-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., Zhang,Z., Miller,W. and Lipman,D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
2
-
-
0000303438
-
The multiple sequence alignment problem in biology
-
Carrillo,H. and. Lipman,D.J. (1988) The multiple sequence alignment problem in biology. SIAM J. Appl. Math., 48, 1073-1082.
-
(1988)
SIAM J. Appl. Math.
, vol.48
, pp. 1073-1082
-
-
Carrillo, H.1
Lipman, D.J.2
-
3
-
-
0024297354
-
Multiple sequence alignment with hierarchical clustering
-
Corpet,F. (1988) Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res., 16, 10 881-10 890.
-
(1988)
Nucleic Acids Res.
, vol.16
, pp. 10881-10890
-
-
Corpet, F.1
-
4
-
-
0033957841
-
ProDom and ProDom-CG: Tools for protein domain analysis and whole genome comparisons
-
Corpet,F., Servant,F., Gouzy,J. and Kahn,D. (2000) ProDom and ProDom-CG: tools for protein domain analysis and whole genome comparisons. Nucleic Acids Res., 28, 267-269.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 267-269
-
-
Corpet, F.1
Servant, F.2
Gouzy, J.3
Kahn, D.4
-
5
-
-
0029174347
-
Multiple alignment using hidden Markov models
-
Eddy,S.R. (1995) Multiple alignment using hidden Markov models. Ismb, 3, 114-120.
-
(1995)
Ismb
, vol.3
, pp. 114-120
-
-
Eddy, S.R.1
-
6
-
-
0023084055
-
Progressive sequence alignment as a prerequisite to correct phylogenetic trees
-
Feng,D.F. and Doolittle,R.F. (1987) Progressive sequence alignment as a prerequisite to correct phylogenetic trees. J. Mol. Evol., 25, 351-360.
-
(1987)
J. Mol. Evol.
, vol.25
, pp. 351-360
-
-
Feng, D.F.1
Doolittle, R.F.2
-
7
-
-
84944811700
-
The use of ranks to avoid the assumption of normality implicit in the analysis of variance
-
Friedman,M. (1937) The use of ranks to avoid the assumption of normality implicit in the analysis of variance. J. Am. Stat. Assoc., 32, 675-701.
-
(1937)
J. Am. Stat. Assoc.
, vol.32
, pp. 675-701
-
-
Friedman, M.1
-
8
-
-
0030582739
-
Significant improvement in accuracy of multiple protein sequence alignments by iterative refinement as assessed by reference to structural alignments
-
Gotoh,O. (1996) Significant improvement in accuracy of multiple protein sequence alignments by iterative refinement as assessed by reference to structural alignments. J. Mol. Biol., 264, 823-838.
-
(1996)
J. Mol. Biol.
, vol.264
, pp. 823-838
-
-
Gotoh, O.1
-
9
-
-
0023375315
-
Profile analysis: Detection of distantly related proteins
-
Gribskov,M., McLachlan,A.D. and Eisenberg,D. (1987) Profile analysis: detection of distantly related proteins. Proc. Natl Acad. Sci. USA, 84, 4355-4358.
-
(1987)
Proc. Natl. Acad. Sci. USA
, vol.84
, pp. 4355-4358
-
-
Gribskov, M.1
McLachlan, A.D.2
Eisenberg, D.3
-
10
-
-
0029366816
-
Improving the practical space and time efficiency of the shortest-paths approach to sum-of-pairs multiple sequence alignment
-
Gupta,S.K., Kececioglu,J.D. and Schaffer,A.A. (1995) Improving the practical space and time efficiency of the shortest-paths approach to sum-of-pairs multiple sequence alignment. J. Comput. Biol., 3, 459-472.
-
(1995)
J. Comput. Biol.
, vol.3
, pp. 459-472
-
-
Gupta, S.K.1
Kececioglu, J.D.2
Schaffer, A.A.3
-
11
-
-
0033563413
-
Two strategies for sequence comparison: Profile-preprocessed and secondary structure-induced multiple alignment
-
Heringa,J. (1999) Two strategies for sequence comparison: profile-preprocessed and secondary structure-induced multiple alignment. Comput. Chem., 23, 341-264.
-
(1999)
Comput. Chem.
, vol.23
, pp. 264-341
-
-
Heringa, J.1
-
12
-
-
0032826179
-
Identifying DNA and protein patterns with statistically significant alignments of multiple sequences
-
Hertz,G.Z. and Stormo,G.D. (1999) Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics, 15, 563-577.
-
(1999)
Bioinformatics
, vol.15
, pp. 563-577
-
-
Hertz, G.Z.1
Stormo, G.D.2
-
13
-
-
0037100671
-
MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform
-
Katoh,K., Misawa,K., Kuma,K. and Miyata,T. (2002) MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res., 30, 3059-3066.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 3059-3066
-
-
Katoh, K.1
Misawa, K.2
Kuma, K.3
Miyata, T.4
-
14
-
-
0034963043
-
An approach to improving multiple alignments of protein sequences using predicted secondary structure
-
Jennings,A.J., Edge,C.M. and Sternberg,M.J. (2001) An approach to improving multiple alignments of protein sequences using predicted secondary structure. Protein Eng., 4, 227-231.
