Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 105

1.

Coupled mutation finder: a new entropy-based method quantifying phylogenetic noise for the detection of compensatory mutations.

Gültas M, Haubrock M, Tüysüz N, Waack S.

BMC Bioinformatics. 2012 Sep 11;13:225. doi: 10.1186/1471-2105-13-225.

2.

Quantum coupled mutation finder: predicting functionally or structurally important sites in proteins using quantum Jensen-Shannon divergence and CUDA programming.

Gültas M, Düzgün G, Herzog S, Jäger SJ, Meckbach C, Wingender E, Waack S.

BMC Bioinformatics. 2014 Apr 3;15:96. doi: 10.1186/1471-2105-15-96.

3.

Using information theory to search for co-evolving residues in proteins.

Martin LC, Gloor GB, Dunn SD, Wahl LM.

Bioinformatics. 2005 Nov 15;21(22):4116-24. Epub 2005 Sep 13.

PMID:
16159918
4.

Mutual information without the influence of phylogeny or entropy dramatically improves residue contact prediction.

Dunn SD, Wahl LM, Gloor GB.

Bioinformatics. 2008 Feb 1;24(3):333-40. Epub 2007 Dec 5.

PMID:
18057019
5.
6.

Improved multiple sequence alignments using coupled pattern mining.

Hossain KS, Patnaik D, Laxman S, Jain P, Bailey-Kellogg C, Ramakrishnan N.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Sep-Oct;10(5):1098-112. doi: 10.1109/TCBB.2013.36.

PMID:
24384701
7.
8.

PSICOV: precise structural contact prediction using sparse inverse covariance estimation on large multiple sequence alignments.

Jones DT, Buchan DW, Cozzetto D, Pontil M.

Bioinformatics. 2012 Jan 15;28(2):184-90. doi: 10.1093/bioinformatics/btr638. Epub 2011 Nov 17.

PMID:
22101153
9.

Phylogeny-independent detection of functional residues.

Pazos F, Rausell A, Valencia A.

Bioinformatics. 2006 Jun 15;22(12):1440-8. Epub 2006 Mar 21.

PMID:
16551661
10.

AL2CO: calculation of positional conservation in a protein sequence alignment.

Pei J, Grishin NV.

Bioinformatics. 2001 Aug;17(8):700-12.

PMID:
11524371
11.

A new method for revealing correlated mutations under the structural and functional constraints in proteins.

Lee BC, Kim D.

Bioinformatics. 2009 Oct 1;25(19):2506-13. doi: 10.1093/bioinformatics/btp455. Epub 2009 Jul 23.

PMID:
19628501
12.

Accurate simulation and detection of coevolution signals in multiple sequence alignments.

Ackerman SH, Tillier ER, Gatti DL.

PLoS One. 2012;7(10):e47108. doi: 10.1371/journal.pone.0047108. Epub 2012 Oct 16.

13.

H2rs: deducing evolutionary and functionally important residue positions by means of an entropy and similarity based analysis of multiple sequence alignments.

Janda JO, Popal A, Bauer J, Busch M, Klocke M, Spitzer W, Keller J, Merkl R.

BMC Bioinformatics. 2014 Apr 27;15:118. doi: 10.1186/1471-2105-15-118.

14.

Structure-Based Sequence Alignment of the Transmembrane Domains of All Human GPCRs: Phylogenetic, Structural and Functional Implications.

Cvicek V, Goddard WA 3rd, Abrol R.

PLoS Comput Biol. 2016 Mar 30;12(3):e1004805. doi: 10.1371/journal.pcbi.1004805. eCollection 2016 Mar.

15.

Predicting protein β-sheet contacts using a maximum entropy-based correlated mutation measure.

Burkoff NS, Várnai C, Wild DL.

Bioinformatics. 2013 Mar 1;29(5):580-7. doi: 10.1093/bioinformatics/btt005. Epub 2013 Jan 10.

PMID:
23314126
16.

The ConSurf-HSSP database: the mapping of evolutionary conservation among homologs onto PDB structures.

Glaser F, Rosenberg Y, Kessel A, Pupko T, Ben-Tal N.

Proteins. 2005 Feb 15;58(3):610-7.

PMID:
15614759
17.

Estimating residue evolutionary conservation by introducing von Neumann entropy and a novel gap-treating approach.

Zhang SW, Zhang YL, Pan Q, Cheng YM, Chou KC.

Amino Acids. 2008 Aug;35(2):495-501. Epub 2007 Aug 21.

PMID:
17710364
18.

Mutagenesis Objective Search and Selection Tool (MOSST): an algorithm to predict structure-function related mutations in proteins.

Olivera-Nappa A, Andrews BA, Asenjo JA.

BMC Bioinformatics. 2011 Apr 27;12:122. doi: 10.1186/1471-2105-12-122.

19.

Analysis and prediction of functional sub-types from protein sequence alignments.

Hannenhalli SS, Russell RB.

J Mol Biol. 2000 Oct 13;303(1):61-76.

PMID:
11021970
20.

Supplemental Content

Support Center