-
1
-
-
77955172885
-
Genome-wide chromatin maps derived from limited numbers of hematopoietic progenitors
-
Adli, M., Zhu, J., and Bernstein, B. E. (2010). Genome-wide chromatin maps derived from limited numbers of hematopoietic progenitors. Nat. Methods 7, 615-618. doi: 10.1038/nmeth.1478
-
(2010)
Nat. Methods
, vol.7
, pp. 615-618
-
-
Adli, M.1
Zhu, J.2
Bernstein, B.E.3
-
2
-
-
77957940722
-
The NIH roadmap epigenomics mapping consortium
-
Bernstein, B. E., Stamatoyannopoulos, J. A., Costello, J. F., Ren, B., Milosavljevic, A., Meissner, A., et al. (2010). The NIH roadmap epigenomics mapping consortium. Nat. Biotechnol. 28, 1045-1048. doi: 10.1038/nbt1010-1045
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 1045-1048
-
-
Bernstein, B.E.1
Stamatoyannopoulos, J.A.2
Costello, J.F.3
Ren, B.4
Milosavljevic, A.5
Meissner, A.6
-
3
-
-
79151476637
-
Detailed specificity analysis of antibodies binding to modified histone tails with peptide arrays
-
Bock, I., Dhayalan, A., Kudithipudi, S., Brandt, O., Rathert, P., and Jeltsch, A. (2011). Detailed specificity analysis of antibodies binding to modified histone tails with peptide arrays. Epigenetics 6, 256-263. doi: 10.4161/epi.6.2.13837
-
(2011)
Epigenetics
, vol.6
, pp. 256-263
-
-
Bock, I.1
Dhayalan, A.2
Kudithipudi, S.3
Brandt, O.4
Rathert, P.5
Jeltsch, A.6
-
4
-
-
33644674439
-
The organization and inheritance of the mitochondrial genome
-
Chen, X. J., and Butow, R. A. (2005). The organization and inheritance of the mitochondrial genome. Nat. Rev. Genet. 6, 815-825. doi: 10.1038/nrg1708
-
(2005)
Nat. Rev. Genet.
, vol.6
, pp. 815-825
-
-
Chen, X.J.1
Butow, R.A.2
-
5
-
-
7444260846
-
The ENCODE (ENCyclopedia Of DNA Elements) Project
-
Consortium, Encode Project. (2004). The ENCODE (ENCyclopedia Of DNA Elements) Project. Science 306, 636-640. doi: 10.1126/science.1105136
-
(2004)
Science
, vol.306
, pp. 636-640
-
-
-
6
-
-
79952065988
-
ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis
-
Ho, J. W., Bishop, E., Karchenko, P. V., Negre, N., White, K. P., and Park, P. J. (2011). ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis. BMC Genomics 12:134. doi: 10.1186/1471-2164-12-134
-
(2011)
BMC Genomics
, vol.12
, pp. 134
-
-
Ho, J.W.1
Bishop, E.2
Karchenko, P.V.3
Negre, N.4
White, K.P.5
Park, P.J.6
-
7
-
-
0036079158
-
The human genome browser at UCSC
-
Kent, W. J., Sugnet, C. W., Furey, T. S., Roskin, K. M., Pringle, T. H., Zahler, A. M., et al. (2002). The human genome browser at UCSC. Genome Res. 12, 996-1006. doi: 10.1101/gr.229102
-
(2002)
Genome Res.
, vol.12
, pp. 996-1006
-
-
Kent, W.J.1
Sugnet, C.W.2
Furey, T.S.3
Roskin, K.M.4
Pringle, T.H.5
Zahler, A.M.6
-
8
-
-
80052976954
-
ChIP-Seq: technical considerations for obtaining high-quality data
-
Kidder, B. L., Hu, G., and Zhao, K. (2011). ChIP-Seq: technical considerations for obtaining high-quality data. Nat. Immunol. 12, 918-922. doi: 10.1038/ni.2117
-
(2011)
Nat. Immunol.
