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Items: 1 to 20 of 101

1.

An approximate matching algorithm for finding (sub-)optimal sequences in S-attributed grammars.

Waldisp├╝hl J, Behzadi B, Steyaert JM.

Bioinformatics. 2002;18 Suppl 2:S250-9.

PMID:
12386010
2.

Approximate matching of structured motifs in DNA sequences.

El-Mabrouk N, Raffinot M, Duchesne JE, Lajoie M, Luc N.

J Bioinform Comput Biol. 2005 Apr;3(2):317-42.

PMID:
15852508
3.

Stochastic modeling of RNA pseudoknotted structures: a grammatical approach.

Cai L, Malmberg RL, Wu Y.

Bioinformatics. 2003;19 Suppl 1:i66-73.

PMID:
12855439
4.
5.

HMM sampling and applications to gene finding and alternative splicing.

Cawley SL, Pachter L.

Bioinformatics. 2003 Oct;19 Suppl 2:ii36-41.

PMID:
14534169
6.

Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures.

Matsui H, Sato K, Sakakibara Y.

Bioinformatics. 2005 Jun 1;21(11):2611-7. Epub 2005 Mar 22.

PMID:
15784748
7.

SCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments.

Tabei Y, Tsuda K, Kin T, Asai K.

Bioinformatics. 2006 Jul 15;22(14):1723-9. Epub 2006 May 11.

PMID:
16690634
8.

Parametric alignment of ordered trees.

Wang L, Zhao J.

Bioinformatics. 2003 Nov 22;19(17):2237-45.

PMID:
14630652
9.
10.

Aligning two RNA secondary structures with l-block.

Wang Z, Tillier ER.

Biomol Eng. 2007 Sep;24(3):321-6. Epub 2007 Mar 3.

PMID:
17502167
11.

Pair hidden Markov models on tree structures.

Sakakibara Y.

Bioinformatics. 2003;19 Suppl 1:i232-40.

PMID:
12855464
12.

RNAlign program: alignment of RNA sequences using both primary and secondary structures.

Corpet F, Michot B.

Comput Appl Biosci. 1994 Jul;10(4):389-99.

PMID:
7528630
13.

ProClust: improved clustering of protein sequences with an extended graph-based approach.

Pipenbacher P, Schliep A, Schneckener S, Sch├Ânhuth A, Schomburg D, Schrader R.

Bioinformatics. 2002;18 Suppl 2:S182-91.

PMID:
12386002
14.

Grammatical inference in bioinformatics.

Sakakibara Y.

IEEE Trans Pattern Anal Mach Intell. 2005 Jul;27(7):1051-62.

PMID:
16013753
15.

Murlet: a practical multiple alignment tool for structural RNA sequences.

Kiryu H, Tabei Y, Kin T, Asai K.

Bioinformatics. 2007 Jul 1;23(13):1588-98. Epub 2007 Apr 25.

PMID:
17459961
16.

Approximate matching of regular expressions.

Myers EW, Miller W.

Bull Math Biol. 1989;51(1):5-37.

PMID:
2706401
17.

A pattern matching approach for the estimation of alignment between any two given DNA sequences.

Basu K, Sriraam N, Richard RJ.

J Med Syst. 2007 Aug;31(4):247-53.

PMID:
17685148
18.

Efficiently finding regulatory elements using correlation with gene expression.

Bannai H, Inenaga S, Shinohara A, Takeda M, Miyano S.

J Bioinform Comput Biol. 2004 Jun;2(2):273-88.

PMID:
15297982
19.

A memory-efficient algorithm for multiple sequence alignment with constraints.

Lu CL, Huang YP.

Bioinformatics. 2005 Jan 1;21(1):20-30. Epub 2004 Sep 16.

PMID:
15374876
20.

Mining frequent stem patterns from unaligned RNA sequences.

Hamada M, Tsuda K, Kudo T, Kin T, Asai K.

Bioinformatics. 2006 Oct 15;22(20):2480-7. Epub 2006 Aug 14.

PMID:
16908501

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