-
1
-
-
34047111213
-
Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome
-
Albert,I. et al. (2007) Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome. Nature 446, 572-576.
-
(2007)
Nature
, vol.446
, pp. 572-576
-
-
Albert, I.1
-
2
-
-
34249026300
-
High-resolution profiling of histone methylations in the human genome
-
Barski,A. et al. (2007) High-resolution profiling of histone methylations in the human genome. Cell, 129, 823-837.
-
(2007)
Cell
, vol.129
, pp. 823-837
-
-
Barski, A.1
-
3
-
-
1942453302
-
Predicting gene expression from sequence
-
Beer,M.A. and Tavazoie,S. (2004) Predicting gene expression from sequence. Cell, 117, 185-198.
-
(2004)
Cell
, vol.117
, pp. 185-198
-
-
Beer, M.A.1
Tavazoie, S.2
-
4
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini,Y. and Hochberg,Y. (1995) Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B, 57, 289-300.
-
(1995)
J. R. Stat. Soc. Ser. B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
5
-
-
0037172993
-
Methylation of histone H3 Lys 4 in coding regions of active genes
-
Bernstein,B.E. et al. (2002) Methylation of histone H3 Lys 4 in coding regions of active genes. Proc. Natl Acad. Sci. USA, 99 8695-8700.
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 8695-8700
-
-
Bernstein, B.E.1
-
6
-
-
8444245244
-
Global nucleosome occupancy in yeast
-
Bernstein,B.E. et al. (2004) Global nucleosome occupancy in yeast. Genome Biol., 5, R62.
-
(2004)
Genome Biol
, vol.5
-
-
Bernstein, B.E.1
-
7
-
-
0035135420
-
Regulatory element detection using correlation with expression
-
Bussemaker,H.J. et al. (2001) Regulatory element detection using correlation with expression. Nat. Genet., 27, 167-171.
-
(2001)
Nat. Genet
, vol.27
, pp. 167-171
-
-
Bussemaker, H.J.1
-
8
-
-
0037453009
-
Integrating regulatory motif discovery and genome-wide expression analysis
-
Conlon,E.M. et al. (2003) Integrating regulatory motif discovery and genome-wide expression analysis. Proc. Natl Acad. Sci. USA, 100, 3339-3344.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 3339-3344
-
-
Conlon, E.M.1
-
9
-
-
63449135035
-
Gene expression divergence in yeast is coupled to evolution of DNA-encoded nucleosome organization
-
Field,Y. et al. (2009) Gene expression divergence in yeast is coupled to evolution of DNA-encoded nucleosome organization. Nat. Genet., 41, 438-445.
-
(2009)
Nat. Genet
, vol.41
, pp. 438-445
-
-
Field, Y.1
-
10
-
-
0942290537
-
Acf1 confers unique activities to ACF/ CHRAC and promotes the formation rather than disruption of chromatin in vivo
-
Fyodorov,D.V. et al. (2004) Acf1 confers unique activities to ACF/ CHRAC and promotes the formation rather than disruption of chromatin in vivo. Genes Dev., 18, 170-183.
-
(2004)
Genes Dev
, vol.18
, pp. 170-183
-
-
Fyodorov, D.V.1
-
11
-
-
33847076248
-
Chromatin challenges during DNA replication and repair
-
Groth,A.et al. (2007) Chromatin challenges during DNA replication and repair. Cell, 128, 721-733.
-
(2007)
Cell
, vol.128
, pp. 721-733
-
-
Groth, A.1
-
12
-
-
33749153628
-
Nucleosome positions predicted through comparative genomics
-
Ioshikhes,I.P. et al. (2006) Nucleosome positions predicted through comparative genomics. Nat. Genet., 38, 1210-1215.
-
(2006)
Nat. Genet
, vol.38
, pp. 1210-1215
-
-
Ioshikhes, I.P.1
-
13
-
-
0031444148
-
ACF, an ISWI-containing and ATP-utilizing chromatin assembly and remodeling factor
-
Ito,T. et al. (1997)ACF, an ISWI-containing and ATP-utilizing chromatin assembly and remodeling factor. Cell, 90, 145-155.
-
(1997)
Cell
, vol.90
, pp. 145-155
-
-
Ito, T.1
-
14
-
-
62649085538
-
The DNA-encoded nucleosome organization of a eukaryotic genome
-
Kaplan,N. et al. (2009) The DNA-encoded nucleosome organization of a eukaryotic genome. Nature, 458, 362-366.
-
(2009)
Nature
, vol.458
, pp. 362-366
-
-
Kaplan, N.1
-
15
-
-
0016221697
-
Chromatin structure: A repeating unit of histones and DNA
-
Kornberg,R.D. (1974) Chromatin structure: A repeating unit of histones and DNA. Science, 184, 868-871.
