-
2
-
-
0028011075
-
Hidden Markov models of biological primary sequence information
-
Baldi, P., Chauvin, Y., Hunkapiller, T., and McClure, M.A. 1994. Hidden Markov models of biological primary sequence information. Proc. Natl. Acad. Sci. USA 91(3), 1059-1063.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, Issue.3
, pp. 1059-1063
-
-
Baldi, P.1
Chauvin, Y.2
Hunkapiller, T.3
McClure, M.A.4
-
4
-
-
0027903113
-
Using Dirichlet mixture priors to derive bidden Markov models for protein families
-
Brown, M., Hughey, R., Krogh, A., Mian, I., Sjolander, K., and Haussler, D. 1995. Using Dirichlet mixture priors to derive bidden Markov models for protein families. Proc. 3rd Int. Conf. Intelligent Systems for Molecular Biology, 47-55.
-
(1995)
Proc. 3rd Int. Conf. Intelligent Systems for Molecular Biology
, pp. 47-55
-
-
Brown, M.1
Hughey, R.2
Krogh, A.3
Mian, I.4
Sjolander, K.5
Haussler, D.6
-
5
-
-
0028502095
-
Some useful statistical properties of position-weight matrices
-
Claverie, J.M. 1994. Some useful statistical properties of position-weight matrices. Computers and Chemistry, 18, 287-294.
-
(1994)
Computers and Chemistry
, vol.18
, pp. 287-294
-
-
Claverie, J.M.1
-
8
-
-
0002629270
-
Maximum likelihood for incomplete data via the EM algorithm
-
Dempster, A.P., Laird, N., and Rubin, D. 1977. Maximum likelihood for incomplete data via the EM algorithm. J. Royal Statist. Soc., ser. B, 39, 1-38.
-
(1977)
J. Royal Statist. Soc., Ser. B
, vol.39
, pp. 1-38
-
-
Dempster, A.P.1
Laird, N.2
Rubin, D.3
-
9
-
-
0003516147
-
-
Cambridge University Press, London
-
Durbin, R., Eddy, S., Krogh, A., and Mitchison, G. 1998. Biological Sequence Analysis, Cambridge University Press, London.
-
(1998)
Biological Sequence Analysis
-
-
Durbin, R.1
Eddy, S.2
Krogh, A.3
Mitchison, G.4
-
14
-
-
0025341905
-
Profile analysis
-
Gribskov, M., Lüthy, R., and Eisenberg, D. 1990. Profile analysis. Methods Enzymol. 183, 146-159.
-
(1990)
Methods Enzymol
, vol.183
, pp. 146-159
-
-
Gribskov, M.1
Lüthy, R.2
Eisenberg, D.3
-
15
-
-
0029665409
-
Identification of sequence patterns with profile analysis
-
Gribskov, M., and Veretnik, S. 1996. Identification of sequence patterns with profile analysis. Methods Enzymol. 266, 198-212.
-
(1996)
Methods Enzymol
, vol.266
, pp. 198-212
-
-
Gribskov, M.1
Veretnik, S.2
-
16
-
-
0031326925
-
Mutual information, metric entropy, and cumulative relative entropy risk
-
Haussler, D., and Opper, M. 1997. Mutual information, metric entropy, and cumulative relative entropy risk. Ann. Statist. 25(6).
-
(1997)
Ann. Statist.
, vol.25
, Issue.6
-
-
Haussler, D.1
Opper, M.2
-
17
-
-
12244269811
-
-
chapter titled Worst Case Prediction over Sequences under Log Loss, Springer Verlag, New York
-
Haussler, D., and Opper, M. 1998. The Mathematics of Information Coding, Extraction and Distribution, chapter titled Worst Case Prediction over Sequences under Log Loss, Springer Verlag, New York.
-
(1998)
The Mathematics of Information Coding, Extraction and Distribution
-
-
Haussler, D.1
Opper, M.2
-
18
-
-
0026410103
-
Automated assembly of protein blocks for database searching
-
Henikoff, S., and Henikoff, J.G. 1991. Automated assembly of protein blocks for database searching. Nucl. Acids Res. 19(23), 6565-6572.
-
(1991)
Nucl. Acids Res.
, vol.19
, Issue.23
, pp. 6565-6572
-
-
Henikoff, S.1
Henikoff, J.G.2
-
19
-
-
0028043552
-
Position-based sequence weights
-
Henikoff, S., and Henikoff, J.G. 1994. Position-based sequence weights, J. Mol. Biol. 243, 574-578.
-
(1994)
J. Mol. Biol.
, vol.243
, pp. 574-578
-
-
Henikoff, S.1
Henikoff, J.G.2
-
21
-
-
0029977162
-
Using substitution probabilities to improve position-specific scoring matrices
-
Henikoff, J.G., and Henikoff, S. 1996b. Using substitution probabilities to improve position-specific scoring matrices. Comput. Applic. Biosci. 12, 135-143.
