-
1
-
-
0036327988
-
Clustering of proximal sequence space for the identification of protein families
-
Abascal,F. and Valencia,A. (2002) Clustering of proximal sequence space for the identification of protein families. Bioinformatics, 18, 908-921.
-
(2002)
Bioinformatics
, vol.18
, pp. 908-921
-
-
Abascal, F.1
Valencia, A.2
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul,S.F. et al. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
-
3
-
-
9144232912
-
UniProt: The Universal Protein knowledgebase
-
(Database issue)
-
Apweiler,R. et al. (2004) UniProt: the Universal Protein knowledgebase. Nucleic Acids Res., 32 (Database issue), D115-D119.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Apweiler, R.1
-
4
-
-
0345865009
-
GenBank: Update
-
(Database issue)
-
Benson,D.A. et al. (2004) GenBank: update. Nucleic Acids Res., 32 (Database issue), D23-D26.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Benson, D.A.1
-
5
-
-
0030093114
-
A flexible motif search technique based on generalized profiles
-
Bucher,P. et al. (1996) A flexible motif search technique based on generalized profiles. Comput. Chem., 20, 3-23.
-
(1996)
Comput. Chem.
, vol.20
, pp. 3-23
-
-
Bucher, P.1
-
6
-
-
0037195119
-
Expanding protein universe and its origin from the biological Big Bang
-
Dokholyan,N.V. et al. (2002) Expanding protein universe and its origin from the biological Big Bang. Proc. Natl Acad. Sci. USA, 99, 14132-14136.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 14132-14136
-
-
Dokholyan, N.V.1
-
7
-
-
0033944826
-
GeneRAGE: A robust algorithm for sequence clustering and domain detection
-
Enright,A.J. and Ouzounis,C.A. (2000) GeneRAGE: a robust algorithm for sequence clustering and domain detection. Bioinformatics, 16, 451-457.
-
(2000)
Bioinformatics
, vol.16
, pp. 451-457
-
-
Enright, A.J.1
Ouzounis, C.A.2
-
8
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
Enright,A.J. et al. (2002) An efficient algorithm for large-scale detection of protein families. Nucleic Acids Res., 30, 1575-1584.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 1575-1584
-
-
Enright, A.J.1
-
9
-
-
0000122573
-
PHYLIP - Phylogeny Inference Package (Version 3.2)
-
Felsenstein,J. (1989) PHYLIP - Phylogeny Inference Package (Version 3.2). Cladistics, 5, 164-166.
-
(1989)
Cladistics
, vol.5
, pp. 164-166
-
-
Felsenstein, J.1
-
10
-
-
0014800108
-
Distinguishing homologous from analogous proteins
-
Fitch,W.M. (1970) Distinguishing homologous from analogous proteins. Syst. Zool., 19, 99-113.
-
(1970)
Syst. Zool.
, vol.19
, pp. 99-113
-
-
Fitch, W.M.1
-
12
-
-
0034274870
-
An open graph visualization system and its applications to software engineering
-
Gansner,E.R. and North,S.C. (2000) An open graph visualization system and its applications to software engineering. Software Practice and Experience, 30, 1203-1233.
-
(2000)
Software Practice and Experience
, vol.30
, pp. 1203-1233
-
-
Gansner, E.R.1
North, S.C.2
-
13
-
-
0346869047
-
Recent improvements to the PROSITE database
-
(Database issue)
-
Hulo,N. et al. (2004) Recent improvements to the PROSITE database. Nucleic Acids Res., 32 (Database issue), D134-D137.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Hulo, N.1
-
14
-
-
0034744439
-
Three classes of C2H2 zinc finger proteins
-
Iuchi,S. (2001) Three classes of C2H2 zinc finger proteins. Cell Mol. Life Sci., 58, 625-635.
-
(2001)
Cell Mol. Life Sci.
, vol.58
, pp. 625-635
-
-
Iuchi, S.1
-
15
-
-
0031876711
-
A set-theoretic approach to database searching and clustering
-
Krause,A. and Vingron,M. (1998) A set-theoretic approach to database searching and clustering. Bioinformatics, 14, 430-438.
