-
1
-
-
0016211838
-
Chromatin structure: Oligomers of the histones
-
2-s2.0-0016211838
-
Kornberg R. D., Thomas J. O., Chromatin structure: oligomers of the histones. Science 1974 184 4139 865 868 2-s2.0-0016211838
-
(1974)
Science
, vol.184
, Issue.4139
, pp. 865-868
-
-
Kornberg, R.D.1
Thomas, J.O.2
-
2
-
-
33847070442
-
The role of chromatin during transcription
-
DOI 10.1016/j.cell.2007.01.015, PII S0092867407001092
-
Li B., Carey M., Workman J. L., The Role of chromatin during transcription. Cell 2007 128 4 707 719 2-s2.0-33847070442 10.1016/j.cell.2007. 01.015 (Pubitemid 46273570)
-
(2007)
Cell
, vol.128
, Issue.4
, pp. 707-719
-
-
Li, B.1
Carey, M.2
Workman, J.L.3
-
3
-
-
44349158515
-
A glimpse into the epigenetic landscape of gene regulation
-
DOI 10.1016/j.gde.2007.12.005, PII S0959437X07002146
-
Mellor J., Dudek P., Clynes D., A glimpse into the epigenetic landscape of gene regulation. Current Opinion in Genetics and Development 2008 18 2 116 122 2-s2.0-44349158515 10.1016/j.gde.2007.12.005 (Pubitemid 351749814)
-
(2008)
Current Opinion in Genetics and Development
, vol.18
, Issue.2
, pp. 116-122
-
-
Mellor, J.1
Dudek, P.2
Clynes, D.3
-
4
-
-
23944462969
-
Genome-wide map of nucleosome acetylation and methylation in yeast
-
DOI 10.1016/j.cell.2005.06.026, PII S0092867405006458
-
Pokholok D. K., Harbison C. T., Levine S., Cole M., Hannett N. M., Tong I. L., Bell G. W., Walker K., Rolfe P. A., Herbolsheimer E., Zeitlinger J., Lewitter F., Gifford D. K., Young R. A., Genome-wide map of nucleosome acetylation and methylation in yeast. Cell 2005 122 4 517 527 2-s2.0-23944462969 10.1016/j.cell.2005.06.026 (Pubitemid 41191151)
-
(2005)
Cell
, vol.122
, Issue.4
, pp. 517-527
-
-
Pokholok, D.K.1
Harbison, C.T.2
Levine, S.3
Cole, M.4
Hannett, N.M.5
Tong, I.L.6
Bell, G.W.7
Walker, K.8
Rolfe, P.A.9
Herbolsheimer, E.10
Zeitlinger, J.11
Lewitter, F.12
Gifford, D.K.13
Young, R.A.14
-
5
-
-
29144468972
-
Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to pol II elongation
-
DOI 10.1016/j.molcel.2005.11.021, PII S1097276505018083
-
Joshi A. A., Struhl K., Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to pol II elongation. Molecular Cell 2005 20 6 971 978 2-s2.0-29144468972 10.1016/j.molcel.2005.11.021 (Pubitemid 41814885)
-
(2005)
Molecular Cell
, vol.20
, Issue.6
, pp. 971-978
-
-
Joshi, A.A.1
Struhl, K.2
-
6
-
-
79952264847
-
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
-
2-s2.0-79952264847 10.1038/nature09798
-
Lister R., Pelizzola M., Kida Y. S., Hawkins R. D., Nery J. R., Hon G., Antosiewicz-Bourget J., Ogmalley R., Castanon R., Klugman S., Downes M., Yu R., Stewart R., Ren B., Thomson J. A., Evans R. M., Ecker J. R., Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells. Nature 2011 471 7336 68 73 2-s2.0-79952264847 10.1038/nature09798
-
(2011)
Nature
, vol.471
, Issue.7336
, pp. 68-73
-
-
Lister, R.1
Pelizzola, M.2
Kida, Y.S.3
Hawkins, R.D.4
Nery, J.R.5
Hon, G.6
Antosiewicz-Bourget, J.7
Ogmalley, R.8
Castanon, R.9
Klugman, S.10
Downes, M.11
Yu, R.12
Stewart, R.13
Ren, B.14
Thomson, J.A.15
Evans, R.M.16
Ecker, J.R.17
-
7
-
-
67649305191
-
Epigenetics in cancer: Targeting chromatin modifications
-
