-
1
-
-
0025878149
-
Amino acid substitution matrices from an information theoretic perspective
-
Altschul,S.F. (1991) Amino acid substitution matrices from an information theoretic perspective. J. Mol. Biol., 219, 555-565.
-
(1991)
J. Mol. Biol.
, vol.219
, pp. 555-565
-
-
Altschul, S.F.1
-
2
-
-
0029889221
-
Local alignment statistics
-
Altschul,S.F. and Gish,W. (1996) Local alignment statistics. Methods Enzymol., 266, 460-480.
-
(1996)
Methods Enzymol.
, vol.266
, pp. 460-480
-
-
Altschul, S.F.1
Gish, W.2
-
3
-
-
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
-
4
-
-
0034607552
-
Homology-based method for indentification of protein repeats using statistical significance measures
-
Andrade,M., Ponting,C., Gibson,T. and Bork,P. (2000) Homology-based method for indentification of protein repeats using statistical significance measures. J. Mol. Biol., 298, 521-537.
-
(2000)
J. Mol. Biol.
, vol.298
, pp. 521-537
-
-
Andrade, M.1
Ponting, C.2
Gibson, T.3
Bork, P.4
-
5
-
-
0027483434
-
Empirical and structural models for insertions and deletions in the divergent evolution of proteins
-
Benner,S.A., Cohen,M.A. and Gonnet,G.H. (1993) Empirical and structural models for insertions and deletions in the divergent evolution of proteins. J. Mol. Biol., 229, 1065-1082.
-
(1993)
J. Mol. Biol.
, vol.229
, pp. 1065-1082
-
-
Benner, S.A.1
Cohen, M.A.2
Gonnet, G.H.3
-
6
-
-
0033555906
-
Tandem repeats finder: A program to analyze DNA sequences
-
Benson,G. (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res., 27, 573-580.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 573-580
-
-
Benson, G.1
-
7
-
-
0000228203
-
A model of evolutionary change in proteins
-
Dayhoff,M. (ed.), National Biomedical Research Foundation, Washington
-
Dayhoff,M., Schwartz,R. and Orcutt,B. (1978) A model of evolutionary change in proteins. In Dayhoff,M. (ed.), Atlas of Protein Sequence and Structure, National Biomedical Research Foundation, Washington, pp. 345-352.
-
(1978)
Atlas of Protein Sequence and Structure
, pp. 345-352
-
-
Dayhoff, M.1
Schwartz, R.2
Orcutt, B.3
-
9
-
-
0020484488
-
An improved algorithm for matching biological sequences
-
Gotoh,O. (1982) An improved algorithm for matching biological sequences. J. Mol. Biol., 162, 705-708.
-
(1982)
J. Mol. Biol.
, vol.162
, pp. 705-708
-
-
Gotoh, O.1
-
10
-
-
0030734575
-
A simple method for estimating the parameter of substitution rate variation among sites
-
Gu,X. and Zhang,J. (1997) A simple method for estimating the parameter of substitution rate variation among sites. Mol. Biol. Evol., 14, 1106-1113.
-
(1997)
Mol. Biol. Evol.
, vol.14
, pp. 1106-1113
-
-
Gu, X.1
Zhang, J.2
-
11
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff,S. and Henikoff,J.G. (1992) Amino acid substitution matrices from protein blocks. Proc. Natl Acad. Sci. USA, 89, 10915-10919.
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.G.2
-
12
-
-
0027491666
-
A method to recognize distant repeats in protein sequences
-
Heringa,J. and Argos,P. (1993) A method to recognize distant repeats in protein sequences. Proteins, 17, 391-441.
-
(1993)
Proteins
, vol.17
, pp. 391-441
-
-
Heringa, J.1
Argos, P.2
-
13
-
-
0026691182
-
The rapid generation of mutation data matrices from protein sequences
-
Jones,D.T., Taylor,W.R. and Thornton,J.M. (1992) The rapid generation of mutation data matrices from protein sequences. Comput. Appl. Biosci., 8, 275-282.
-
(1992)
Comput. Appl. Biosci.
, vol.8
, pp. 275-282
-
-
Jones, D.T.1
Taylor, W.R.2
Thornton, J.M.3
-
14
-
-
0025259313
-
Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes
-
Karlin,S. and Altschul,S.F. (1990) Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. Proc. Natl Acad. Sci. USA, 87, 2264-2268.
