-
1
-
-
21444443478
-
MatInspector and Beyond: Promoter Analysis Based on Transcription Factor Binding Sites
-
Cartharius, K., Frech, K., Grote, K., Klocke, B., Haltmeier, M., Klingenhoff, A., Frisch, M., Bayerlein, M., and Werner, T. (2005), "MatInspector and Beyond: Promoter Analysis Based on Transcription Factor Binding Sites," Bioinformatics, 21, 2933-2942.
-
(2005)
Bioinformatics
, vol.21
, pp. 2933-2942
-
-
Cartharius, K.1
Frech, K.2
Grote, K.3
Klocke, B.4
Haltmeier, M.5
Klingenhoff, A.6
Frisch, M.7
Bayerlein, M.8
Werner, T.9
-
2
-
-
2142738304
-
WebLogo: A Sequence Logo Generator
-
Crooks, G., Hon, G., Chandonia, J., and Brenner, S. (2004), "WebLogo: A Sequence Logo Generator," Genome Research, 14, 1188-1190.
-
(2004)
Genome Research
, vol.14
, pp. 1188-1190
-
-
Crooks, G.1
Hon, G.2
Chandonia, J.3
Brenner, S.4
-
3
-
-
0002629270
-
Maximum Likelihood From Incomplete Data via the EM Algorithm
-
Dempster, A., Laird, N., and Rubin, D. (1977), "Maximum Likelihood From Incomplete Data via the EM Algorithm," Journal of the Royal Statistical Society, Ser. B, 39, 1-38.
-
(1977)
Journal of the Royal Statistical Society, Ser. B
, vol.39
, pp. 1-38
-
-
Dempster, A.1
Laird, N.2
Rubin, D.3
-
4
-
-
0037432566
-
e Regulon and the Identification of Additional Sporulation Genes in Bacillus subtilis
-
e Regulon and the Identification of Additional Sporulation Genes in Bacillus subtilis," Journal of Molecular Biology, 327, 945-972.
-
(2003)
Journal of Molecular Biology
, vol.327
, pp. 945-972
-
-
Eichenberger, P.1
Jensen, S.2
Conlon, E.3
van Ooij, C.4
Silvaggi, J.5
Gonzalez-Pastor, J.6
Fujita, M.7
Ben-Yehuda, S.8
Stragier, P.9
Liu, J.10
Losick, R.11
-
5
-
-
21344479762
-
Estimating Normal Means With a Dirichlet Process Prior
-
Escobar, M. (1994), "Estimating Normal Means With a Dirichlet Process Prior," Journal of the American Statistical Association, 89, 268-277.
-
(1994)
Journal of the American Statistical Association
, vol.89
, pp. 268-277
-
-
Escobar, M.1
-
6
-
-
0000780135
-
Prior Distributions on Spaces of Probability Measures
-
Ferguson, T. (1974), "Prior Distributions on Spaces of Probability Measures," The Annals of Statistics, 2, 615-629.
-
(1974)
The Annals of Statistics
, vol.2
, pp. 615-629
-
-
Ferguson, T.1
-
7
-
-
0021518209
-
Stochastic Relaxation, Gibbs Distributions, and the Bayesian Restoration of Images
-
Geman, S., and Geman, D. (1984), "Stochastic Relaxation, Gibbs Distributions, and the Bayesian Restoration of Images," IEEE Transaction on Pattern Analysis and Machine Intelligence, 6, 721-741.
-
(1984)
IEEE Transaction on Pattern Analysis and Machine Intelligence
, vol.6
, pp. 721-741
-
-
Geman, S.1
Geman, D.2
-
8
-
-
0035531242
-
Modelling Heterogeneity With and Without the Dirichlet Process
-
Green, P., and Richardson, S. (2001), "Modelling Heterogeneity With and Without the Dirichlet Process," Scandinavian Journal of Statistics, 28, 355-375.
-
(2001)
Scandinavian Journal of Statistics
, vol.28
, pp. 355-375
-
-
Green, P.1
Richardson, S.2
-
9
-
-
0036796540
-
Predicting Transcription Factor Synergism
-
Hannenhalli, S., and Levy, S. (2002), "Predicting Transcription Factor Synergism," Nucleic Acids Research, 30, 4278-4284.