2-s2.0-67649305191 10.1158/1535-7163.MCT-08-0860
-
Ellis L., Atadja P. W., Johnstone R. W., Epigenetics in cancer: targeting chromatin modifications. Molecular Cancer Therapeutics 2009 8 6 1409 1420 2-s2.0-67649305191 10.1158/1535-7163.MCT-08-0860
-
(2009)
Molecular Cancer Therapeutics
, vol.8
, Issue.6
, pp. 1409-1420
-
-
Ellis, L.1
Atadja, P.W.2
Johnstone, R.W.3
-
8
-
-
77957366305
-
DNA methylation and cancer
-
2-s2.0-77957366305 10.1016/B978-0-12-380866-0.60002-2
-
Kulis M., Esteller M., DNA methylation and cancer. Advances in Genetics 2010 70 27 56 2-s2.0-77957366305 10.1016/B978-0-12-380866-0.60002-2
-
(2010)
Advances in Genetics
, vol.70
, pp. 27-56
-
-
Kulis, M.1
Esteller, M.2
-
9
-
-
0035839136
-
Translating the histone code
-
DOI 10.1126/science.1063127
-
Jenuwein T., Allis C. D., Translating the histone code. Science 2001 293 5532 1074 1080 2-s2.0-0035839136 10.1126/science.1063127 (Pubitemid 32758077)
-
(2001)
Science
, vol.293
, Issue.5532
, pp. 1074-1080
-
-
Jenuwein, T.1
Allis, C.D.2
-
10
-
-
34249026300
-
High-resolution profiling of histone methylations in the human genome
-
DOI 10.1016/j.cell.2007.05.009, PII S0092867407006009
-
Barski A., Cuddapah S., Cui K., Roh T. Y., Schones D. E., Wang Z., Wei G., Chepelev I., Zhao K., High-resolution profiling of histone methylations in the human genome. Cell 2007 129 4 823 837 2-s2.0-34249026300 10.1016/j.cell.2007.05.009 (Pubitemid 46802390)
-
(2007)
Cell
, vol.129
, Issue.4
, pp. 823-837
-
-
Barski, A.1
Cuddapah, S.2
Cui, K.3
Roh, T.-Y.4
Schones, D.E.5
Wang, Z.6
Wei, G.7
Chepelev, I.8
Zhao, K.9
-
11
-
-
48949099045
-
Inferring causal relationships among different histone modifications and gene expression
-
2-s2.0-48949099045 10.1101/gr.073080.107
-
Yu H., Zhu S., Zhou B., Xue H., Han J. D. J., Inferring causal relationships among different histone modifications and gene expression. Genome Research 2008 18 8 1314 1324 2-s2.0-48949099045 10.1101/gr.073080.107
-
(2008)
Genome Research
, vol.18
, Issue.8
, pp. 1314-1324
-
-
Yu, H.1
Zhu, S.2
Zhou, B.3
Xue, H.4
Han, J.D.J.5
-
12
-
-
55549118625
-
ChromaSig: A probabilistic approach to finding common chromatin signatures in the human genome
-
ARTICLE E1000201 2-s2.0-55549118625 10.1371/journal.pcbi.1000201
-
Hon G., Ren B., Wang W., ChromaSig: a probabilistic approach to finding common chromatin signatures in the human genome. PLoS Computational Biology 2008 4 10, article e1000201 2-s2.0-55549118625 10.1371/journal.pcbi.1000201
-
(2008)
PLoS Computational Biology
, vol.4
, Issue.10
-
-
Hon, G.1
Ren, B.2
Wang, W.3
-
13
-
-
75649124196
-
Bayesian network analysis of targeting interactions in chromatin
-
2-s2.0-75649124196 10.1101/gr.098822.109
-
Van Steensel B., Braunschweig U., Filion G. J., Chen M., Van Bemmel J. G., Ideker T., Bayesian network analysis of targeting interactions in chromatin. Genome Research 2010 20 2 190 200 2-s2.0-75649124196 10.1101/gr.098822.109
-
(2010)
Genome Research
, vol.20
, Issue.2
, pp. 190-200
-
-
Van Steensel, B.1
Braunschweig, U.2
Filion, G.J.3
Chen, M.4
Van Bemmel, J.G.5
Ideker, T.6
-
14
-
-
77649246145
-
Histone modification levels are predictive for gene expression
-
2-s2.0-77649246145 10.1073/pnas.0909344107
