PubMed

Multiple sequence alignment with user-defined anchor points.

Morgenstern B, Prohaska SJ, Pöhler D, Stadler PF.

Algorithms Mol Biol. 2006 Apr 19;1(1):6.PMID: 16722533 [PubMed]Related articlesFree article

Multiple sequence alignment with user-defined constraints at GOBICS.

Morgenstern B, Werner N, Prohaska SJ, Steinkamp R, Schneider I, Subramanian AR, Stadler PF, Weyer-Menkhoff J.

Bioinformatics. 2005 Apr 1;21(7):1271-3. Epub 2004 Nov 16.PMID: 15546937 [PubMed - indexed for MEDLINE]Related articlesFree article

Fast and sensitive multiple alignment of large genomic sequences.

Brudno M, Chapman M, Göttgens B, Batzoglou S, Morgenstern B.

BMC Bioinformatics. 2003 Dec 23;4:66.PMID: 14693042 [PubMed - indexed for MEDLINE]Related articlesFree article

Genomic multiple sequence alignments: refinement using a genetic algorithm.

Wang C, Lefkowitz EJ.

BMC Bioinformatics. 2005 Aug 8;6:200.PMID: 16086841 [PubMed - indexed for MEDLINE]Related articlesFree article

The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequences.

Brudno M, Steinkamp R, Morgenstern B.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W41-4.PMID: 15215346 [PubMed - indexed for MEDLINE]Related articlesFree article

Multiple alignment of genomic sequences using CHAOS, DIALIGN and ABC.

Pöhler D, Werner N, Steinkamp R, Morgenstern B.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W532-4.PMID: 15980528 [PubMed - indexed for MEDLINE]Related articlesFree article

DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment.

Subramanian AR, Kaufmann M, Morgenstern B.

Algorithms Mol Biol. 2008 May 27;3:6.PMID: 18505568 [PubMed]Related articlesFree article

DIALIGN P: fast pair-wise and multiple sequence alignment using parallel processors.

Schmollinger M, Nieselt K, Kaufmann M, Morgenstern B.

BMC Bioinformatics. 2004 Sep 9;5:128.PMID: 15357879 [PubMed - indexed for MEDLINE]Related articlesFree article

Alignment of genomic sequences using DIALIGN.

Morgenstern B.

Methods Mol Biol. 2007;395:195-204.PMID: 17993675 [PubMed - indexed for MEDLINE]Related articles

Multiple sequence alignment using an exhaustive and greedy algorithm.

Wang Y, Li KB.

J Bioinform Comput Biol. 2005 Apr;3(2):243-55.PMID: 15852503 [PubMed - indexed for MEDLINE]Related articles

CSA: an efficient algorithm to improve circular DNA multiple alignment.

Fernandes F, Pereira L, Freitas AT.

BMC Bioinformatics. 2009 Jul 23;10:230.PMID: 19627599 [PubMed - indexed for MEDLINE]Related articlesFree article

TaxMan: a taxonomic database manager.

Jones M, Blaxter M.

BMC Bioinformatics. 2006 Dec 18;7:536.PMID: 17176465 [PubMed - indexed for MEDLINE]Related articlesFree article

Simultaneous phylogeny reconstruction and multiple sequence alignment.

Yue F, Shi J, Tang J.

BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S11.PMID: 19208110 [PubMed - indexed for MEDLINE]Related articlesFree article

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 [PubMed - indexed for MEDLINE]Related articlesFree article

A new protein linear motif benchmark for multiple sequence alignment software.

Perrodou E, Chica C, Poch O, Gibson TJ, Thompson JD.

BMC Bioinformatics. 2008 Apr 25;9:213.PMID: 18439277 [PubMed - indexed for MEDLINE]Related articlesFree article

Phylo-mLogo: an interactive and hierarchical multiple-logo visualization tool for alignment of many sequences.

Shih AC, Lee DT, Peng CL, Wu YW.

BMC Bioinformatics. 2007 Feb 24;8:63.PMID: 17319966 [PubMed - indexed for MEDLINE]Related articlesFree article

Tools for integrated sequence-structure analysis with UCSF Chimera.

Meng EC, Pettersen EF, Couch GS, Huang CC, Ferrin TE.

BMC Bioinformatics. 2006 Jul 12;7:339.PMID: 16836757 [PubMed - indexed for MEDLINE]Related articlesFree article

PROMALS3D: a tool for multiple protein sequence and structure alignments.

Pei J, Kim BH, Grishin NV.

Nucleic Acids Res. 2008 Apr;36(7):2295-300. Epub 2008 Feb 20.PMID: 18287115 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

MUSCA: An Algorithm for Constrained Alignment of Multiple Data Sequences.

Parida L, Floratos A, Rigoutsos I I.

Genome Inform Ser Workshop Genome Inform. 1998;9:112-119.PMID: 11072327 [PubMed - as supplied by publisher]Related articlesFree article