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Items: 13

1.

Statistical inference of protein structural alignments using information and compression.

Collier JH, Allison L, Lesk AM, Stuckey PJ, Garcia de la Banda M, Konagurthu AS.

Bioinformatics. 2017 Apr 1;33(7):1005-1013. doi: 10.1093/bioinformatics/btw757.

PMID:
28065899
2.

How precise are reported protein coordinate data?

Konagurthu AS, Allison L, Abramson D, Stuckey PJ, Lesk AM.

Acta Crystallogr D Biol Crystallogr. 2014 Mar;70(Pt 3):904-6. doi: 10.1107/S1399004713031787. Epub 2014 Feb 27.

PMID:
24598758
3.

Discovery and analysis of consistent active sub-networks in cancers.

Gaire RK, Smith L, Humbert P, Bailey J, Stuckey PJ, Haviv I.

BMC Bioinformatics. 2013;14 Suppl 2:S7. doi: 10.1186/1471-2105-14-S2-S7. Epub 2013 Jan 21.

4.

Automatic generation of protein structure cartoons with Pro-origami.

Stivala A, Wybrow M, Wirth A, Whisstock JC, Stuckey PJ.

Bioinformatics. 2011 Dec 1;27(23):3315-6. doi: 10.1093/bioinformatics/btr575. Epub 2011 Oct 12.

PMID:
21994221
5.

Piecewise linear approximation of protein structures using the principle of minimum message length.

Konagurthu AS, Allison L, Stuckey PJ, Lesk AM.

Bioinformatics. 2011 Jul 1;27(13):i43-51. doi: 10.1093/bioinformatics/btr240.

6.

Fast and accurate protein substructure searching with simulated annealing and GPUs.

Stivala AD, Stuckey PJ, Wirth AI.

BMC Bioinformatics. 2010 Sep 3;11:446. doi: 10.1186/1471-2105-11-446.

7.

MUSTANG-MR structural sieving server: applications in protein structural analysis and crystallography.

Konagurthu AS, Reboul CF, Schmidberger JW, Irving JA, Lesk AM, Stuckey PJ, Whisstock JC, Buckle AM.

PLoS One. 2010 Apr 6;5(4):e10048. doi: 10.1371/journal.pone.0010048.

8.

MIRAGAA--a methodology for finding coordinated effects of microRNA expression changes and genome aberrations in cancer.

Gaire RK, Bailey J, Bearfoot J, Campbell IG, Stuckey PJ, Haviv I.

Bioinformatics. 2010 Jan 15;26(2):161-7. doi: 10.1093/bioinformatics/btp654. Epub 2009 Nov 23.

PMID:
19933823
9.

Tableau-based protein substructure search using quadratic programming.

Stivala A, Wirth A, Stuckey PJ.

BMC Bioinformatics. 2009 May 19;10:153. doi: 10.1186/1471-2105-10-153.

10.

Structural search and retrieval using a tableau representation of protein folding patterns.

Konagurthu AS, Stuckey PJ, Lesk AM.

Bioinformatics. 2008 Mar 1;24(5):645-51. doi: 10.1093/bioinformatics/btm641. Epub 2008 Jan 5.

PMID:
18175768
11.

MUSTANG: a multiple structural alignment algorithm.

Konagurthu AS, Whisstock JC, Stuckey PJ, Lesk AM.

Proteins. 2006 Aug 15;64(3):559-74.

PMID:
16736488
12.

Optimal sum-of-pairs multiple sequence alignment using incremental Carrillo and Lipman bounds.

Konagurthu AS, Stuckey PJ.

J Comput Biol. 2006 Apr;13(3):668-85.

PMID:
16706718
13.

Progressive multiple alignment using sequence triplet optimizations and three-residue exchange costs.

Konagurthu AS, Whisstock J, Stuckey PJ.

J Bioinform Comput Biol. 2004 Dec;2(4):719-45.

PMID:
15617163

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