-
(1974)
Science
, vol.184
, pp. 868-871
-
-
Kornberg, R.D.1
-
16
-
-
0033529565
-
Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome
-
Kornberg,R.D. and Lorch,Y. (1999) Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome. Cell, 98, 285-294.
-
(1999)
Cell
, vol.98
, pp. 285-294
-
-
Kornberg, R.D.1
Lorch, Y.2
-
17
-
-
2942518343
-
Mapping global histone acetylation patterns to gene expression
-
Kurdistani,S.K. et al. (2004) Mapping global histone acetylation patterns to gene expression. Cell, 117, 721-733.
-
(2004)
Cell
, vol.117
, pp. 721-733
-
-
Kurdistani, S.K.1
-
18
-
-
3543023310
-
Evidence for nucleosome depletion at active regulatory regions genome-wide
-
Lee,C.K. et al. (2004) Evidence for nucleosome depletion at active regulatory regions genome-wide. Nat. Genet., 36, 900-905.
-
(2004)
Nat. Genet
, vol.36
, pp. 900-905
-
-
Lee, C.K.1
-
19
-
-
34748826166
-
A high-resolution atlas of nucleosome occupancy in yeast
-
Lee,W. et al. (2007) A high-resolution atlas of nucleosome occupancy in yeast. Nat. Genet., 39, 1235-1244.
-
(2007)
Nat. Genet
, vol.39
, pp. 1235-1244
-
-
Lee, W.1
-
20
-
-
33645769260
-
An improved map of conserved regulatory sites for Saccharomyces cerevisiae
-
MacIsaac,K.D. et al. (2006) An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics, 7, 113.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 113
-
-
MacIsaac, K.D.1
-
21
-
-
46449112319
-
A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
-
Mavrich,T.N. et al. (2008) A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome. Genome Res, 18, 1073-1083.
-
(2008)
Genome Res
, vol.18
, pp. 1073-1083
-
-
Mavrich, T.N.1
-
22
-
-
0020645755
-
Higher order structure of chromatin: Orientation of nucleosomes within the 30 nm chromatin solenoid is independent of species and spacer length
-
McGhee,J.D. et al. (1983) Higher order structure of chromatin: orientation of nucleosomes within the 30 nm chromatin solenoid is independent of species and spacer length. Cell, 33, 831-841.
-
(1983)
Cell
, vol.33
, pp. 831-841
-
-
McGhee, J.D.1
-
23
-
-
33645002813
-
Acetylation of H2AZ Lys 14 is associated with genome-wide gene activity in yeast
-
Millar,C.B. et al. (2006) Acetylation of H2AZ Lys 14 is associated with genome-wide gene activity in yeast. Genes Dev., 20, 711-722.
-
(2006)
Genes Dev
, vol.20
, pp. 711-722
-
-
Millar, C.B.1
-
24
-
-
34547909911
-
ChromatinDB: A database of genome-wide histone modification patterns for Saccharomyces cerevisiae
-
O'Connor,T.R. and Wyrick,J.J. (2007) ChromatinDB: A database of genome-wide histone modification patterns for Saccharomyces cerevisiae. Bioinformatics, 23, 1828-1830.
-
(2007)
Bioinformatics
, vol.23
, pp. 1828-1830
-
-
O'Connor, T.R.1
Wyrick, J.J.2
-
25
-
-
33846862405
-
High-throughput mapping of the chromatin structure of human promoters
-
Ozsolak,F. et al. (2007) High-throughput mapping of the chromatin structure of human promoters. Nat. Biotechnol., 25, 244-248.
-
(2007)
Nat. Biotechnol
, vol.25
, pp. 244-248
-
-
Ozsolak, F.1
-
26
-
-
34547643563
-
Nucleosome positioning signals in genomic DNA
-
Peckham,H.E. et al. (2007) Nucleosome positioning signals in genomic DNA. Genome Res., 17, 1170-1177.
-
(2007)
Genome Res
, vol.17
, pp. 1170-1177
-
-
Peckham, H.E.1
-
27
-
-
0028547556
-
Floating search methods in feature selection
-
Pudil,P. et al. (1994) Floating search methods in feature selection. Pattern Recognit. Lett, 15, 1119-1125.
-
(1994)
Pattern Recognit. Lett
, vol.15
, pp. 1119-1125
-
-
Pudil, P.1
-
28
-
-
27144458417
-
Dimethylation of histone H3 at lysine 36 demarcates regulatory and nonregulatory chromatin genome-wide
-
Rao,B. et al. (2005) Dimethylation of histone H3 at lysine 36 demarcates regulatory and nonregulatory chromatin genome-wide. Mol. Cell. Biol., 25, 9447-9459.
-
(2005)
Mol. Cell. Biol
, vol.25
, pp. 9447-9459
-
-
Rao, B.1
-
29
-
-
0037992395
-
The structure of DNA in the nucleosome core
-
Richmond,T.J. and Davey,C.A. (2003) The structure of DNA in the nucleosome core. Nature, 423, 145-150.
