-
1
-
-
0037425623
-
Periodic Transcription: A Cycle within a Cycle
-
10.1016/S0960-9822(02)01386-6
-
Breeden LL Periodic Transcription: A Cycle within a Cycle Curr Biol 2003, 13:R34-R38 10.1016/S0960-9822(02)01386-6
-
(2003)
Curr Biol
, vol.13
-
-
Breeden, L.L.1
-
2
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization
-
25624 9843569
-
Spellman PT Sherlock G Zhang MQ Iyer KA Eisen MB Brown PO Botstein D Futcher B Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization Mol Biol Cell 1998, 9:3273-3297 25624 9843569
-
(1998)
Mol Biol Cell
, vol.9
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
Iyer, K.A.4
Eisen, M.B.5
Brown, P.O.6
Botstein, D.7
Futcher, B.8
-
3
-
-
0036628541
-
Analysis of cell-cycle gene expression in Saccharomyces cerevisiae using microarrays and multiple synchronization methods
-
117069 12087178 10.1093/nar/gkf414
-
Shedden K Cooper S Analysis of cell-cycle gene expression in Saccharomyces cerevisiae using microarrays and multiple synchronization methods Nucleic Acids Res 2002, 30:2920-2929 117069 12087178 10.1093/nar/ gkf414
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 2920-2929
-
-
Shedden, K.1
Cooper, S.2
-
4
-
-
0034785443
-
Identifying regulatory networks by combinatorial analysis of promoter elements
-
10.1038/ng724 11547334
-
Pilpel Y Sudarsanam P Church GM Identifying regulatory networks by combinatorial analysis of promoter elements Nature Genet 2001, 29:153-159 10.1038/ng724 11547334
-
(2001)
Nature Genet
, vol.29
, pp. 153-159
-
-
Pilpel, Y.1
Sudarsanam, P.2
Church, G.M.3
-
5
-
-
2442446708
-
Genome-wide discovery of transcriptional modules from DNA sequences and gene expression
-
10.1093/bioinformatics/btg1038
-
Segal E Yelensky R Koller D Genome-wide discovery of transcriptional modules from DNA sequences and gene expression Bioinformatics 2003, 19:273-282 10.1093/bioinformatics/btg1038
-
(2003)
Bioinformatics
, vol.19
, pp. 273-282
-
-
Segal, E.1
Yelensky, R.2
Koller, D.3
-
6
-
-
1942453302
-
Predicting gene expression from sequence
-
10.1016/S0092-8674(04)00304-6 15084257
-
Beer MA Tavazoie S Predicting gene expression from sequence Cell 2004, 117:185-198 10.1016/S0092-8674(04)00304-6 15084257
-
(2004)
Cell
, vol.117
, pp. 185-198
-
-
Beer, M.A.1
Tavazoie, S.2
-
10
-
-
0345099564
-
Identifying cooperativity among transcription factors controlling the cell cycle in yeast
-
290262 14627835 10.1093/nar/gkg894
-
Banerjee N Zhang MQ Identifying cooperativity among transcription factors controlling the cell cycle in yeast Nucleic Acids Res 2003, 31:7024-7031 290262 14627835 10.1093/nar/gkg894
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 7024-7031
-
-
Banerjee, N.1
Zhang, M.Q.2
-
11
-
-
10744226222
-
Computational discovery of gene modules and regulatory networks
-
10.1038/nbt890 14555958
-
Bar-Joseph Z Gerber GK Lee TI Rinaldi NJ Yoo JY Robert F Gordon DB Fraenkel E Jaakkola TS Young RA Gifford DK Computational discovery of gene modules and regulatory networks Nat Biotechnol 2003, 21:1337-1342 10.1038/nbt890 14555958
-
(2003)
Nat Biotechnol
, vol.21
, pp. 1337-1342