-
(1998)
Bioinformatics
, vol.14
, pp. 430-438
-
-
Krause, A.1
Vingron, M.2
-
16
-
-
0035174881
-
CluSTr: A database of clusters of SWISS-PROT+TrEMBL proteins
-
Kriventseva,E.V. et al. (2001) CluSTr: a database of clusters of SWISS-PROT+TrEMBL proteins. Nucleic Acids Res., 29, 33-36.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 33-36
-
-
Kriventseva, E.V.1
-
17
-
-
0141519279
-
OrthoMCL: Identification of ortholog groups for eukaryotic genomes
-
Li,L. et al. (2003) OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res., 13, 2178-2189.
-
(2003)
Genome Res.
, vol.13
, pp. 2178-2189
-
-
Li, L.1
-
18
-
-
0037305939
-
Domains, motifs and clusters in the protein universe
-
Liu,J. and Rost,B. (2003) Domains, motifs and clusters in the protein universe. Curr. Opin. Chem. Biol., 7, 5-11.
-
(2003)
Curr. Opin. Chem. Biol.
, vol.7
, pp. 5-11
-
-
Liu, J.1
Rost, B.2
-
19
-
-
0036352010
-
Using orthologous and paralogous proteins to identify specificity-determining residues in bacterial transcription factors
-
Mirny,L.A. and Gelfand,M.S. (2002) Using orthologous and paralogous proteins to identify specificity-determining residues in bacterial transcription factors. J. Mol. Biol., 321, 7-20.
-
(2002)
J. Mol. Biol.
, vol.321
, pp. 7-20
-
-
Mirny, L.A.1
Gelfand, M.S.2
-
20
-
-
0023989064
-
Improved tools for biological sequence comparison
-
Pearson,W.R. and Lipman,D.J. (1988) Improved tools for biological sequence comparison. Proc. Natl Acad. Sci. USA, 85, 2444-2448.
-
(1988)
Proc. Natl. Acad. Sci. USA
, vol.85
, pp. 2444-2448
-
-
Pearson, W.R.1
Lipman, D.J.2
-
21
-
-
0030660581
-
A genomic perspective on protein families
-
Tatusov,R.L. et al. (1997) A genomic perspective on protein families. Science, 278, 631-637.
-
(1997)
Science
, vol.278
, pp. 631-637
-
-
Tatusov, R.L.1
-
22
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson,J.D. et al. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
-
23
-
-
0033168097
-
A comprehensive comparison of multiple sequence alignment programs
-
Thompson,J.D. et al. (1999) A comprehensive comparison of multiple sequence alignment programs. Nucleic Acids Res., 27, 2682-2690.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 2682-2690
-
-
Thompson, J.D.1
-
24
-
-
0142106373
-
How well is enzyme function conserved as a function of pairwise sequence identity?
-
Tian,W. and Skolnick,J. (2003) How well is enzyme function conserved as a function of pairwise sequence identity? J. Mol. Biol., 333, 863-882.
-
(2003)
J. Mol. Biol.
, vol.333
, pp. 863-882
-
-
Tian, W.1
Skolnick, J.2
-
25
-
-
0005924596
-
Graph clustering by flow simulation
-
Ph.D. thesis, University of Utrecht, The Netherlands
-
Van Dongen,S. (2000) Graph clustering by flow simulation. Ph.D. thesis, University of Utrecht, The Netherlands.
-
(2000)
-
-
Van Dongen, S.1
-
26
-
-
0034897827
-
Secator: A program for inferring protein subfamilies from phylogenetic trees
-
Wicker,N. et al. (2001) Secator: a program for inferring protein subfamilies from phylogenetic trees. Mol. Biol. Evol., 18, 1435-1441.
-
(2001)
Mol. Biol. Evol.
, vol.18
, pp. 1435-1441
-
-
Wicker, N.1
-
27
-
-
0032726692
-
ProtoMap: Automatic classification of protein sequences, a hierarchy of protein families, and local maps of the protein space
-
Yona,G. et al. (1999) ProtoMap: automatic classification of protein sequences, a hierarchy of protein families, and local maps of the protein space. Proteins, 37, 360-378.
-
(1999)
Proteins
, vol.37
, pp. 360-378
-
-
Yona, G.1
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