-
2
-
-
0034566410
-
Small subunit ribosomal RNA modeling using stochastic contextfree grammars
-
Brown,M.P. (2000) Small subunit ribosomal RNA modeling using stochastic contextfree grammars. Proc. Int. Conf. Intell. Syst. Mol. Biol., 8, 57-66.
-
(2000)
Proc. Int. Conf. Intell. Syst. Mol. Biol.
, vol.8
, pp. 57-66
-
-
Brown, M.P.1
-
3
-
-
0031586003
-
Prediction of complete gene structures in human genomic DNA
-
Burge,C. and Karlin,S. (1997) Prediction of complete gene structures in human genomic DNA. J. Mol. Biol., 268, 78-94.
-
(1997)
J. Mol. Biol.
, vol.268
, pp. 78-94
-
-
Burge, C.1
Karlin, S.2
-
5
-
-
2942607685
-
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
-
6
-
-
44949157290
-
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
-
7
-
-
33846697176
-
Striped Smith-Waterman speeds database searches six times over other SIMD implementations
-
Farrar,M. (2007) Striped Smith-Waterman speeds database searches six times over other SIMD implementations. Bioinformatics, 23, 156-161.
-
(2007)
Bioinformatics
, vol.23
, pp. 156-161
-
-
Farrar, M.1
-
8
-
-
33845986334
-
Exploring genomic dark matter: A critical assessment of the performance of homology search methods on noncoding RNA
-
Freyhult,E.K. et al. (2007) Exploring genomic dark matter: A critical assessment of the performance of homology search methods on noncoding RNA. Genome Res., 17, 117-125.
-
(2007)
Genome Res.
, vol.17
, pp. 117-125
-
-
Freyhult, E.K.1
-
9
-
-
78651323093
-
Rfam: Wikipedia, clans and the " decimal" release
-
Gardner,P.P. et al. (2011) Rfam: Wikipedia, clans and the " decimal" release. Nucleic Acids Res., 39, D141-D145.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Gardner, P.P.1
-
10
-
-
16344363338
-
Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%
-
Havgaard,J.H. et al. (2005) Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%. Bioinformatics., 21, 1815-1824.
-
(2005)
Bioinformatics
, vol.21
, pp. 1815-1824
-
-
Havgaard, J.H.1
-
11
-
-
27744530711
-
Parallel RNA secondary structure prediction using stochastic context-free grammars
-
Liu,T. and Schmidt,B. (2005) Parallel RNA secondary structure prediction using stochastic context-free grammars. Concurr. Comput. Pract. Exp., 17, 1669-1685.
-
(2005)
Concurr. Comput. Pract. Exp.
, vol.17
, pp. 1669-1685
-
-
Liu, T.1
Schmidt, B.2
-
12
-
-
0030854739
-
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence
-
Lowe,T.M. and Eddy,S.R. (1997) tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res., 25, 955-964.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 955-964
-
-
Lowe, T.M.1
Eddy, S.R.2
-
13
-
-
0035890840
-
RNAMotif, an RNA secondary structure definition and search algorithm
-
Macke,T.J. et al. (2001) RNAMotif, an RNA secondary structure definition and search algorithm. Nucleic Acids Res., 29, 4724-4735.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 4724-4735
-
-
Macke, T.J.1
-
14
-
-
0036295198
-
Dynalign: an algorithm for finding the secondary structure common to two RNA sequences
-
Mathews,D.H. and Turner,D.H. (2002) Dynalign: an algorithm for finding the secondary structure common to two RNA sequences. J. Mol. Biol., 317, 191-203.
-
(2002)
J. Mol. Biol.
, vol.317
, pp. 191-203
-
-
Mathews, D.H.1
Turner, D.H.2
-
15
-
-
34047240607
-
Query-dependent banding (QDB) for faster RNA similarity searches
-
Nawrocki,E.P. and Eddy,S.R. (2007) Query-dependent banding (QDB) for faster RNA similarity searches. PLoS Comput. Biol., 3, e56.
-
(2007)
PLoS Comput. Biol.
, vol.3
-
-
Nawrocki, E.P.1
Eddy, S.R.2
-
16
-
-
65549111754
-
Infernal 1.0: Inference of RNA alignments
-
Nawrocki,E.P. et al. (2009) Infernal 1.0: Inference of RNA alignments. Bioinformatics, 25, 1335-1337.
-
(2009)
Bioinformatics
, vol.25
, pp. 1335-1337
-
-
Nawrocki, E.P.1
-
17
-
-
0033743209
-
Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors
-
Rognes,T. and Seeberg,E. (2000) Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors. Bioinformatics, 16, 699-706.
-
(2000)
Bioinformatics
, vol.16
, pp. 699-706
-
-
Rognes, T.1
Seeberg, E.2
-
18
-
-
69249242896
-
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
-
19
-
-
13444287763
-
Exploiting conserved structure for faster annotation of non-coding RNAs without loss of accuracy
-
Weinberg,Z. and Ruzzo,W.L. (2004a) Exploiting conserved structure for faster annotation of non-coding RNAs without loss of accuracy. Bioinformatics, 20 (Suppl. 1), I334-I341.
-
(2004)
Bioinformatics
, vol.20
, Issue.SUPPL. 1
-
-
Weinberg, Z.1
Ruzzo, W.L.2
-
20
-
-
2442595998
-
Faster genome annotation of non-coding RNA families without loss of accuracy
-
ACM, New York, NY
-
Weinberg,Z. and Ruzzo,W.L. (2004b) Faster genome annotation of non-coding RNA families without loss of accuracy. In RECOMB '04. ACM, New York, NY, pp. 243-251.
-
(2004)
RECOMB '04
, pp. 243-251
-
-
Weinberg, Z.1
Ruzzo, W.L.2
-
21
-
-
30344443658
-
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
-
22
-
-
0030935244
-
Using video-oriented instructions to speed up sequence comparison
-
Wozniak,A. (1997) Using video-oriented instructions to speed up sequence comparison. Comput. Appl. Biosci., 13, 145-150.
-
(1997)
Comput. Appl. Biosci.
, vol.13
, pp. 145-150
-
-
Wozniak, A.1
|