-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E.W. and Lipman, D. J. (1990). Basic local alignment search tool. J. Molecular Biology 215 403-410.
-
(1990)
J. Molecular Biology
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
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
-
-
0035863762
-
The estimation of statistical parameters for local alignment score distributions
-
Altschul, S. F., Bundschuh, R., Olsen, R. and Hwa, T. (2001). The estimation of statistical parameters for local alignment score distributions. Nucleic Acids Res. 29 351-361.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 351-361
-
-
Altschul, S.F.1
Bundschuh, R.2
Olsen, R.3
Hwa, T.4
-
6
-
-
0001619220
-
A phase transition for the score in matching random sequences allowing deletions
-
MR1258181
-
Arratia, R. and Waterman, M. S. (1994). A phase transition for the score in matching random sequences allowing deletions. Ann. Appl. Probab. 4 200-225. MR1258181
-
(1994)
Ann. Appl. Probab.
, vol.4
, pp. 200-225
-
-
Arratia, R.1
Waterman, M.S.2
-
7
-
-
0036108574
-
Rapid significance estimation in local sequence alignment with gaps
-
Bundschuh, R. (2002). Rapid significance estimation in local sequence alignment with gaps. J. Comput. Biology 9 243-260.
-
(2002)
J. Comput. Biology
, vol.9
, pp. 243-260
-
-
Bundschuh, R.1
-
8
-
-
41349114187
-
Asymmetric exclusion process and extremal statistics of random sequences
-
Bundschuh, R. (2002). Asymmetric exclusion process and extremal statistics of random sequences. Phys. Rev. E 65 031911.
-
(2002)
Phys. Rev. e
, vol.65
, pp. 031911
-
-
Bundschuh, R.1
-
9
-
-
13444313616
-
Upper bounds and importance sampling of p - Values for DNA and protein sequence alignments
-
MR1997026
-
Chan, H. P. (2003). Upper bounds and importance sampling of p-values for DNA and protein sequence alignments. Bernoulli 9 183-199. MR1997026
-
(2003)
Bernoulli
, vol.9
, pp. 183-199
-
-
Chan, H.P.1
-
11
-
-
0000228203
-
A model of evolutionary change in proteins
-
National Biomedical Research Foundation, Silver Spring, MD.
-
Dayhoff, M.O., Schwartz, R. M. and Orcutt, B. C. (1978). A model of evolutionary change in proteins. In Atlas of Protein Sequence and Structure 345-352. National Biomedical Research Foundation, Silver Spring, MD.
-
(1978)
Atlas of Protein Sequence and Structure
, pp. 345-352
-
-
Dayhoff, M.O.1
Schwartz, R.M.2
Orcutt, B.C.3
-
12
-
-
0000526802
-
Limit distributions of maximal non - Aligned two-sequence segmental score
-
MR1331214
-
Dembo, A., Karlin, S. and Zeitouni, O. (1994). Limit distributions of maximal non-aligned two-sequence segmental score. Ann. Probab. 22 2022-2039. MR1331214
-
(1994)
Ann. Probab.
, vol.22
, pp. 2022-2039
-
-
Dembo, A.1
Karlin, S.2
Zeitouni, O.3
-
13
-
-
0012951985
-
Moderate deviations for Markov chains with atom
-
MR1854025
-
Djellout, H. and Guillin, A. (2001). Moderate deviations for Markov chains with atom. Stochastic Process. Appl. 95 203-217. MR1854025
-
(2001)
Stochastic Process. Appl.
, vol.95
, pp. 203-217
-
-
Djellout, H.1
Guillin, A.2
-
15
-
-
0020484488
-
An improved algorithm for matching biological sequences
-
Gotoh, O. (1982). An improved algorithm for matching biological sequences. J. Molecular Biology 162 705-708.
-
(1982)
J. Molecular Biology
, vol.162
, pp. 705-708
-
-
Gotoh, O.1
-
16
-
-
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
-
17
-
-
0003157339
-
Robust estimation of a location parameter
-
MR0161415
-
Huber, P. J. (1964). Robust estimation of a location parameter. Ann. Math. Statist. 35 73-101. MR0161415
-
(1964)
Ann. Math. Statist.
, vol.35
, pp. 73-101
-
-
Huber, P.J.1
-
19
-
-
84963040969
-
A convexity property of positive matrices
-
MR0138632
-
Kingman, J. F. C. (1961). A convexity property of positive matrices. Quart. J. Math. Oxford 12 283-284. MR0138632
-
(1961)
Quart. J. Math. Oxford
, vol.12
, pp. 283-284
-
-
Kingman, J.F.C.1
-
21
-
-
0032770364
-
Local sequence alignments with monotonic gap penalties
-
Mott, R. (1999). Local sequence alignments with monotonic gap penalties. Bioinformatics 15 455-462.
-
(1999)
Bioinformatics
, vol.15
, pp. 455-462
-
-
Mott, R.1
-
22
-
-
0034647416
-
Accurate formula for p - Values of gapped local sequence and profile alignments
-
Mott, R. (2000). Accurate formula for p-values of gapped local sequence and profile alignments. J. Molecular Biology 300 649-659.
