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Items: 1 to 20 of 163

1.

A stochastic context free grammar based framework for analysis of protein sequences.

Dyrka W, Nebel JC.

BMC Bioinformatics. 2009 Oct 8;10:323. doi: 10.1186/1471-2105-10-323.

2.

Probabilistic grammatical model for helix-helix contact site classification.

Dyrka W, Nebel JC, Kotulska M.

Algorithms Mol Biol. 2013 Dec 18;8(1):31. doi: 10.1186/1748-7188-8-31.

3.

Automated alphabet reduction for protein datasets.

Bacardit J, Stout M, Hirst JD, Valencia A, Smith RE, Krasnogor N.

BMC Bioinformatics. 2009 Jan 6;10:6. doi: 10.1186/1471-2105-10-6.

4.

Predicting location and structure of beta-sheet regions using stochastic tree grammars.

Mamitsuka H, Abe N.

Proc Int Conf Intell Syst Mol Biol. 1994;2:276-84.

PMID:
7584401
5.

Evolving stochastic context--free grammars for RNA secondary structure prediction.

Wj Anderson J, Tataru P, Staines J, Hein J, Lyngsø R.

BMC Bioinformatics. 2012 May 4;13:78. doi: 10.1186/1471-2105-13-78.

6.

Bio-support vector machines for computational proteomics.

Yang ZR, Chou KC.

Bioinformatics. 2004 Mar 22;20(5):735-41. Epub 2004 Jan 29.

7.
8.

SVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition.

Melvin I, Ie E, Kuang R, Weston J, Stafford WN, Leslie C.

BMC Bioinformatics. 2007 May 22;8 Suppl 4:S2.

9.
10.

Using structural motif descriptors for sequence-based binding site prediction.

Henschel A, Winter C, Kim WK, Schroeder M.

BMC Bioinformatics. 2007 May 22;8 Suppl 4:S5.

11.

Automatic generation of 3D motifs for classification of protein binding sites.

Nebel JC, Herzyk P, Gilbert DR.

BMC Bioinformatics. 2007 Aug 30;8:321.

12.

DescFold: a web server for protein fold recognition.

Yan RX, Si JN, Wang C, Zhang Z.

BMC Bioinformatics. 2009 Dec 14;10:416. doi: 10.1186/1471-2105-10-416.

13.

XRate: a fast prototyping, training and annotation tool for phylo-grammars.

Klosterman PS, Uzilov AV, Bendaña YR, Bradley RK, Chao S, Kosiol C, Goldman N, Holmes I.

BMC Bioinformatics. 2006 Oct 3;7:428.

14.

Structural descriptor database: a new tool for sequence-based functional site prediction.

Bernardes JS, Fernandez JH, Vasconcelos AT.

BMC Bioinformatics. 2008 Nov 25;9:492. doi: 10.1186/1471-2105-9-492.

15.

Efficient motif finding algorithms for large-alphabet inputs.

Kuksa PP, Pavlovic V.

BMC Bioinformatics. 2010 Oct 26;11 Suppl 8:S1. doi: 10.1186/1471-2105-11-S8-S1.

16.

Prediction of protein binding sites in protein structures using hidden Markov support vector machine.

Liu B, Wang X, Lin L, Tang B, Dong Q, Wang X.

BMC Bioinformatics. 2009 Nov 20;10:381. doi: 10.1186/1471-2105-10-381.

17.

Detection of 3D atomic similarities and their use in the discrimination of small molecule protein-binding sites.

Najmanovich R, Kurbatova N, Thornton J.

Bioinformatics. 2008 Aug 15;24(16):i105-11. doi: 10.1093/bioinformatics/btn263.

18.
19.

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

Sükösd Z, Knudsen B, Vaerum M, Kjems J, Andersen ES.

BMC Bioinformatics. 2011 Apr 18;12:103. doi: 10.1186/1471-2105-12-103.

20.

Fast splice site detection using information content and feature reduction.

Baten AK, Halgamuge SK, Chang BC.

BMC Bioinformatics. 2008 Dec 12;9 Suppl 12:S8. doi: 10.1186/1471-2105-9-S12-S8.

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