-
1
-
-
4644269503
-
Comparative homology agreements earch: An effective combination of homology-search methods
-
Alam,I. et al. (2004) Comparative homology agreements earch: An effective combination of homology-search methods. Proc. Natl. Acad. Sci USA, 101, 13814-13819.
-
(2004)
Proc. Natl. Acad. Sci USA
, vol.101
, pp. 13814-13819
-
-
Alam, I.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
-
-
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
-
4
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul,S.F. et al. (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
-
5
-
-
0033574503
-
Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches
-
Aravind,L. and Koonin,E.V. (1999) Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches. J. Mol. Bio., 287, 1023-1040.
-
(1999)
J. Mol. Bio
, vol.287
, pp. 1023-1040
-
-
Aravind, L.1
Koonin, E.V.2
-
6
-
-
2942511670
-
PubMatrix: A tool for multiplex literature mining
-
Becker,K.G. et al. (2003) PubMatrix: A tool for multiplex literature mining. BMC Bioinformatics, 4, 61.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 61
-
-
Becker, K.G.1
-
7
-
-
0025830469
-
A method to identify protein sequences that fold into a known three-dimensional structure
-
Bowie,J.U. et al. (1991) A method to identify protein sequences that fold into a known three-dimensional structure. Science, 253, 164-253.
-
(1991)
Science
, vol.253
, pp. 164-253
-
-
Bowie, J.U.1
-
8
-
-
0029948769
-
Three-dimensional profiles for measuring compatibility of amino acid sequence with three-dimensional structure
-
Bowie,J.U. et al. (1996) Three-dimensional profiles for measuring compatibility of amino acid sequence with three-dimensional structure. Methods Enzymol., 266, 598-616.
-
(1996)
Methods Enzymol
, vol.266
, pp. 598-616
-
-
Bowie, J.U.1
-
9
-
-
0023984741
-
The significance of protien sequence similarities
-
Collins,J.F. et al. (1988) The significance of protien sequence similarities. Comput. Appl. BioSci., 4, 67-71.
-
(1988)
Comput. Appl. BioSci
, vol.4
, pp. 67-71
-
-
Collins, J.F.1
-
10
-
-
0029937428
-
Hidden Markov models.
-
Eddy,S.R. (1996) Hidden Markov models. Curr. Opin. Struct. Biol., 6, 361-365.
-
(1996)
Curr. Opin. Struct. Biol
, vol.6
, pp. 361-365
-
-
Eddy, S.R.1
-
11
-
-
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
-
12
-
-
0035798406
-
Assignment oh homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure
-
Gough,J. et al. (2001) Assignment oh homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. J. Mol. Biol., 313, 903-919.
-
(2001)
J. Mol. Biol
, vol.313
, pp. 903-919
-
-
Gough, J.1
-
13
-
-
0023375315
-
Profile analysis: Detection of distantly related proteins
-
Gribskov,M. et al. (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
-
14
-
-
0001969211
-
Use of receiver operating characteristic (ROC) analysis to evaluate sequence matching
-
Gribskov,M. and Robinson,N.L. (1996) Use of receiver operating characteristic (ROC) analysis to evaluate sequence matching. Comput. Chem., 20, 25-33.
-
(1996)
Comput. Chem
, vol.20
, pp. 25-33
-
-
Gribskov, M.1
Robinson, N.L.2
-
15
-
-
0031721094
-
Homology detection via family pairwise search
-
Grundy,W.N. (1998) Homology detection via family pairwise search. J. Comput. Biol., 5, 479-491.
-
(1998)
J. Comput. Biol
, vol.5
, pp. 479-491
-
-
Grundy, W.N.1
-
16
-
-
0029887381
-
Hidden Markov models for sequence analysis: Extension and analysis of the basic method
-
Hughey,R. and Krogh,A. (1996) Hidden Markov models for sequence analysis: Extension and analysis of the basic method. Comput. Appl. Biosci., 12, 95-107.
-
(1996)
Comput. Appl. Biosci
, vol.12
, pp. 95-107
-
-
Hughey, R.1
Krogh, A.2
-
17
-
-
17444407069
-
A structure-based method for protein sequence alignment
-
Kann,M.G. et al. (2005) A structure-based method for protein sequence alignment. Bioinformatics, 21, 1451-1456.