-
(1990)
Proc. Natl. Acad. Sci. USA
, vol.87
, pp. 2264-2268
-
-
Karlin, S.1
Altschul, S.F.2
-
15
-
-
0034142114
-
Super-motifs and evolution of tandem leucine-rich repeats within the small proteoglycans-biglycan, decorin, lumican, fibromodulin, PRELP, keratocan, osteoadherin, epiphycan, and osteoglycin
-
Matsushima,N., Ohyanagi,T., Tanaka,T. and Kretsinger,R.H. (2000) Super-motifs and evolution of tandem leucine-rich repeats within the small proteoglycans-biglycan, decorin, lumican, fibromodulin, PRELP, keratocan, osteoadherin, epiphycan, and osteoglycin. Proteins, 38, 210-225.
-
(2000)
Proteins
, vol.38
, pp. 210-225
-
-
Matsushima, N.1
Ohyanagi, T.2
Tanaka, T.3
Kretsinger, R.H.4
-
16
-
-
0002064379
-
Maximum-likelihood estimation of the statistical distribution of Smith-Waterman local sequence similarity scores
-
Mott,R. (1992) Maximum-likelihood estimation of the statistical distribution of Smith-Waterman local sequence similarity scores. Bull. Math. Biol., 54, 59-75.
-
(1992)
Bull. Math. Biol.
, vol.54
, pp. 59-75
-
-
Mott, R.1
-
17
-
-
0029006770
-
Comparison of methods for searching protein sequence databases
-
Pearson,W.R. (1995) Comparison of methods for searching protein sequence databases. Protein Sci., 4, 1145-1160.
-
(1995)
Protein Sci.
, vol.4
, pp. 1145-1160
-
-
Pearson, W.R.1
-
18
-
-
0032512799
-
Empirical statistical estimates for sequence similarity searches
-
Pearson,W.R. (1998) Empirical statistical estimates for sequence similarity searches. J. Mol. Biol., 276, 71-84.
-
(1998)
J. Mol. Biol.
, vol.276
, pp. 71-84
-
-
Pearson, W.R.1
-
19
-
-
0033990061
-
Flexible sequence similarity searching with the FASTA3 program package
-
Misener,S. and Krawetz,A. (eds), Humana Press, Tolowa, NJ
-
Pearson,W.R. (2000) Flexible sequence similarity searching with the FASTA3 program package. In Misener,S. and Krawetz,A. (eds), Methods in Molecular Biology. Humana Press, Tolowa, NJ, pp. 185-219.
-
(2000)
Methods in Molecular Biology
, pp. 185-219
-
-
Pearson, W.R.1
-
20
-
-
0011733614
-
Statistical significance in biological sequence comparison
-
Balding,D.J., Bishop,M. and Cannings,C. (eds), Wiley, West Sussex
-
Pearson,W.R. and Wood,T. (2001) Statistical significance in biological sequence comparison. In Balding,D.J., Bishop,M. and Cannings,C. (eds), Handbook of Statistical Genetics. Wiley, West Sussex, pp. 39-65.
-
(2001)
Handbook of Statistical Genetics
, pp. 39-65
-
-
Pearson, W.R.1
Wood, T.2
-
21
-
-
0033151949
-
A fast algorithm for genome-wide analysis of proteins with repeated sequences
-
Pellegrini,M., Marcotte,E.M. and Yeates,T.O. (1999) A fast algorithm for genome-wide analysis of proteins with repeated sequences. Proteins, 35, 440-446.
-
(1999)
Proteins
, vol.35
, pp. 440-446
-
-
Pellegrini, M.1
Marcotte, E.M.2
Yeates, T.O.3
-
22
-
-
0028047892
-
Sequence alignment and penalty choice. Review of concepts, case studies and implications
-
Vingron,M. and Waterman,M.S. (1994) Sequence alignment and penalty choice. Review of concepts, case studies and implications. J. Mol. Biol., 235, 1-12.
-
(1994)
J. Mol. Biol.
, vol.235
, pp. 1-12
-
-
Vingron, M.1
Waterman, M.S.2
-
23
-
-
0029046744
-
An assessment of amino acid exchange matrices in aligning protein sequences: The twilight zone revisited
-
Vogt,G., Etzold,T. and Argos,P. (1995) An assessment of amino acid exchange matrices in aligning protein sequences: the twilight zone revisited. J. Mol. Biol., 249, 816-831.
-
(1995)
J. Mol. Biol.
, vol.249
, pp. 816-831
-
-
Vogt, G.1
Etzold, T.2
Argos, P.3
-
24
-
-
0001642687
-
Some biological sequence metrics
-
Waterman,M.S., Smith,T. and Beyer,W. (1976) Some biological sequence metrics. Adv. Math., 20, 367-387.
-
(1976)
Adv. Math.
, vol.20
, pp. 367-387
-
-
Waterman, M.S.1
Smith, T.2
Beyer, W.3
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