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Items: 1 to 20 of 39

1.

COACH: profile-profile alignment of protein families using hidden Markov models.

Edgar RC, Sjölander K.

Bioinformatics. 2004 May 22;20(8):1309-18. Epub 2004 Feb 12.

PMID:
14962937
2.

A comparison of scoring functions for protein sequence profile alignment.

Edgar RC, Sjölander K.

Bioinformatics. 2004 May 22;20(8):1301-8. Epub 2004 Feb 12.

PMID:
14962936
3.

Align-m--a new algorithm for multiple alignment of highly divergent sequences.

Van Walle I, Lasters I, Wyns L.

Bioinformatics. 2004 Jun 12;20(9):1428-35. Epub 2004 Feb 12.

PMID:
14962914
4.
5.

APDB: a novel measure for benchmarking sequence alignment methods without reference alignments.

O'Sullivan O, Zehnder M, Higgins D, Bucher P, Grosdidier A, Notredame C.

Bioinformatics. 2003;19 Suppl 1:i215-21.

PMID:
12855461
6.

LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA.

Brudno M, Do CB, Cooper GM, Kim MF, Davydov E; NISC Comparative Sequencing Program, Green ED, Sidow A, Batzoglou S.

Genome Res. 2003 Apr;13(4):721-31. Epub 2003 Mar 12.

7.
8.

NCBI Reference Sequence project: update and current status.

Pruitt KD, Tatusova T, Maglott DR.

Nucleic Acids Res. 2003 Jan 1;31(1):34-7.

9.

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform.

Katoh K, Misawa K, Kuma K, Miyata T.

Nucleic Acids Res. 2002 Jul 15;30(14):3059-66.

10.

Recent progress in multiple sequence alignment: a survey.

Notredame C.

Pharmacogenomics. 2002 Jan;3(1):131-44. Review.

PMID:
11966409
11.

MaxBench: evaluation of sequence and structure comparison methods.

Leplae R, Hubbard TJ.

Bioinformatics. 2002 Mar;18(3):494-5.

PMID:
11934754
12.
13.

Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements.

Schäffer AA, Aravind L, Madden TL, Shavirin S, Spouge JL, Wolf YI, Koonin EV, Altschul SF.

Nucleic Acids Res. 2001 Jul 15;29(14):2994-3005. Review.

14.

Structure comparison and structure patterns.

Eidhammer I, Jonassen I, Taylor WR.

J Comput Biol. 2000;7(5):685-716.

PMID:
11153094
15.
16.

T-Coffee: A novel method for fast and accurate multiple sequence alignment.

Notredame C, Higgins DG, Heringa J.

J Mol Biol. 2000 Sep 8;302(1):205-17.

PMID:
10964570
17.

Large-scale comparison of protein sequence alignment algorithms with structure alignments.

Sauder JM, Arthur JW, Dunbrack RL Jr.

Proteins. 2000 Jul 1;40(1):6-22.

PMID:
10813826
18.

The ASTRAL compendium for protein structure and sequence analysis.

Brenner SE, Koehl P, Levitt M.

Nucleic Acids Res. 2000 Jan 1;28(1):254-6.

19.

SMART: a web-based tool for the study of genetically mobile domains.

Schultz J, Copley RR, Doerks T, Ponting CP, Bork P.

Nucleic Acids Res. 2000 Jan 1;28(1):231-4.

20.

CAFASP-1: critical assessment of fully automated structure prediction methods.

Fischer D, Barret C, Bryson K, Elofsson A, Godzik A, Jones D, Karplus KJ, Kelley LA, MacCallum RM, Pawowski K, Rost B, Rychlewski L, Sternberg M.

Proteins. 1999;Suppl 3:209-17.

PMID:
10526371

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