-
Karlić R., Chung H. R., Lasserre J., Vlahoviek K., Vingron M., Histone modification levels are predictive for gene expression. Proceedings of the National Academy of Sciences of the United States of America 2010 107 7 2926 2931 2-s2.0-77649246145 10.1073/pnas.0909344107
-
(2010)
Proceedings of the National Academy of Sciences of the United States of America
, vol.107
, Issue.7
, pp. 2926-2931
-
-
Karlić, R.1
Chung, H.R.2
Lasserre, J.3
Vlahoviek, K.4
Vingron, M.5
-
15
-
-
78650747491
-
Discovery and characterization of chromatin states for systematic annotation of the human genome
-
2-s2.0-78650747491 10.1038/nbt.1662
-
Ernst J., Kellis M., Discovery and characterization of chromatin states for systematic annotation of the human genome. Nature Biotechnology 2010 28 8 817 825 2-s2.0-78650747491 10.1038/nbt.1662
-
(2010)
Nature Biotechnology
, vol.28
, Issue.8
, pp. 817-825
-
-
Ernst, J.1
Kellis, M.2
-
16
-
-
84855895602
-
Modeling the relative relationship of transcription factor binding and histone modifications to gene expression levels in mouse embryonic stem cells
-
Cheng C., Gerstein M., Modeling the relative relationship of transcription factor binding and histone modifications to gene expression levels in mouse embryonic stem cells. Nucleic Acids Research 2012 40 2 553 568
-
(2012)
Nucleic Acids Research
, vol.40
, Issue.2
, pp. 553-568
-
-
Cheng, C.1
Gerstein, M.2
-
17
-
-
79955583542
-
Mapping and analysis of chromatin state dynamics in nine human cell types
-
2-s2.0-79955583542 10.1038/nature09906
-
Ernst J., Kheradpour P., Mikkelsen T. S., Shoresh N., Ward L. D., Epstein C. B., Zhang X., Wang L., Issner R., Coyne M., Ku M., Durham T., Kellis M., Bernstein B. E., Mapping and analysis of chromatin state dynamics in nine human cell types. Nature 2011 473 7345 43 49 2-s2.0-79955583542 10.1038/nature09906
-
(2011)
Nature
, vol.473
, Issue.7345
, pp. 43-49
-
-
Ernst, J.1
Kheradpour, P.2
Mikkelsen, T.S.3
Shoresh, N.4
Ward, L.D.5
Epstein, C.B.6
Zhang, X.7
Wang, L.8
Issner, R.9
Coyne, M.10
Ku, M.11
Durham, T.12
Kellis, M.13
Bernstein, B.E.14
-
18
-
-
0035839136
-
Translating the histone code
-
DOI 10.1126/science.1063127
-
Jenuwein T., Allis C. D., Translating the histone code. Science 2001 293 5532 1074 1080 2-s2.0-0035839136 10.1126/science.1063127 (Pubitemid 32758077)
-
(2001)
Science
, vol.293
, Issue.5532
, pp. 1074-1080
-
-
Jenuwein, T.1
Allis, C.D.2
-
19
-
-
0034610814
-
The language of covalent histone modifications
-
DOI 10.1038/47412
-
Strahl B. D., Allis C. D., The language of covalent histone modifications. Nature 2000 403 6765 41 45 2-s2.0-0034610814 10.1038/47412 (Pubitemid 30038513)
-
(2000)
Nature
, vol.403
, Issue.6765
, pp. 41-45
-
-
Strahl, B.D.1
Allis, C.D.2
-
20
-
-
34547633677
-
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
-
DOI 10.1038/nmeth1068, PII NMETH1068
-
Robertson G., Hirst M., Bainbridge M., Bilenky M., Zhao Y., Zeng T., Euskirchen G., Bernier B., Varhol R., Delaney A., Thiessen N., Griffith O. L., He A., Marra M., Snyder M., Jones S., Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nature Methods 2007 4 8 651 657 2-s2.0-34547633677 10.1038/nmeth1068 (Pubitemid 47202477)