-
(2005)
Bioinformatics
, vol.21
, pp. 1451-1456
-
-
Kann, M.G.1
-
18
-
-
0141974922
-
PANDORA: Keyword-based analysis of protein sets by integration of annotation sources
-
Kaplan,N. et al. (2003) PANDORA: Keyword-based analysis of protein sets by integration of annotation sources. Nucleic Acids Res., 31, 5617-5626.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 5617-5626
-
-
Kaplan, N.1
-
19
-
-
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
-
20
-
-
0027175241
-
Applications and statistics for multiple high-scoring segments in molecular sequences
-
Karlin,S. and Altschul,S.F. (1993) Applications and statistics for multiple high-scoring segments in molecular sequences. Proc. Natl Acad. Sci., 90, 5873-5877.
-
(1993)
Proc. Natl Acad. Sci
, vol.90
, pp. 5873-5877
-
-
Karlin, S.1
Altschul, S.F.2
-
21
-
-
0000586227
-
Limit distributions of maximal segmental score among Markov-dependent partial sums
-
Karlin,S. and Dembo,A. (1992) Limit distributions of maximal segmental score among Markov-dependent partial sums. Adv. Appl. Prob., 24 113-140.
-
(1992)
Adv. Appl. Prob
, vol.24
, pp. 113-140
-
-
Karlin, S.1
Dembo, A.2
-
22
-
-
0032438987
-
(998) Hidden Markov models for detecting remote protein homologies
-
Karplus,K. et al. (998) Hidden Markov models for detecting remote protein homologies. Bioinformatics, 14, 846-856.
-
Bioinformatics
, vol.14
, pp. 846-856
-
-
Karplus, K.1
-
23
-
-
42449114481
-
Distant homology detection using a LEngth and STructure-based sequence Alignment Tool (LESTAT)
-
Lee,M.M. et al. (2007) Distant homology detection using a LEngth and STructure-based sequence Alignment Tool (LESTAT). Proteins, 71, 1409-1419.
-
(2007)
Proteins
, vol.71
, pp. 1409-1419
-
-
Lee, M.M.1
-
24
-
-
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
-
25
-
-
0032509105
-
-
Park.J. et al. (1998) Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods. J. Mol. Biol., 284, 1201-1210.
-
Park.J. et al. (1998) Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods. J. Mol. Biol., 284, 1201-1210.
-
-
-
-
26
-
-
0035878724
-
Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements
-
Schaffer,A.A. et al. (2001) Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. Nucleic Acids Res., 29, 2994-3005.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 2994-3005
-
-
Schaffer, A.A.1
-
27
-
-
34447304880
-
SherLoc: High-accuracy prediction of protein subcellular localization by integrating text and protein sequence data
-
Shatkay,H. et al. (2007) SherLoc: High-accuracy prediction of protein subcellular localization by integrating text and protein sequence data. Bioinformatics, 23, 1410-1417.
-
(2007)
Bioinformatics
, vol.23
, pp. 1410-1417
-
-
Shatkay, H.1
-
29
-
-
0022431785
-
The statistical distribution of nucleic acid similarities
-
Smith,T.F. et al. (1985) The statistical distribution of nucleic acid similarities. Nucleic Acids Res., 13, 645-656.
-
(1985)
Nucleic Acids Res
, vol.13
, pp. 645-656
-
-
Smith, T.F.1
-
30
-
-
0033168097
-
A comprehensive comparison of multiple sequence alignment programs
-
Thompson,J.D. et al. (1999) A comprehensive comparison of multiple sequence alignment programs. Nucleic Acid Res., 27, 2682-2690.
-
(1999)
Nucleic Acid Res
, vol.27
, pp. 2682-2690
-
-
Thompson, J.D.1
-
31
-
-
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
-
32
-
-
0028234758
-
Rapid and accurate estimates of statistical significance for sequence data base searches
-
Waterman,M.S. and Vingron,M. (1994) Rapid and accurate estimates of statistical significance for sequence data base searches. Proc. Natl Acad. Sci. USA, 91, 4625-4628.
-
(1994)
Proc. Natl Acad. Sci. USA
, vol.91
, pp. 4625-4628
-
-
Waterman, M.S.1
Vingron, M.2
|