-
(2001)
Protein Eng.
, vol.4
, pp. 227-231
-
-
Jennings, A.J.1
Edge, C.M.2
Sternberg, M.J.3
-
15
-
-
0035972742
-
Multiple alignment of complete sequences (MACS) in the post-genomic era
-
Lecompte,O., Thompson,J.D., Plewniak,F., Thierry,J.C. and Poch,O. (2001) Multiple alignment of complete sequences (MACS) in the post-genomic era. Gene, 270, 17-30.
-
(2001)
Gene
, vol.270
, pp. 17-30
-
-
Lecompte, O.1
Thompson, J.D.2
Plewniak, F.3
Thierry, J.C.4
Poch, O.5
-
16
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
Notredame,C., Higgins,D.G. and Heringa,J. (2000) T-Coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol., 302, 205-217.
-
(2000)
J. Mol. Biol.
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, J.3
-
17
-
-
0034843597
-
AL2CO: Calculation of positional conservation in a protein sequence alignment
-
Pei,J. and Grishin,N.V. (2001) AL2CO: calculation of positional conservation in a protein sequence alignment. Bioinformatics, 17, 700-712.
-
(2001)
Bioinformatics
, vol.17
, pp. 700-712
-
-
Pei, J.1
Grishin, N.V.2
-
18
-
-
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., Higgins,D.G. and Gibson,T.J. (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
Higgins, D.G.2
Gibson, T.J.3
-
19
-
-
0031574072
-
The CLUSTALwindows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson,J.D., Gibson,T.J., Plewniak,F., Jeanmougin,F. and Higgins,D.G. (1997) The CLUSTALwindows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res., 25, 4876-4882.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
20
-
-
0033168097
-
A comprehensive comparison of multiple sequence alignment programs
-
Thompson,J.D., Plewniak,F. and Poch,O. (1999a) A comprehensive comparison of multiple sequence alignment programs. Nucleic Acids Res., 27, 2683-2690.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 2683-2690
-
-
Thompson, J.D.1
Plewniak, F.2
Poch, O.3
-
21
-
-
0032988850
-
BaliBASE: A benchmark alignment database for the evaluation of multiple sequence alignment programs
-
Thompson,J.D., Plewniak,F. and Poch,O. (1999b) BaliBASE: a benchmark alignment database for the evaluation of multiple sequence alignment programs. Bioinformatics, 1, 87-88.
-
(1999)
Bioinformatics
, vol.1
, pp. 87-88
-
-
Thompson, J.D.1
Plewniak, F.2
Poch, O.3
-
22
-
-
0034255358
-
Db-Clustal: Rapid and reliable global multiple alignments of protein sequences detected by database searches
-
Thompson,J.D., Plewniak,F., Thierry,J.C. and Poch,O (2000) Db-Clustal: rapid and reliable global multiple alignments of protein sequences detected by database searches. Nucleic Acids Res., 28, 2919-2926.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 2919-2926
-
-
Thompson, J.D.1
Plewniak, F.2
Thierry, J.C.3
Poch, O.4
-
23
-
-
0035824873
-
Towards a reliable objective function for multiple sequence alignments
-
Thompson,J.D., Plewniak,F., Ripp,R., Thierry,J.C. and Poch,O. (2001) Towards a reliable objective function for multiple sequence alignments. J. Mol. Biol., 314, 937-951.
-
(2001)
J. Mol. Biol.
, vol.314
, pp. 937-951
-
-
Thompson, J.D.1
Plewniak, F.2
Ripp, R.3
Thierry, J.C.4
Poch, O.5
-
24
-
-
0034897827
-
Secator: A program for inferring protein subfamilies from phylogenetic trees
-
Wicker,N., Perrin,G.R., Thierry,J.C. and Poch,O. (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
Perrin, G.R.2
Thierry, J.C.3
Poch, O.4
-
25
-
-
0037106541
-
Density of points clustering, application to transcriptomic data analysis
-
Wicker,N., Dembele,D., Raffelsberger,W. and Poch,O. (2002) Density of points clustering, application to transcriptomic data analysis. Nucleic Acids Res., 18, 3992-4000.
-
(2002)
Nucleic Acids Res.
, vol.18
, pp. 3992-4000
-
-
Wicker, N.1
Dembele, D.2
Raffelsberger, W.3
Poch, O.4
-
26
-
-
0001884644
-
Individual comparisons by ranking methods
-
Wilcoxon,F. (1945) Individual comparisons by ranking methods. Biometrics, 1, 80-83.
-
(1945)
Biometrics
, vol.1
, pp. 80-83
-
-
Wilcoxon, F.1
|