-
(2007)
Nature Methods
, vol.4
, Issue.8
, pp. 651-657
-
-
Robertson, G.1
Hirst, M.2
Bainbridge, M.3
Bilenky, M.4
Zhao, Y.5
Zeng, T.6
Euskirchen, G.7
Bernier, B.8
Varhol, R.9
Delaney, A.10
Thiessen, N.11
Griffith, O.L.12
He, A.13
Marra, M.14
Snyder, M.15
Jones, S.16
-
21
-
-
46249106990
-
Mapping and quantifying mammalian transcriptomes by RNA-Seq
-
DOI 10.1038/nmeth.1226, PII NMETH.1226
-
Mortazavi A., Williams B. A., McCue K., Schaeffer L., Wold B., Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nature Methods 2008 5 7 621 628 2-s2.0-46249106990 10.1038/nmeth.1226 (Pubitemid 351911867)
-
(2008)
Nature Methods
, vol.5
, Issue.7
, pp. 621-628
-
-
Mortazavi, A.1
Williams, B.A.2
McCue, K.3
Schaeffer, L.4
Wold, B.5
-
22
-
-
80052445151
-
Splicing enhances recruitment of methyltransferase HYPB/Setd2 and methylation of histone H3 Lys36
-
2-s2.0-79960572522 10.1038/nsmb.2123
-
de Almeida S. F., Grosso A. R., Koch F., Fenouil R., Carvalho S., Andrade J., Levezinho H., Gut M., Eick D., Gut I., Andrau J. C., Ferrier P., Carmo-Fonseca M., Splicing enhances recruitment of methyltransferase HYPB/Setd2 and methylation of histone H3 Lys36. Nature Structural and Molecular Biology 2011 18 977 983 2-s2.0-79960572522 10.1038/nsmb.2123
-
(2011)
Nature Structural and Molecular Biology
, vol.18
, pp. 977-983
-
-
De Almeida, S.F.1
Grosso, A.R.2
Koch, F.3
Fenouil, R.4
Carvalho, S.5
Andrade, J.6
Levezinho, H.7
Gut, M.8
Eick, D.9
Gut, I.10
Andrau, J.C.11
Ferrier, P.12
Carmo-Fonseca, M.13
-
23
-
-
80052990473
-
Systematic bias in high-throughput sequencing data and its correction by BEADS
-
ARTICLE E103
-
Cheung M.-S., Down T. A., Latorre I., Ahringer J., Systematic bias in high-throughput sequencing data and its correction by BEADS. Nucleic Acids Research 2011 39 15, article e103
-
(2011)
Nucleic Acids Research
, vol.39
, Issue.15
-
-
Cheung, M.-S.1
Down, T.A.2
Latorre, I.3
Ahringer, J.4
-
24
-
-
69249087790
-
Impact of chromatin structures on DNA processing for genomic analyses
-
ARTICLE E6700 2-s2.0-69249087790 10.1371/journal.pone.0006700
-
Teytelman L., Özaydin B., Zill O., Lefranois P., Snyder M., Rine J., Eisen M. B., Impact of chromatin structures on DNA processing for genomic analyses. PLoS ONE 2009 4 8, article e6700 2-s2.0-69249087790 10.1371/journal.pone.0006700
-
(2009)
PLoS ONE
, vol.4
, Issue.8
-
-
Teytelman, L.1
Özaydin, B.2
Zill, O.3
Lefranois, P.4
Snyder, M.5
Rine, J.6
Eisen, M.B.7
-
25
-
-
70349267600
-
Mapping accessible chromatin regions using Sono-Seq
-
2-s2.0-70349267600 10.1073/pnas.0905443106
-
Auerbach R. K., Euskirchen G., Rozowsky J., Lamarre-Vincent N., Moqtaderi Z., Lefranois P., Struhl K., Gerstein M., Snyder M., Mapping accessible chromatin regions using Sono-Seq. Proceedings of the National Academy of Sciences of the United States of America 2009 106 35 14926 14931 2-s2.0-70349267600 10.1073/pnas.0905443106
-
(2009)
Proceedings of the National Academy of Sciences of the United States of America
, vol.106
, Issue.35
, pp. 14926-14931
-
-
Auerbach, R.K.1
Euskirchen, G.2
Rozowsky, J.3
Lamarre-Vincent, N.4
Moqtaderi, Z.5
Lefranois, P.6
Struhl, K.7
Gerstein, M.8
Snyder, M.9
-
26
-
-
70349312354
-