-
-
Bar-Joseph, Z.1
Gerber, G.K.2
Lee, T.I.3
Rinaldi, N.J.4
Yoo, J.Y.5
Robert, F.6
Gordon, D.B.7
Fraenkel, E.8
Jaakkola, T.S.9
Young, R.A.10
Gifford, D.K.11
-
12
-
-
13544254744
-
Identifying combinatorial regulation of transcription factors and binding motifs
-
507881 15287978 10.1186/gb-2004-5-8-r56
-
Kato M Hata N Banerjee N Futcher B Zhang MQ Identifying combinatorial regulation of transcription factors and binding motifs Genome Biol 2004, 5:R56 507881 15287978 10.1186/gb-2004-5-8-r56
-
(2004)
Genome Biol
, vol.5
-
-
Kato, M.1
Hata, N.2
Banerjee, N.3
Futcher, B.4
Zhang, M.Q.5
-
13
-
-
27544453864
-
Genome-wide decoding of hierarchical modular structure of transcriptional regulation by cis-element and expression clustering
-
10.1093/bioinformatics/bti1131
-
Leyfer D Weng Z Genome-wide decoding of hierarchical modular structure of transcriptional regulation by cis-element and expression clustering Bioinformatics 2005, 21:iIl97-ii203 10.1093/bioinformatics/bti1131
-
(2005)
Bioinformatics
, vol.21
-
-
Leyfer, D.1
Weng, Z.2
-
14
-
-
0034069495
-
Gene Ontology: Tool for the unification of biology
-
10.1038/75556 10802651
-
Ashburner M Ball CA Blake JA Botstein D Butler H Cherry JM Davis AP Dolinski K Dwight SS Eppig JT Harris MA Hill DP Issel-Tarver L Kasarskis A Lewis S Matese JC Richardson JE Ringwald M Rubin GM Sherlock G Gene Ontology: Tool for the unification of biology Nature Genet 2000, 25:25-29 10.1038/75556 10802651
-
(2000)
Nature Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
15
-
-
0037174671
-
Transcriptional Regulatory Networks in Saccharomyces Cerevisiae
-
10.1126/science.1075090 12399584
-
Lee TI Rinaldi NJ Robert F Odom DT Bar-Joseph Z Gerber GK Hannett NM Harbison CT Thompson CM Simon I Zeitlinger J Jennings EG Murray HL Gordon DB Ren B Wyrick JJ Tagne JB Volkert TL Fraenkel E Gifford DK Young RA Transcriptional Regulatory Networks in Saccharomyces Cerevisiae Science 2002, 298:799-804 10.1126/science.1075090 12399584
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
Odom, D.T.4
Bar-Joseph, Z.5
Gerber, G.K.6
Hannett, N.M.7
Harbison, C.T.8
Thompson, C.M.9
Simon, I.10
Zeitlinger, J.11
Jennings, E.G.12
Murray, H.L.13
Gordon, D.B.14
Ren, B.15
Wyrick, J.J.16
Tagne, J.B.17
Volkert, T.L.18
Fraenkel, E.19
Gifford, D.K.20
Young, R.A.21
more..
-
16
-
-
4544352942
-
Transcriptional regulatory code of a eukaryotic genome
-
10.1038/nature02800 15343339
-
Harbison CT Gordon DB Lee TI Rinaldi NJ Macisaac KD Danford TW Hannett NM Tagne JB Reynolds DB Yoo J Jennings EG Zeitlinger J Pokholok DK Kellis M Rolfe PA Takusagawa KT Lander ES Gifford DK Fraenkel E Young RA Transcriptional regulatory code of a eukaryotic genome Nature 2004, 431:99-104 10.1038/nature02800 15343339
-
(2004)
Nature
, vol.431
, pp. 99-104
-
-
Harbison, C.T.1
Gordon, D.B.2
Lee, T.I.3
Rinaldi, N.J.4
Macisaac, K.D.5
Danford, T.W.6
Hannett, N.M.7
Tagne, J.B.8
Reynolds, D.B.9
Yoo, J.10
Jennings, E.G.11
Zeitlinger, J.12
Pokholok, D.K.13
Kellis, M.14
Rolfe, P.A.15
Takusagawa, K.T.16
Lander, E.S.17
Gifford, D.K.18
Fraenkel, E.19
Young, R.A.20
more..
