PFASUM: a substitution matrix from Pfam structural alignments-Reference-Cited by-同舟云学术

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PFASUM: a substitution matrix from Pfam structural alignments

Published:2017-06-05 Issue:1 Volume:18 Page:
ISSN:1471-2105
Container-title:BMC Bioinformatics
language:en
Short-container-title:BMC Bioinformatics

Author:

Keul Frank,Hess Martin^ORCID,Goesele Michael,Hamacher Kay

Funder

Deutsche Forschungsgemeinschaft

Forum for Interdisciplinary Research at Technische Universität Darmstadt

LOEWE Zentrum AdRIA (DE)

European Research Council

Deutsche Forschungsgemeinschaft and Open Access Publishing Fund of Technische Universität Darmstadt

Publisher

Springer Science and Business Media LLC

Subject

Applied Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Structural Biology

Link

http://link.springer.com/content/pdf/10.1186/s12859-017-1703-z.pdf

Reference44 articles.

1. Agrawal A, Huang X. Pairwise statistical significance of local sequence alignment using multiple parameter sets and empirical justification of parameter set change penalty. BMC Bioinformatics. 2009; 10(3):1. doi: 10.1186/1471-2105-10-S3-S1 .

2. Altschul SF. Amino acid substitution matrices from an information theoretic perspective. J Mol Biol. 1991; 219(3):555–65. doi: 10.1016/0022-2836(91)90193-A .

3. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol. 1990; 215(3):403–10. doi: 10.1016/S0022-2836(05)80360-2 .

4. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997; 25(17):3389–402. doi: 10.1093/nar/25.17.3389 .

5. Benner SA, Cohen MA, Gonnet GH. Empirical and structural models for insertions and deletions in the divergent evolution of proteins. J Mol Biol. 1993; 229(4):1065–82. doi: 10.1006/jmbi.1993.1105 .

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