-
(2002)
Nucleic Acids Research
, vol.30
, pp. 4278-4284
-
-
Hannenhalli, S.1
Levy, S.2
-
11
-
-
1842608248
-
Determination of Local Statistical Significance of Patterns in Markov Sequences With Application to Promoter Element Identification
-
Huang, H., Kao, M., Zhou, X., Liu, J., and Wong, W. (2004), "Determination of Local Statistical Significance of Patterns in Markov Sequences With Application to Promoter Element Identification," Journal of Computational Biology, 11, 1-14.
-
(2004)
Journal of Computational Biology
, vol.11
, pp. 1-14
-
-
Huang, H.1
Kao, M.2
Zhou, X.3
Liu, J.4
Wong, W.5
-
12
-
-
3242877502
-
BioOptimizer: A Bayesian Scoring Function Approach to Motif Discovery
-
Jensen, S., and Liu, J. (2004), "BioOptimizer: A Bayesian Scoring Function Approach to Motif Discovery," Bioinformatics, 20, 1557-1564.
-
(2004)
Bioinformatics
, vol.20
, pp. 1557-1564
-
-
Jensen, S.1
Liu, J.2
-
13
-
-
0346490298
-
Computational Discovery of Gene Regulatory Binding Motifs: A Bayesian Perspective
-
Jensen, S., Liu, X., Zhou, Q., and Liu, J. (2004), "Computational Discovery of Gene Regulatory Binding Motifs: A Bayesian Perspective," Statistical Science, 19, 188-204.
-
(2004)
Statistical Science
, vol.19
, pp. 188-204
-
-
Jensen, S.1
Liu, X.2
Zhou, Q.3
Liu, J.4
-
14
-
-
27544485238
-
Combining Phylogenetic Motif Discovery and Motif Clustering to Predict Co-Regulated Genes
-
Jensen, S., Shen, L., and Liu, J. (2005), "Combining Phylogenetic Motif Discovery and Motif Clustering to Predict Co-Regulated Genes," Bioinformatics, 21, 3832-3839.
-
(2005)
Bioinformatics
, vol.21
, pp. 3832-3839
-
-
Jensen, S.1
Shen, L.2
Liu, J.3
-
15
-
-
84950934893
-
Bayes Factors
-
Kass, R., and Raftery, A. (1995), "Bayes Factors," Journal of the American Statistical Association, 90, 773-795.
-
(1995)
Journal of the American Statistical Association
, vol.90
, pp. 773-795
-
-
Kass, R.1
Raftery, A.2
-
16
-
-
27644499659
-
Measuring Similarities Between Transcription Factor Binding Sites
-
Kielbasa, S., Gonze, D., and Herzel, H. (2005), "Measuring Similarities Between Transcription Factor Binding Sites," BMC Bioinformatics, 6, 237.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 237
-
-
Kielbasa, S.1
Gonze, D.2
Herzel, H.3
-
17
-
-
79951870792
-
The Collapsed Gibbs Sampler in Bayesian Computations With Applications to a Gene Regulation Problem
-
Liu, J. (1994), "The Collapsed Gibbs Sampler in Bayesian Computations With Applications to a Gene Regulation Problem," Journal of the American Statistical Association, 94, 958-966.
-
(1994)
Journal of the American Statistical Association
, vol.94
, pp. 958-966
-
-
Liu, J.1
-
18
-
-
0030487956
-
Nonparametric Hierarchical Bayes via Sequential Imputations
-
_ (1996), "Nonparametric Hierarchical Bayes via Sequential Imputations," The Annals of Statistics, 24, 911-930.
-
(1996)
The Annals of Statistics
, vol.24
, pp. 911-930
-
-
Liu, J.1
-
19
-
-
0008533463
-
Regulation of Transcription Initiation
-
4th ed, New York: Scientific American, pp
-
Lodish, H., Baltimore, D., Berk, A., Zipursky, S., Matsudaira, P., and Darnell, J. (1995), "Regulation of Transcription Initiation," in Molecular Cell Biology (4th ed.), New York: Scientific American, pp. 405-481.