-
17
-
-
0037941585
-
Module networks: Identifying regulatory modules and their condition-specific regulators from gene expression data
-
12740579
-
Segal E Shapira M Regev A Pe'er D Botstein D Koller D Friedman N Module networks: Identifying regulatory modules and their condition-specific regulators from gene expression data Nature Genet 2003, 34:166-176 12740579
-
(2003)
Nature Genet
, vol.34
, pp. 166-176
-
-
Segal, E.1
Shapira, M.2
Regev, A.3
Pe'er, D.4
Botstein, D.5
Koller, D.6
Friedman, N.7
-
18
-
-
27544474147
-
Computational discovery of transcriptional regulatory rules
-
10.1093/bioinformatics/bti1117 16204087
-
Pham TH Clemente JC Satou K Ho TB Computational discovery of transcriptional regulatory rules Bioinformatics 2005, 21(Suppl 2):iI101-ii107 10.1093/bioinformatics/bti1117 16204087
-
(2005)
Bioinformatics
, vol.21
, Issue.SUPPL. 2
-
-
Pham, T.H.1
Clemente, J.C.2
Satou, K.3
Ho, T.B.4
-
19
-
-
33645241609
-
Bayesian detection of periodic mRNA time profiles without use of training examples
-
1413563 16469110 10.1186/1471-2105-7-63
-
Andersson CR Isaksson A Gustafsson MG Bayesian detection of periodic mRNA time profiles without use of training examples BMC Bioinformatics 2006, 7:63 1413563 16469110 10.1186/1471-2105-7-63
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 63
-
-
Andersson, C.R.1
Isaksson, A.2
Gustafsson, M.G.3
-
20
-
-
14844285655
-
Comparison of computational methods for the identification of cell cycle regulated genes
-
10.1093/bioinformatics/bti093 15513999
-
de Licthenberg U Jensen LJ Fausboll A Jensen TS Bork P Brunak S Comparison of computational methods for the identification of cell cycle regulated genes Bioinformatics 2004, 21:1164-1171 10.1093/bioinformatics/ bti093 15513999
-
(2004)
Bioinformatics
, vol.21
, pp. 1164-1171
-
-
de Licthenberg, U.1
Jensen, L.J.2
Fausboll, A.3
Jensen, T.S.4
Bork, P.5
Brunak, S.6
-
21
-
-
33645743420
-
The more the merrier: Comparative analysis of microarray studies on cell cycle-regulated genes in fission yeast
-
1828074 16544289 10.1002/yea.1351
-
Marguerat S Jensen TS de Lichtenberg U Wilhelm BT Jensen LJ Bahler J The more the merrier: Comparative analysis of microarray studies on cell cycle-regulated genes in fission yeast Yeast 2006, 23:261-277 1828074 16544289 10.1002/yea.1351
-
(2006)
Yeast
, vol.23
, pp. 261-277
-
-
Marguerat, S.1
Jensen, T.S.2
de Lichtenberg, U.3
Wilhelm, B.T.4
Jensen, L.J.5
Bahler, J.6
-
22
-
-
0034628901
-
Computational Identification of Cis-regulatory Elements Associated with Groups of Functionally Related Genes in Saccharomyces cerevisiae
-
10.1006/jmbi.2000.3519 10698627
-
Hughes JD Estep PW Tavazoie S Church GM Computational Identification of Cis-regulatory Elements Associated with Groups of Functionally Related Genes in Saccharomyces cerevisiae J Mol Biol 2000, 296:1205-1214 10.1006/ jmbi.2000.3519 10698627
-
(2000)
J Mol Biol
, vol.296
