover novel classes of ncRNAs.
    • Will S., Reiche K., Hofacker I.L., Stadler P.F., and Backofen R. Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering. PLoS Comput Biol 3 (2007) e65. Original work focused on the automatic classification of ncRNAs into families, according to structural criteria. The authors demonstrate that their strategy is able to discover novel classes of ncRNAs.
    • (2007) PLoS Comput Biol , vol.3
    • Will, S.1    Reiche, K.2    Hofacker, I.L.3    Stadler, P.F.4    Backofen, R.5
  • 67
    • 34147104014 scopus 로고    scopus 로고
    • Bridging the gap in RNA structure prediction
    • Interesting review on the recent developments in the computational prediction of RNA structure. Because this task is more related to the work of a crystallographer or a structural biologist, it has not been described here. Consequently, this review is complementary to ours.
    • Shapiro B.A., Yingling Y.G., Kasprzak W., and Bindewald E. Bridging the gap in RNA structure prediction. Curr Opin Struct Biol 17 (2007) 157-165. Interesting review on the recent developments in the computational prediction of RNA structure. Because this task is more related to the work of a crystallographer or a structural biologist, it has not been described here. Consequently, this review is complementary to ours.
    • (2007) Curr Opin Struct Biol , vol.17 , pp. 157-165
    • Shapiro, B.A.1    Yingling, Y.G.2    Kasprzak, W.3    Bindewald, E.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.