ChIP-seq: Advantages and challenges of a maturing technology
-
2-s2.0-70349312354 10.1038/nrg2641
-
Park P. J., ChIP-seq: advantages and challenges of a maturing technology. Nature Reviews Genetics 2009 10 10 669 680 2-s2.0-70349312354 10.1038/nrg2641
-
(2009)
Nature Reviews Genetics
, vol.10
, Issue.10
, pp. 669-680
-
-
Park, P.J.1
-
27
-
-
60149112271
-
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls
-
2-s2.0-60149112271 10.1038/nbt.1518
-
Rozowsky J., Euskirchen G., Auerbach R. K., Zhang Z. D., Gibson T., Bjornson R., Carriero N., Snyder M., Gerstein M. B., PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. Nature Biotechnology 2009 27 1 66 75 2-s2.0-60149112271 10.1038/nbt.1518
-
(2009)
Nature Biotechnology
, vol.27
, Issue.1
, pp. 66-75
-
-
Rozowsky, J.1
Euskirchen, G.2
Auerbach, R.K.3
Zhang, Z.D.4
Gibson, T.5
Bjornson, R.6
Carriero, N.7
Snyder, M.8
Gerstein, M.B.9
-
28
-
-
52649157765
-
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing
-
ARTICLE E105 2-s2.0-52649157765 10.1093/nar/gkn425
-
Dohm J. C., Lottaz C., Borodina T., Himmelbauer H., Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Nucleic Acids Researchearch 2008 36 16, article e105 2-s2.0-52649157765 10.1093/nar/gkn425
-
(2008)
Nucleic Acids Researchearch
, vol.36
, Issue.16
-
-
Dohm, J.C.1
Lottaz, C.2
Borodina, T.3
Himmelbauer, H.4
-
29
-
-
79955550445
-
A user's guide to the encyclopedia of DNA elements (ENCODE)
-
ARTICLE E1001046
-
Myers R. M., Stamatoyannopoulos J., Snyder M., Dunham I., Hardison R. C., Bernstein B. E., A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biology 2011 9 4, article e1001046
-
(2011)
PLoS Biology
, vol.9
, Issue.4
-
-
Myers, R.M.1
Stamatoyannopoulos, J.2
Snyder, M.3
Dunham, I.4
Hardison, R.C.5
Bernstein, B.E.6
-
30
-
-
38649099445
-
High-Resolution Mapping and Characterization of Open Chromatin across the Genome
-
DOI 10.1016/j.cell.2007.12.014, PII S0092867407016133
-
Boyle A. P., Davis S., Shulha H. P., Meltzer P., Margulies E. H., Weng Z., Furey T. S., Crawford G. E., High-resolution mapping and characterization of open chromatin across the genome. Cell 2008 132 2 311 322 2-s2.0-38649099445 10.1016/j.cell.2007.12.014 (Pubitemid 351172431)
-
(2008)
Cell
, vol.132
, Issue.2
, pp. 311-322
-
-
Boyle, A.P.1
Davis, S.2
Shulha, H.P.3
Meltzer, P.4
Margulies, E.H.5
Weng, Z.6
Furey, T.S.7
Crawford, G.E.8
-
31
-
-
27144500218
-
Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis
-
DOI 10.1093/nar/gki901
-
Meissner A., Gnirke A., Bell G. W., Ramsahoye B., Lander E. S., Jaenisch R., Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Research 2005 33 18 5868 5877 2-s2.0-27144500218 10.1093/nar/gki901 (Pubitemid 41742606)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.18
, pp. 5868-5877
-
-
Meissner, A.1
Gnirke, A.2
Bell, G.W.3
Ramsahoye, B.4
Lander, E.S.5
Jaenisch, R.6
-
32
-
-
84858221706
-
Ensembl 2012
-
Flicek P., Amode M. R., Barrell D., Beal K., Brent S., Carvalho-Silva D., Ensembl 2012. Nucleic Acids Research 2012 40 84 90
-
(2012)
Nucleic Acids Research
, vol.40
, pp. 84-90
-
-
Flicek, P.1
Amode, M.R.2
Barrell, D.3
Beal, K.4
Brent, S.5
Carvalho-Silva, D.6
-
33
-
-
84859865967
-
The UCSC Genome Browser database: Extensions and updates 2011
