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Items: 1 to 20 of 133

1.

Java bioinformatics analysis web services for multiple sequence alignment--JABAWS:MSA.

Troshin PV, Procter JB, Barton GJ.

Bioinformatics. 2011 Jul 15;27(14):2001-2. doi: 10.1093/bioinformatics/btr304. Epub 2011 May 18.

2.

Jalview Version 2--a multiple sequence alignment editor and analysis workbench.

Waterhouse AM, Procter JB, Martin DM, Clamp M, Barton GJ.

Bioinformatics. 2009 May 1;25(9):1189-91. doi: 10.1093/bioinformatics/btp033. Epub 2009 Jan 16.

3.

A new bioinformatics analysis tools framework at EMBL-EBI.

Goujon M, McWilliam H, Li W, Valentin F, Squizzato S, Paern J, Lopez R.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W695-9. doi: 10.1093/nar/gkq313. Epub 2010 May 3.

4.

The M-Coffee web server: a meta-method for computing multiple sequence alignments by combining alternative alignment methods.

Moretti S, Armougom F, Wallace IM, Higgins DG, Jongeneel CV, Notredame C.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W645-8. Epub 2007 May 25.

5.

A web services choreography scenario for interoperating bioinformatics applications.

de Knikker R, Guo Y, Li JL, Kwan AK, Yip KY, Cheung DW, Cheung KH.

BMC Bioinformatics. 2004 Mar 10;5:25.

6.

The EMBL-EBI bioinformatics web and programmatic tools framework.

Li W, Cowley A, Uludag M, Gur T, McWilliam H, Squizzato S, Park YM, Buso N, Lopez R.

Nucleic Acids Res. 2015 Jul 1;43(W1):W580-4. doi: 10.1093/nar/gkv279. Epub 2015 Apr 6.

7.

maxdLoad2 and maxdBrowse: standards-compliant tools for microarray experimental annotation, data management and dissemination.

Hancock D, Wilson M, Velarde G, Morrison N, Hayes A, Hulme H, Wood AJ, Nashar K, Kell DB, Brass A.

BMC Bioinformatics. 2005 Nov 3;6:264.

8.

OXBench: a benchmark for evaluation of protein multiple sequence alignment accuracy.

Raghava GP, Searle SM, Audley PC, Barber JD, Barton GJ.

BMC Bioinformatics. 2003 Oct 10;4:47.

9.

Mind the gaps: evidence of bias in estimates of multiple sequence alignments.

Golubchik T, Wise MJ, Easteal S, Jermiin LS.

Mol Biol Evol. 2007 Nov;24(11):2433-42. Epub 2007 Aug 20.

PMID:
17709332
10.

TarO: a target optimisation system for structural biology.

Overton IM, van Niekerk CA, Carter LG, Dawson A, Martin DM, Cameron S, McMahon SA, White MF, Hunter WN, Naismith JH, Barton GJ.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W190-6. doi: 10.1093/nar/gkn141. Epub 2008 Apr 2.

11.

ClusterControl: a web interface for distributing and monitoring bioinformatics applications on a Linux cluster.

Stocker G, Rieder D, Trajanoski Z.

Bioinformatics. 2004 Mar 22;20(5):805-7. Epub 2004 Jan 29.

PMID:
14751976
12.

GUIDANCE: a web server for assessing alignment confidence scores.

Penn O, Privman E, Ashkenazy H, Landan G, Graur D, Pupko T.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W23-8. doi: 10.1093/nar/gkq443. Epub 2010 May 23.

13.

Semantic Web Service provision: a realistic framework for Bioinformatics programmers.

Gordon PM, Trinh Q, Sensen CW.

Bioinformatics. 2007 May 1;23(9):1178-80. Epub 2007 Mar 24.

PMID:
17384428
14.

CloudDOE: a user-friendly tool for deploying Hadoop clouds and analyzing high-throughput sequencing data with MapReduce.

Chung WC, Chen CC, Ho JM, Lin CY, Hsu WL, Wang YC, Lee DT, Lai F, Huang CW, Chang YJ.

PLoS One. 2014 Jun 4;9(6):e98146. doi: 10.1371/journal.pone.0098146. eCollection 2014.

15.

A knowledge-based multiple-sequence alignment algorithm.

Nguyen KD, Pan Y.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Jul-Aug;10(4):884-96. doi: 10.1109/TCBB.2013.102.

PMID:
24334383
16.

Assessing the efficiency of multiple sequence alignment programs.

Pais FS, Ruy PC, Oliveira G, Coimbra RS.

Algorithms Mol Biol. 2014 Mar 6;9(1):4. doi: 10.1186/1748-7188-9-4.

17.

AQUA: automated quality improvement for multiple sequence alignments.

Muller J, Creevey CJ, Thompson JD, Arendt D, Bork P.

Bioinformatics. 2010 Jan 15;26(2):263-5. doi: 10.1093/bioinformatics/btp651. Epub 2009 Nov 19.

PMID:
19926669
18.

An active registry for bioinformatics web services.

Pettifer S, Thorne D, McDermott P, Attwood T, Baran J, Bryne JC, Hupponen T, Mowbray D, Vriend G.

Bioinformatics. 2009 Aug 15;25(16):2090-1. doi: 10.1093/bioinformatics/btp329. Epub 2009 May 21.

19.

JDotter: a Java interface to multiple dotplots generated by dotter.

Brodie R, Roper RL, Upton C.

Bioinformatics. 2004 Jan 22;20(2):279-81.

PMID:
14734323
20.

Biotool2Web: creating simple Web interfaces for bioinformatics applications.

Shahid M, Alam I, Fuellen G.

Appl Bioinformatics. 2006;5(1):63-6.

PMID:
16539540

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