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Results: 1 to 20 of 54

1.

Supervised multivariate analysis of sequence groups to identify specificity determining residues.

Wallace IM, Higgins DG.

BMC Bioinformatics. 2007 Apr 23;8:135.

PMID:
17451607
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Accuracy of structure-based sequence alignment of automatic methods.

Kim C, Lee B.

BMC Bioinformatics. 2007 Sep 20;8:355.

PMID:
17883866
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Multiple graph alignment for the structural analysis of protein active sites.

Weskamp N, Hüllermeier E, Kuhn D, Klebe G.

IEEE/ACM Trans Comput Biol Bioinform. 2007 Apr-Jun;4(2):310-20.

PMID:
17473323
[PubMed - indexed for MEDLINE]
4.

Incorporating background frequency improves entropy-based residue conservation measures.

Wang K, Samudrala R.

BMC Bioinformatics. 2006 Aug 17;7:385.

PMID:
16916457
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

ProfileGrids as a new visual representation of large multiple sequence alignments: a case study of the RecA protein family.

Roca AI, Almada AE, Abajian AC.

BMC Bioinformatics. 2008 Dec 22;9:554. doi: 10.1186/1471-2105-9-554.

PMID:
19102758
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

H2r: identification of evolutionary important residues by means of an entropy based analysis of multiple sequence alignments.

Merkl R, Zwick M.

BMC Bioinformatics. 2008 Mar 18;9:151. doi: 10.1186/1471-2105-9-151.

PMID:
18366663
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Optimizing the size of the sequence profiles to increase the accuracy of protein sequence alignments generated by profile-profile algorithms.

Poleksic A, Fienup M.

Bioinformatics. 2008 May 1;24(9):1145-53. doi: 10.1093/bioinformatics/btn097. Epub 2008 Mar 12.

PMID:
18337259
[PubMed - indexed for MEDLINE]
Free Article
8.
9.

Protein structure mining using a structural alphabet.

Tyagi M, de Brevern AG, Srinivasan N, Offmann B.

Proteins. 2008 May 1;71(2):920-37.

PMID:
18004784
[PubMed - indexed for MEDLINE]
10.

BiasViz: visualization of amino acid biased regions in protein alignments.

Huska MR, Buschmann H, Andrade-Navarro MA.

Bioinformatics. 2007 Nov 15;23(22):3093-4. Epub 2007 Oct 6.

PMID:
17921493
[PubMed - indexed for MEDLINE]
Free Article
11.

Learning scoring schemes for sequence alignment from partial examples.

Kim E, Kececioglu J.

IEEE/ACM Trans Comput Biol Bioinform. 2008 Oct-Dec;5(4):546-56. doi: 10.1109/TCBB.2008.57.

PMID:
18989042
[PubMed - indexed for MEDLINE]
12.

A simple genetic algorithm for multiple sequence alignment.

Gondro C, Kinghorn BP.

Genet Mol Res. 2007 Oct 5;6(4):964-82.

PMID:
18058716
[PubMed - indexed for MEDLINE]
Free Article
13.

Searching for evolutionary distant RNA homologs within genomic sequences using partition function posterior probabilities.

Roshan U, Chikkagoudar S, Livesay DR.

BMC Bioinformatics. 2008 Jan 28;9:61. doi: 10.1186/1471-2105-9-61.

PMID:
18226231
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Iterative non-sequential protein structural alignment.

Salem S, Zaki MJ.

Comput Syst Bioinformatics Conf. 2008;7:183-94.

PMID:
19642279
[PubMed - indexed for MEDLINE]
Free Article
15.

Finding homologs in amino acid sequences using network BLAST searches.

Ladunga I.

Curr Protoc Bioinformatics. 2003 Feb;Chapter 3:Unit 3.4. doi: 10.1002/0471250953.bi0304s00.

PMID:
18428697
[PubMed - indexed for MEDLINE]
16.

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.

PMID:
17570145
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Sequence based residue depth prediction using evolutionary information and predicted secondary structure.

Zhang H, Zhang T, Chen K, Shen S, Ruan J, Kurgan L.

BMC Bioinformatics. 2008 Sep 20;9:388. doi: 10.1186/1471-2105-9-388.

PMID:
18803867
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

SVM-HUSTLE--an iterative semi-supervised machine learning approach for pairwise protein remote homology detection.

Shah AR, Oehmen CS, Webb-Robertson BJ.

Bioinformatics. 2008 Mar 15;24(6):783-90. doi: 10.1093/bioinformatics/btn028. Epub 2008 Feb 1.

PMID:
18245127
[PubMed - indexed for MEDLINE]
Free Article
19.

Feedback algorithm and web-server for protein structure alignment.

Zhao Z, Fu B, Alanis FJ, Summa CM.

Comput Syst Bioinformatics Conf. 2008;7:109-20.

PMID:
19642273
[PubMed - indexed for MEDLINE]
Free Article
20.

CATHEDRAL: a fast and effective algorithm to predict folds and domain boundaries from multidomain protein structures.

Redfern OC, Harrison A, Dallman T, Pearl FM, Orengo CA.

PLoS Comput Biol. 2007 Nov;3(11):e232.

PMID:
18052539
[PubMed - indexed for MEDLINE]
Free PMC Article

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