-
Dreszer T. R., Karolchik D., Zweig A. S., Hinrichs A. S., Raney B. J., Kuhn R. M., The UCSC Genome Browser database: extensions and updates 2011. Nucleic Acids Research 2012 40 918 923
-
(2012)
Nucleic Acids Research
, vol.40
, pp. 918-923
-
-
Dreszer, T.R.1
Karolchik, D.2
Zweig, A.S.3
Hinrichs, A.S.4
Raney, B.J.5
Kuhn, R.M.6
-
34
-
-
84858314394
-
BioMart: Driving a paradigm change in biological data management
-
Kasprzyk A., BioMart: driving a paradigm change in biological data management. Database (Oxford) 2011 2011, article bar049
-
(2011)
Database (Oxford)
, vol.2011
-
-
Kasprzyk, A.1
-
35
-
-
7244250182
-
Data mining in bioinformatics using Weka
-
DOI 10.1093/bioinformatics/bth261
-
Frank E., Hall M., Trigg L., Holmes G., Witten I. H., Data mining in bioinformatics using Weka. Bioinformatics 2004 20 15 2479 2481 2-s2.0-7244250182 10.1093/bioinformatics/bth261 (Pubitemid 39429925)
-
(2004)
Bioinformatics
, vol.20
, Issue.15
, pp. 2479-2481
-
-
Frank, E.1
Hall, M.2
Trigg, L.3
Holmes, G.4
Witten, I.H.5
-
36
-
-
80051530706
-
Quantification of histone modification ChIP-seq enrichment for data mining and machine learning applications
-
2-s2.0-80051530706
-
Hoang S. A., Xu X., Bekiranov S., Quantification of histone modification ChIP-seq enrichment for data mining and machine learning applications. BMC Research Notes 2011 4, article 288 2-s2.0-80051530706
-
(2011)
BMC Research Notes
, vol.4288
-
-
Hoang, S.A.1
Xu, X.2
Bekiranov, S.3
-
37
-
-
78649836342
-
Reciprocal intronic and exonic histone modification regions in humans
-
2-s2.0-78649836342 10.1038/nsmb.1924
-
Huff J. T., Plocik A. M., Guthrie C., Yamamoto K. R., Reciprocal intronic and exonic histone modification regions in humans. Nature Structural and Molecular Biology 2010 17 12 1495 1499 2-s2.0-78649836342 10.1038/nsmb.1924
-
(2010)
Nature Structural and Molecular Biology
, vol.17
, Issue.12
, pp. 1495-1499
-
-
Huff, J.T.1
Plocik, A.M.2
Guthrie, C.3
Yamamoto, K.R.4
-
38
-
-
36249027156
-
Recognition of trimethylated histone h3 lysine 4 facilitates the recruitment of transcription postinitiation factors and pre-mrna splicing
-
DOI 10.1016/j.molcel.2007.11.010, PII S1097276507007447
-
Sims R. J. III, Millhouse S., Chen C. F., Lewis B. A., Erdjument-Bromage H., Tempst P., Manley J. L., Reinberg D., Recognition of Trimethylated Histone H3 Lysine 4 Facilitates the Recruitment of Transcription Postinitiation Factors and Pre-mRNA Splicing. Molecular Cell 2007 28 4 665 676 2-s2.0-36249027156 10.1016/j.molcel.2007.11.010 (Pubitemid 350137805)
-
(2007)
Molecular Cell
, vol.28
, Issue.4
, pp. 665-676
-
-
Sims III, R.J.1
Millhouse, S.2
Chen, C.-F.3
Lewis, B.A.4
Erdjument-Bromage, H.5
Tempst, P.6
Manley, J.L.7
Reinberg, D.8
-
39
-
-
33744805985
-
Genome-wide analysis of mammalian promoter architecture and evolution
-
DOI 10.1038/ng1789, PII N1789
-