-
(1996)
Comput. Applic. Biosci.
, vol.12
, pp. 135-143
-
-
Henikoff, J.G.1
Henikoff, S.2
-
22
-
-
0034048878
-
A discriminative framework for detecting remote protein homologies
-
Jaakkola, T, Diekhans, M., and Haussler, D. 2000. A discriminative framework for detecting remote protein homologies. J. Comp. Biol. 7, 95-114.
-
(2000)
J. Comp. Biol.
, vol.7
, pp. 95-114
-
-
Jaakkola, T.1
Diekhans, M.2
Haussler, D.3
-
23
-
-
0004121963
-
Regularizers for estimating distributions of amino acids from small samples
-
Karplus, K. 1995. Regularizers for estimating distributions of amino acids from small samples. Technical Report UCSC-CRL-95-11.
-
(1995)
Technical Report UCSC-CRL-95-11
-
-
Karplus, K.1
-
24
-
-
0032438987
-
Hidden Markov models for detecting remote protein homologies
-
Karplus, K., Barrett, C., and Hughey, R. 1998. Hidden Markov models for detecting remote protein homologies. Bioinformatics 14(10), 846-856.
-
(1998)
Bioinformatics
, vol.14
, Issue.10
, pp. 846-856
-
-
Karplus, K.1
Barrett, C.2
Hughey, R.3
-
25
-
-
0028181441
-
Hidden Markov models in computational biology: Applications to protein modeling
-
Krogh, A., Brown, M., Mian, I., Sjolander, K., and Haussler, D. 1994. Hidden Markov models in computational biology: Applications to protein modeling. J. Mol. Biol. 235, 1501-1531.
-
(1994)
J. Mol. Biol.
, vol.235
, pp. 1501-1531
-
-
Krogh, A.1
Brown, M.2
Mian, I.3
Sjolander, K.4
Haussler, D.5
-
26
-
-
0003552989
-
-
chapter titled Matrices for Detecting Distant Relationships, National Biomedical Research Foundation, Silver Spring, MD
-
Schwartz, R.M., and Dayhoff, M.O. 1978. Atlas of Protein Sequence and Structure, chapter titled Matrices for Detecting Distant Relationships, 353-358, National Biomedical Research Foundation, Silver Spring, MD.
-
(1978)
Atlas of Protein Sequence and Structure
, pp. 353-358
-
-
Schwartz, R.M.1
Dayhoff, M.O.2
-
27
-
-
0023380770
-
Universal sequential coding of single messages
-
translated from Russian
-
Shtar'kov, Y.M. 1987. Universal sequential coding of single messages. Problems of Information Transmission (translated from Russian), 23, 175-186.
-
(1987)
Problems of Information Transmission
, vol.23
, pp. 175-186
-
-
Shtar'kov, Y.M.1
-
28
-
-
0029906607
-
Dirichlet mixtures: A method for improving detection of weak but significant protein sequence homology
-
Sjolander, K., Karplus, K., Brown, M., Hughey, R., Krogh, A., Mian, I.S., and Haussler, D. 1996. Dirichlet mixtures: A method for improving detection of weak but significant protein sequence homology. Comput. Appl. Biosci. 12(4), 327-345.
-
(1996)
Comput. Appl. Biosci.
, vol.12
, Issue.4
, pp. 327-345
-
-
Sjolander, K.1
Karplus, K.2
Brown, M.3
Hughey, R.4
Krogh, A.5
Mian, I.S.6
Haussler, D.7
-
29
-
-
0030925920
-
Pfam: A comprehensive database of protein domain families based on seed alignments
-
Sonnhammer, E., Eddy, S., and Durbin, R. 1997. Pfam: A comprehensive database of protein domain families based on seed alignments. Proteins 28(3), 405-420.
-
(1997)
Proteins
, vol.28
, Issue.3
, pp. 405-420
-
-
Sonnhammer, E.1
Eddy, S.2
Durbin, R.3
-
30
-
-
0028091659
-
Detection of conserved segments in proteins: Iterative scanning of sequence databases with alignment blocks
-
Tatusov, R.L., Altschul, S.F., and Koonin, E.V. 1994. Detection of conserved segments in proteins: Iterative scanning of sequence databases with alignment blocks. Proc. Natl. Acad. Sci. USA 91(25), 12091-12095.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, Issue.25
, pp. 12091-12095
-
-
Tatusov, R.L.1
Altschul, S.F.2
Koonin, E.V.3
-
31
-
-
0029307102
-
The context tree weighting method: Basic properties
-
Willems, F.M.J., Shtar'kov, Y.M., and Tjalkens, T.J. 1995. The context tree weighting method: Basic properties. IEEE Trans. Inform. Theory 41(3), 653-664.
-
(1995)
IEEE Trans. Inform. Theory
, vol.41
, Issue.3
, pp. 653-664
-
-
Willems, F.M.J.1
Shtar'kov, Y.M.2
Tjalkens, T.J.3
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