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Protein homology detection by HMM-HMM comparison.
Söding J. Söding J. Bioinformatics. 2005 Apr 1;21(7):951-60. doi: 10.1093/bioinformatics/bti125. Epub 2004 Nov 5. Bioinformatics. 2005. PMID: 15531603
The HHpred interactive server for protein homology detection and structure prediction.
Söding J, Biegert A, Lupas AN. Söding J, et al. Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W244-8. doi: 10.1093/nar/gki408. Nucleic Acids Res. 2005. PMID: 15980461 Free PMC article.
HHrep: de novo protein repeat detection and the origin of TIM barrels.
Söding J, Remmert M, Biegert A. Söding J, et al. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W137-42. doi: 10.1093/nar/gkl130. Nucleic Acids Res. 2006. PMID: 16844977 Free PMC article.
The MPI Bioinformatics Toolkit for protein sequence analysis.
Biegert A, Mayer C, Remmert M, Söding J, Lupas AN. Biegert A, et al. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W335-9. doi: 10.1093/nar/gkl217. Nucleic Acids Res. 2006. PMID: 16845021 Free PMC article.
HHsenser: exhaustive transitive profile search using HMM-HMM comparison.
Söding J, Remmert M, Biegert A, Lupas AN. Söding J, et al. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W374-8. doi: 10.1093/nar/gkl195. Nucleic Acids Res. 2006. PMID: 16845029 Free PMC article.
Evolution of the beta-propeller fold.
Chaudhuri I, Söding J, Lupas AN. Chaudhuri I, et al. Proteins. 2008 May 1;71(2):795-803. doi: 10.1002/prot.21764. Proteins. 2008. PMID: 17979191
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