Carninci P., Sandelin A., Lenhard B., Katayama S., Shimokawa K., Ponjavic J., Semple C. A. M., Taylor M. S., Engström P. G., Frith M. C., Forrest A. R. R., Alkema W. B., Tan S. L., Plessy C., Kodzius R., Ravasi T., Kasukawa T., Fukuda S., Kanamori-Katayama M., Kitazume Y., Kawaji H., Kai C., Nakamura M., Konno H., Nakano K., Mottagui-Tabar S., Arner P., Chesi A., Gustincich S., Persichetti F., Suzuki H., Grimmond S. M., Wells C. A., Orlando V., Wahlestedt C., Liu E. T., Harbers M., Kawai J., Bajic V. B., Hume D. A., Hayashizaki Y., Genome-wide analysis of mammalian promoter architecture and evolution. Nature Genetics 2006 38 6 626 635 (Pubitemid 43927303)
-
(2006)
Nature Genetics
, vol.38
, Issue.6
, pp. 626-635
-
-
Carninci, P.1
Sandelin, A.2
Lenhard, B.3
Katayama, S.4
Shimokawa, K.5
Ponjavic, J.6
Semple, C.A.M.7
Taylor, M.S.8
Engstrom, P.G.9
Frith, M.C.10
Forrest, A.R.R.11
Alkema, W.B.12
Tan, S.L.13
Plessy, C.14
Kodzius, R.15
Ravasi, T.16
Kasukawa, T.17
Fukuda, S.18
Kanamori-Katayama, M.19
Kitazume, Y.20
Kawaji, H.21
Kai, C.22
Nakamura, M.23
Konno, H.24
Nakano, K.25
Mottagui-Tabar, S.26
Arner, P.27
Chesi, A.28
Gustincich, S.29
Persichetti, F.30
Suzuki, H.31
Grimmond, S.M.32
Wells, C.A.33
Orlando, V.34
Wahlestedt, C.35
Liu, E.T.36
Harbers, M.37
Kawai, J.38
Bajic, V.B.39
Hume, D.A.40
Hayashizaki, Y.41
more..
-
40
-
-
31944432339
-
A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters
-
DOI 10.1073/pnas.0510310103
-
Saxonov S., Berg P., Brutlag D. L., A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters. Proceedings of the National Academy of Sciences of the United States of America 2006 103 5 1412 1417 2-s2.0-31944432339 10.1073/pnas.0510310103 (Pubitemid 43191179)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.5
, pp. 1412-1417
-
-
Saxonov, S.1
Berg, P.2
Brutlag, D.L.3
-
41
-
-
80054081798
-
Genomic and chromatin signals underlying transcription start-site selection
-
Valen E., Sandelin A., Genomic and chromatin signals underlying transcription start-site selection. Trends in Genetics 2011 27 11 475 485
-
(2011)
Trends in Genetics
, vol.27
, Issue.11
, pp. 475-485
-
-
Valen, E.1
Sandelin, A.2
-
42
-
-
0035478854
-
Random forests
-
DOI 10.1023/A:1010933404324
-
Breiman L., Random forests. Machine Learning 2001 45 1 5 32 2-s2.0-0035478854 10.1023/A:1010933404324 (Pubitemid 32933532)
-
(2001)
Machine Learning
, vol.45
, Issue.1
, pp. 5-32
-
-
Breiman, L.1
-
43
-
-
32044442759
-
Promoter features related to tissue specificity as measured by Shannon entropy
-
2-s2.0-32044442759
-
Schug J., Schuller W. P., Kappen C., Salbaum J. M., Bucan M., Stoeckert C. J., Promoter features related to tissue specificity as measured by Shannon entropy. Genome Biology 2005 6 4 R33 2-s2.0-32044442759
-
(2005)
Genome Biology
, vol.6
, Issue.4
-
-
Schug, J.1
Schuller, W.P.2
Kappen, C.3
Salbaum, J.M.4
Bucan, M.5
Stoeckert, C.J.6
-
44
-
-
79955807556
-
Histone modification profiles are predictive for tissue/cell-type specific expression of both protein-coding and microRNA genes
-
2-s2.0-79955807556 10.1186/1471-2105-12-155
-
Zhang Z., Zhang M. Q., Histone modification profiles are predictive for tissue/cell-type specific expression of both protein-coding and microRNA genes. BMC Bioinformatics 2011 12, article 155 2-s2.0-79955807556 10.1186/1471-2105-12- 155
-
(2011)
BMC Bioinformatics
, vol.12
-
-
Zhang, Z.1
Zhang, M.Q.2
-
46
-
-
0004255908
-
-
The Mc-Graw-Hill Companies, Inc
-
Mitchell T., Machine Learning 1997 The Mc-Graw-Hill Companies, Inc.