-
(2003)
Nature
, vol.423
, pp. 145-150
-
-
Richmond, T.J.1
Davey, C.A.2
-
30
-
-
33747500567
-
A genomic code for nucleosome positioning
-
Segal,E. et al. (2006) A genomic code for nucleosome positioning. Nature, 442, 772-778.
-
(2006)
Nature
, vol.442
, pp. 772-778
-
-
Segal, E.1
-
31
-
-
11944262819
-
Multiple hypothesis testing
-
Shaffer,J.P. (1995) Multiple hypothesis testing. Ann. Rev. Psychol. 46, 561-584.
-
(1995)
Ann. Rev. Psychol
, vol.46
, pp. 561-584
-
-
Shaffer, J.P.1
-
32
-
-
41749091787
-
Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation
-
Shivaswamy,S. et al. (2008) Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation. PLoS Biol., 6, e65.
-
(2008)
PLoS Biol
, vol.6
-
-
Shivaswamy, S.1
-
33
-
-
33646580422
-
DNA motifs in human and mouse proximal promoters predict tissue-specific expression
-
Smith,A.D. et al. (2006) DNA motifs in human and mouse proximal promoters predict tissue-specific expression. Proc. Natl Acad. Sci. USA, 103, 6275-6280.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 6275-6280
-
-
Smith, A.D.1
-
34
-
-
0033558873
-
Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae
-
Tsukiyama,T. et al. (1999) Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae. Genes Dev., 13, 686-697.
-
(1999)
Genes Dev
, vol.13
, pp. 686-697
-
-
Tsukiyama, T.1
-
35
-
-
37249077649
-
Chromatin remodelling at promoters suppresses antisense transcription
-
Whitehouse,I. et al. (2007) Chromatin remodelling at promoters suppresses antisense transcription. Nature, 450, 1031-1035.
-
(2007)
Nature
, vol.450
, pp. 1031-1035
-
-
Whitehouse, I.1
-
36
-
-
0022273023
-
Structure of the 300A chromatin filament: X-ray diffraction from oriented samples
-
Widom,J. and Klug,A. (1985) Structure of the 300A chromatin filament: X-ray diffraction from oriented samples. Cell, 43, 207-213.
-
(1985)
Cell
, vol.43
, pp. 207-213
-
-
Widom, J.1
Klug, A.2
-
37
-
-
18844413266
-
Acetylation in histone H3 globular domain regulates gene expression in yeast
-
Xu,F. et al. (2005) Acetylation in histone H3 globular domain regulates gene expression in yeast. Cell, 121, 375-385.
-
(2005)
Cell
, vol.121
, pp. 375-385
-
-
Xu, F.1
-
38
-
-
33845356072
-
The chromatin-remodeling enzyme ACF is an ATP-dependent DNA length sensor that regulates nucleosome spacing
-
Yang,J.G. et al. (2006) The chromatin-remodeling enzyme ACF is an ATP-dependent DNA length sensor that regulates nucleosome spacing. Nat. Struct. Mol. Biol., 13, 1078-1083.
-
(2006)
Nat. Struct. Mol. Biol
, vol.13
, pp. 1078-1083
-
-
Yang, J.G.1
-
39
-
-
38949204996
-
Genomic sequence is highly predictive of local nucleosome depletion
-
Yuan,G.C. and Liu,J.S. (2008) Genomic sequence is highly predictive of local nucleosome depletion. PLoS Comput. Biol., 4, e13.
-
(2008)
PLoS Comput. Biol
, vol.4
-
-
Yuan, G.C.1
Liu, J.S.2
-
40
-
-
22744432660
-
Genome-scale identification of nucleosome positions in S. cerevisiae
-
Yuan,G.C. et al. (2005) Genome-scale identification of nucleosome positions in S. cerevisiae. Science, 309, 626-630.
-
(2005)
Science
, vol.309
, pp. 626-630
-
-
Yuan, G.C.1
-
41
-
-
33748753680
-
Statistical assessment of the global regulatory role of histone acetylation in Saccharomyces cerevisiae
-
Yuan,G.C. et al. (2006) Statistical assessment of the global regulatory role of histone acetylation in Saccharomyces cerevisiae. Genome Biol., 7, R70.
-
(2006)
Genome Biol
, vol.7
-
-
Yuan, G.C.1
-
42
-
-
26844489856
-
Genome-wide dynamics of Htz1, a histone H2A variant that poises repressed/basal promoters for activation through histone loss
-
Zhang,H. et al. (2005) Genome-wide dynamics of Htz1, a histone H2A variant that poises repressed/basal promoters for activation through histone loss. Cell, 123, 219-231.
-
(2005)
Cell
, vol.123
, pp. 219-231
-
-
Zhang, H.1
|