-
(2000)
J. Molecular Biology
, vol.300
, pp. 649-659
-
-
Mott, R.1
-
23
-
-
0033287987
-
Rapid assessment of extremal statistics for gapped local alignment
-
AAAI Press, Menlo Park, CA.
-
Olsen, R., Bundschuh, R. and Hwa, T. (1999). Rapid assessment of extremal statistics for gapped local alignment. In Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology 211-222. AAAI Press, Menlo Park, CA.
-
(1999)
Proceedings Ofthe Seventh International Conference on Intelligent Systems for Molecular Biology
, pp. 211-222
-
-
Olsen, R.1
Bundschuh, R.2
Hwa, T.3
-
24
-
-
11844267186
-
Accelerated convergence and robust asymptotic regression of the Gumbel scale parameter for gapped sequence alignment
-
Park, Y., Sheetlin, S.andSpouge, J. L. (2005). Accelerated convergence and robust asymptotic regression of the Gumbel scale parameter for gapped sequence alignment. J. Phys. A: Mathematical and General 38 97-108.
-
(2005)
J. Phys. A: Mathematical and General
, vol.38
, pp. 97-108
-
-
Park, Y.1
Sheetlin, S.2
Spouge, J.L.3
-
26
-
-
24744434732
-
The Gumbelpre-factor k for gapped local alignment can be estimated from simulations of global alignment
-
Sheetlin, S., Park, Y. and Spouge, J. L. (2005). The Gumbelpre-factor k for gapped local alignment can be estimated from simulations of global alignment. Nucleic Acids Res. 33 4987-4994.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 4987-4994
-
-
Sheetlin, S.1
Park, Y.2
Spouge, J.L.3
-
27
-
-
23044521397
-
Approximate p - Values for local sequence alignments
-
MR1792782
-
Siegmund, D. and Yakir, B. (2000). Approximate p-values for local sequence alignments. Ann. Statist. 28 657-680. MR1792782
-
(2000)
Ann. Statist.
, vol.28
, pp. 657-680
-
-
Siegmund, D.1
Yakir, B.2
-
28
-
-
11844288563
-
Path reversal, islands, and the gapped alignment of random sequences
-
MR2122473
-
Spouge, J. L. (2004). Path reversal, islands, and the gapped alignment of random sequences. J. Appl. Probab. 41 975-983. MR2122473
-
(2004)
J. Appl. Probab.
, vol.41
, pp. 975-983
-
-
Spouge, J.L.1
-
29
-
-
0034756847
-
Approximate p-values for local sequence alignments: Numerical studies
-
Storey, J. D. and Siegmund, D. (2001). Approximate p-values for local sequence alignments: Numerical studies. J. Comput. Biology 8 549-556.
-
(2001)
J. Comput. Biology
, vol.8
, pp. 549-556
-
-
Storey, J.D.1
Siegmund, D.2
-
30
-
-
0001642687
-
Some biological sequence metrics
-
MR0408876
-
Waterman, M. S., Smith, T.F. and Beyer, W. A. (1976). Some biological sequence metrics. Adv. in Math. 20 367-387. MR0408876
-
(1976)
Adv. in Math.
, vol.20
, pp. 367-387
-
-
Waterman, M.S.1
Smith, T.F.2
Beyer, W.A.3
-
31
-
-
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
-
32
-
-
84972546031
-
Sequence comparison significance and Poisson approximation
-
MR1325433
-
Waterman, M. S. and Vingron, M. (1994). Sequence comparison significance and Poisson approximation. Statist. Sci. 9 367-381. MR1325433
-
(1994)
Statist. Sci.
, vol.9
, pp. 367-381
-
-
Waterman, M.S.1
Vingron, M.2
-
33
-
-
16344388556
-
The construction of amino acid substitution matrices for the comparison of proteins with nonstandard compositions
-
Yu, Y.K. and Altschul, S. F. (2005). The construction of amino acid substitution matrices for the comparison of proteins with nonstandard compositions. Bioinformatics 21 902-911.
-
(2005)
Bioinformatics
, vol.21
, pp. 902-911
-
-
Yu, Y.K.1
Altschul, S.F.2
-
34
-
-
0034741155
-
Statistical significance of probabilistic sequence alignment and related local hidden Markov models
-
Yu, Y.K. and Hwa, T. (2001). Statistical significance of probabilistic sequence alignment and related local hidden Markov models. J. Comput. Biology 8 249-282.
-
(2001)
J. Comput. Biology
, vol.8
, pp. 249-282
-
-
Yu, Y.K.1
Hwa, T.2
-
35
-
-
21344463876
-
A limit theorem for matching random sequences allowing deletions
-
MR1384373
-
Zhang, Y. (1995). A limit theorem for matching random sequences allowing deletions. Ann. Appl. Probab. 5 1236-1240. MR1384373.
-
(1995)
Ann. Appl. Probab.
, vol.5
, pp. 1236-1240
-
-
Zhang, Y.1
|