, pp. 1205-1214
-
-
Hughes, J.D.1
Estep, P.W.2
Tavazoie, S.3
Church, G.M.4
-
23
-
-
0027501142
-
A role for the transcription factors Mbpl and Swi4 in progresison from G1 to S phase
-
10.1126/science.8372350 8372350
-
Koch C Moll T Neuberg M Ahorn H Nasmyth K A role for the transcription factors Mbpl and Swi4 in progresison from G1 to S phase Science 1993, 261:1551-7 10.1126/science.8372350 8372350
-
(1993)
Science
, vol.261
, pp. 1551-1557
-
-
Koch, C.1
Moll, T.2
Neuberg, M.3
Ahorn, H.4
Nasmyth, K.5
-
25
-
-
19544393245
-
Robust inference of groups in gene expression time-courses using mixtures of HMMs
-
Schliep A Steinhoff C Schonhuth A Robust inference of groups in gene expression time-courses using mixtures of HMMs Bioinformatics 2004, 20(Suppl 1):283-289 10.1093/bioinformatics/bth937
-
(2004)
Bioinformatics
, vol.20
, Issue.SUPPL. 1
, pp. 283-289
-
-
Schliep, A.1
Steinhoff, C.2
Schonhuth, A.3
-
26
-
-
26444501081
-
Statistical methods for identifying yeast cell cycle transcription factors
-
10.1073/pnas.0505874102
-
Tsai HK Lu HH Li WH Statistical methods for identifying yeast cell cycle transcription factors Proc NatlAcad Sci USA 2005, 102:13532-13537 10.1073/pnas.0505874102
-
(2005)
Proc NatlAcad Sci USA
, vol.102
, pp. 13532-13537
-
-
Tsai, H.K.1
Lu, H.H.2
Li, W.H.3
-
27
-
-
0032808002
-
Synchronization of yeast cell populations
-
10.1023/A:1009824520278 10728641
-
Wagner GM Synchronization of yeast cell populations Methods Cell Sci 1999, 21:87-93 10.1023/A:1009824520278 10728641
-
(1999)
Methods Cell Sci
, vol.21
, pp. 87-93
-
-
Wagner, G.M.1
-
28
-
-
1242326890
-
CREME: A framework for identifying cis-regulatory modules in human-mouse conserved segments
-
10.1093/bioinformatics/btg1039 12855471
-
Sharan R Ovcharenko I Ben-Hur A Karp RM CREME: A framework for identifying cis-regulatory modules in human-mouse conserved segments Bioinformatics 2003, 19(Suppl 1):i283-i291 10.1093/bioinformatics/ btg1039 12855471
-
(2003)
Bioinformatics
, vol.19
, Issue.SUPPL. 1
-
-
Sharan, R.1
Ovcharenko, I.2
Ben-Hur, A.3
Karp, R.M.4
-
31
-
-
57749110329
-
Rough sets: Theoretical aspects of reasoning about data
-
Dordrecht: Kluwer Academic Publishers
-
Pawlak Z Rough sets: Theoretical aspects of reasoning about data Theory and decision library, Series D, System theory, knowledge engineering, and problem solving Dordrecht: Kluwer Academic Publishers 1991:1-229
-
(1991)
Theory and Decision Library, Series D, System Theory, Knowledge Engineering, and Problem Solving
, pp. 1-229
-
-
Pawlak, Z.1
-
33
-
-
0001206731
-
Minimal approximate hitting sets and rule templates
-
10.1016/S0888-613X(00)00051-7
-
Vinterbo S Øhrn A Minimal approximate hitting sets and rule templates International Journal of Approximate Reasoning 2000, 25:123-143 10.1016/S0888-613X(00)00051-7
-
(2000)
International Journal of Approximate Reasoning
, vol.25
, pp. 123-143
-
-
Vinterbo, S.1
Øhrn, A.2
|