-
(1997)
Machine Learning
-
-
Mitchell, T.1
-
47
-
-
46249112085
-
Combinatorial patterns of histone acetylations and methylations in the human genome
-
DOI 10.1038/ng.154, PII NG154
-
Wang Z., Zang C., Rosenfeld J. A., Schones D. E., Barski A., Cuddapah S., Cui K., Roh T. Y., Peng W., Zhang M. Q., Zhao K., Combinatorial patterns of histone acetylations and methylations in the human genome. Nature Genetics 2008 40 7 897 903 2-s2.0-46249112085 10.1038/ng.154 (Pubitemid 351913645)
-
(2008)
Nature Genetics
, vol.40
, Issue.7
, pp. 897-903
-
-
Wang, Z.1
Zang, C.2
Rosenfeld, J.A.3
Schones, D.E.4
Barski, A.5
Cuddapah, S.6
Cui, K.7
Roh, T.-Y.8
Peng, W.9
Zhang, M.Q.10
Zhao, K.11
-
48
-
-
33744963540
-
A trans-tail histone code defined by monomethylated H4 Lys-20 and H3 Lys-9 demarcates distinct regions of silent chromatin
-
DOI 10.1074/jbc.M513462200
-
Sims J. K., Houston S. I., Magazinnik T., Rice J. C., A trans-tail histone code defined by monomethylated H4 Lys-20 and H3 Lys-9 demarcates distinct regions of silent chromatin. The Journal of Biological Chemistry 2006 281 18 12760 12766 2-s2.0-33744963540 10.1074/jbc.M513462200 (Pubitemid 43855367)
-
(2006)
Journal of Biological Chemistry
, vol.281
, Issue.18
, pp. 12760-12766
-
-
Sims, J.K.1
Houston, S.I.2
Magazinnik, T.3
Rice, J.C.4
-
49
-
-
0026653420
-
The essentials of DNA methylation
-
2-s2.0-0026653420 10.1016/0092-8674(92)90526-I
-
Bird A., The essentials of DNA methylation. Cell 1992 70 1 5 8 2-s2.0-0026653420 10.1016/0092-8674(92)90526-I
-
(1992)
Cell
, vol.70
, Issue.1
, pp. 5-8
-
-
Bird, A.1
-
50
-
-
24644472515
-
Molecular biology: Antisense transcription in the mammalian transcriptome
-
DOI 10.1126/science.1112009
-
Katayama S., Tomaru Y., Kasukawa T., Waki K., Nakanishi M., Nakamura M., Nishida H., Yap C. C., Suzuki M., Kawai J., Suzuki H., Carninci P., Hayashizaki Y., Wells C., Frith M., Ravasi T., Pang K. C., Hallinan J., Mattick J., Hume D. A., Lipovich L., Batalov S., Engström P. G., Mizuno Y., Faghihi M. A., Sandelin A., Chalk A. M., Mottagui-Tabar S., Liang Z., Lenhard B., Wahlestedt C., Molecular biology: antisense transcription in the mammalian transcriptome. Science 2005 309 5740 1564 1566 2-s2.0-24644472515 10.1126/science.1112009 (Pubitemid 41266482)
-
(2005)
Science
, vol.309
, Issue.5740
, pp. 1564-1566
-
-
Katayama, S.1
Tomaru, Y.2
Kasukawa, T.3
Waki, K.4
Nakanishi, M.5
Nakamura, M.6
Nishida, H.7
Yap, C.C.8
Suzuki, M.9
Kawai, J.10
Suzuki, H.11
Carninci, P.12
Hayashizaki, Y.13
Wells, C.14
Frith, M.15
Ravasi, T.16
Pang, K.C.17
Hallinan, J.18
Mattick, J.19
Hume, D.A.20
Lipovich, L.21
Batalov, S.22
Engstrom, P.G.23
Mizuno, Y.24
Faghihi, M.A.25
Sandelin, A.26
Chalk, A.M.27
Mottagui-Tabar, S.28
Liang, Z.29
Lenhard, B.30
Wahlestedt, C.31
more..
|