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EVEREST: automatic identification and classification of protein domains in all protein sequences.
BMC Bioinformatics. 2006 Jun 2;7:277. doi: 10.1186/1471-2105-7-277.
BMC Bioinformatics. 2006.
PMID: 16749920
Free PMC article.
Selecting targets for structural determination by navigating in a graph of protein families.
Portugaly E, Kifer I, Linial M.
Portugaly E, et al.
Bioinformatics. 2002 Jul;18(7):899-907. doi: 10.1093/bioinformatics/18.7.899.
Bioinformatics. 2002.
PMID: 12117787
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ProtoNet: hierarchical classification of the protein space.
Sasson O, Vaaknin A, Fleischer H, Portugaly E, Bilu Y, Linial N, Linial M.
Sasson O, et al. Among authors: portugaly e.
Nucleic Acids Res. 2003 Jan 1;31(1):348-52. doi: 10.1093/nar/gkg096.
Nucleic Acids Res. 2003.
PMID: 12520020
Free PMC article.
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ProtoNet 4.0: a hierarchical classification of one million protein sequences.
Kaplan N, Sasson O, Inbar U, Friedlich M, Fromer M, Fleischer H, Portugaly E, Linial N, Linial M.
Kaplan N, et al. Among authors: portugaly e.
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D216-8. doi: 10.1093/nar/gki007.
Nucleic Acids Res. 2005.
PMID: 15608180
Free PMC article.
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EVEREST: a collection of evolutionary conserved protein domains.
Portugaly E, Linial N, Linial M.
Portugaly E, et al.
Nucleic Acids Res. 2007 Jan;35(Database issue):D241-6. doi: 10.1093/nar/gkl850. Epub 2006 Nov 11.
Nucleic Acids Res. 2007.
PMID: 17099230
Free PMC article.
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Efficient algorithms for accurate hierarchical clustering of huge datasets: tackling the entire protein space.
Loewenstein Y, Portugaly E, Fromer M, Linial M.
Loewenstein Y, et al. Among authors: portugaly e.
Bioinformatics. 2008 Jul 1;24(13):i41-9. doi: 10.1093/bioinformatics/btn174.
Bioinformatics. 2008.
PMID: 18586742
Free PMC article.
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Estimating the probability for a protein to have a new fold: A statistical computational model.
Portugaly E, Linial M.
Portugaly E, et al.
Proc Natl Acad Sci U S A. 2000 May 9;97(10):5161-6. doi: 10.1073/pnas.090559497.
Proc Natl Acad Sci U S A. 2000.
PMID: 10792051
Free PMC article.
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Hidden Markov model speed heuristic and iterative HMM search procedure.
Johnson LS, Eddy SR, Portugaly E.
Johnson LS, et al. Among authors: portugaly e.
BMC Bioinformatics. 2010 Aug 18;11:431. doi: 10.1186/1471-2105-11-431.
BMC Bioinformatics. 2010.
PMID: 20718988
Free PMC article.
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