-
(1995)
Molecular Cell Biology
, pp. 405-481
-
-
Lodish, H.1
Baltimore, D.2
Berk, A.3
Zipursky, S.4
Matsudaira, P.5
Darnell, J.6
-
21
-
-
0035253676
-
Phylogenetic Footprinting of Transcription Factor Binding Sites in Proteobacterial Genomes
-
McCue, L., Thompson, W., Carmack, C., Ryan, M., Liu, J., Derbyshire, V., and Lawrence, C. E. (2001), "Phylogenetic Footprinting of Transcription Factor Binding Sites in Proteobacterial Genomes," Nucleic Acids Research, 29, 774-782.
-
(2001)
Nucleic Acids Research
, vol.29
, pp. 774-782
-
-
McCue, L.1
Thompson, W.2
Carmack, C.3
Ryan, M.4
Liu, J.5
Derbyshire, V.6
Lawrence, C.E.7
-
22
-
-
0036739286
-
Bayesian Infinite Mixture Models Based Clustering of Gene Expression Profiles
-
Medvedovic, M., and Sivaganesan, S. (2002), "Bayesian Infinite Mixture Models Based Clustering of Gene Expression Profiles," Bioinformatics, 18, 1194-1206.
-
(2002)
Bioinformatics
, vol.18
, pp. 1194-1206
-
-
Medvedovic, M.1
Sivaganesan, S.2
-
23
-
-
12244259677
-
Identification of Co-Regulated Genes Through Bayesian Clustering of Predicted Regulatory Binding Sites
-
Qin, Z. S., McCue, L. A., Thompson, W., Mayerhofer, L., Lawrence, C. E., and Liu, J. S. (2003), "Identification of Co-Regulated Genes Through Bayesian Clustering of Predicted Regulatory Binding Sites," Nature Biotechnology, 21, 435-439.
-
(2003)
Nature Biotechnology
, vol.21
, pp. 435-439
-
-
Qin, Z.S.1
McCue, L.A.2
Thompson, W.3
Mayerhofer, L.4
Lawrence, C.E.5
Liu, J.S.6
-
24
-
-
0347125328
-
JASPAR: An Open Access Database for Eukaryotic Transcription Factor Binding Profiles
-
Sandelin, A., Alkema, W., Engstrom, P., Wasserman, W., and Lenhard, B. (2004), "JASPAR: An Open Access Database for Eukaryotic Transcription Factor Binding Profiles," Nucleic Acids Research, 32, D91-D94.
-
(2004)
Nucleic Acids Research
, vol.32
-
-
Sandelin, A.1
Alkema, W.2
Engstrom, P.3
Wasserman, W.4
Lenhard, B.5
-
25
-
-
0025008168
-
Sequence Logos: A New Way to Display Consensus Sequences
-
Schneider, T. D., and Stephens, R. M. (1990), "Sequence Logos: A New Way to Display Consensus Sequences," Nucleic Acids Research, 18, 6097-6100.
-
(1990)
Nucleic Acids Research
, vol.18
, pp. 6097-6100
-
-
Schneider, T.D.1
Stephens, R.M.2
-
26
-
-
13844275301
-
Similarity of Position Frequency Matrices for Transcription Factor Binding Sites
-
Schones, D., Sumazin, P., and Zhang, M. (2005), "Similarity of Position Frequency Matrices for Transcription Factor Binding Sites," Bioinformatics, 21, 307-313.
-
(2005)
Bioinformatics
, vol.21
, pp. 307-313
-
-
Schones, D.1
Sumazin, P.2
Zhang, M.3
-
27
-
-
0033976586
-
TRANSFAC: An Integrated System for Gene Expression Regulation
-
Wingender, E., Chen, X., Hehl, R., Karas, H., Liebich, I., Matys, V., Meinhardt, T., Pruss, M., Reuter, I., and Schacherer, F. (2000), "TRANSFAC: An Integrated System for Gene Expression Regulation," Nucleic Acids Research, 28, 316-319.
-
(2000)
Nucleic Acids Research
, vol.28
, pp. 316-319
-
-
Wingender, E.1
Chen, X.2
Hehl, R.3
Karas, H.4
Liebich, I.5
Matys, V.6
Meinhardt, T.7
Pruss, M.8
Reuter, I.9
Schacherer, F.10
|