, vol.12
, pp. 918-922
-
-
Kidder, B.L.1
Hu, G.2
Zhao, K.3
-
9
-
-
84884826911
-
The next-generation sequencing revolution and its impact on genomics
-
Koboldt, D. C., Steinberg, K. M., Larson, D. E., Wilson, R. K., and Mardis, E. R. (2013). The next-generation sequencing revolution and its impact on genomics. Cell 155, 27-38. doi: 10.1016/j.cell.2013.09.006
-
(2013)
Cell
, vol.155
, pp. 27-38
-
-
Koboldt, D.C.1
Steinberg, K.M.2
Larson, D.E.3
Wilson, R.K.4
Mardis, E.R.5
-
10
-
-
84865777819
-
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
-
Landt, S. G., Marinov, G. K., Kundaje, A., Kheradpour, P., Pauli, F., Batzoglou, S., et al. (2012). ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res. 22, 1813-1831. doi: 10.1101/gr.136184.111
-
(2012)
Genome Res.
, vol.22
, pp. 1813-1831
-
-
Landt, S.G.1
Marinov, G.K.2
Kundaje, A.3
Kheradpour, P.4
Pauli, F.5
Batzoglou, S.6
-
11
-
-
84896735766
-
Voom: precision weights unlock linear model analysis tools for RNA-seq read counts
-
Law, C. W., Chen, Y., Shi, W., and Smyth, G. K. (2014). Voom: precision weights unlock linear model analysis tools for RNA-seq read counts. Genome Biol. 15:R29. doi: 10.1186/gb-2014-15-2-r29
-
(2014)
Genome Biol
, vol.15
, pp. R29
-
-
Law, C.W.1
Chen, Y.2
Shi, W.3
Smyth, G.K.4
-
12
-
-
84864803359
-
Normalization of ChIP-seq data with control
-
Liang, K., and Keles, S. (2012). Normalization of ChIP-seq data with control. BMC Bioinformatics 13:199. doi: 10.1186/1471-2105-13-199
-
(2012)
BMC Bioinformatics
, vol.13
, pp. 199
-
-
Liang, K.1
Keles, S.2
-
13
-
-
33846862405
-
High-throughput mapping of the chromatin structure of human promoters
-
Ozsolak, F., Song, J. S., Liu, X. S., and Fisher, D. E. (2007). High-throughput mapping of the chromatin structure of human promoters. Nat. Biotechnol. 25, 244-248. doi: 10.1038/nbt1279
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 244-248
-
-
Ozsolak, F.1
Song, J.S.2
Liu, X.S.3
Fisher, D.E.4
-
14
-
-
70349312354
-
ChIP-seq: advantages and challenges of a maturing technology
-
Park, P. J. (2009). ChIP-seq: advantages and challenges of a maturing technology. Nat. Rev. Genet. 10, 669-680. doi: 10.1038/nrg2641
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 669-680
-
-
Park, P.J.1
-
15
-
-
79960398002
-
False positive peaks in ChIP-seq and other sequencing-based functional assays caused by unannotated high copy number regions
-
Pickrell, J. K., Gaffney, D. J., Gilad, Y., and Pritchard, J. K. (2011). False positive peaks in ChIP-seq and other sequencing-based functional assays caused by unannotated high copy number regions. Bioinformatics 27, 2144-2146. doi: 10.1093/bioinformatics/btr354
-
(2011)
Bioinformatics
, vol.27
, pp. 2144-2146
-
-
Pickrell, J.K.1
Gaffney, D.J.2
Gilad, Y.3
Pritchard, J.K.4
-
16
-
-
4544341015
-
Linear models and empirical bayes methods for assessing differential expression in microarray experiments
-
Smyth, G. K. (2004). Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat. Appl. Genet. Mol. Biol. 3:3. doi: 10.2202/1544-6115.1027
-
(2004)
Stat. Appl. Genet. Mol. Biol
, vol.3
, pp. 3
-
-
Smyth, G.K.1
-
17
-
-
84860153513
-
Using and understanding RepeatMasker
-
Tempel, S. (2012). Using and understanding RepeatMasker. Methods Mol. Biol. 859, 29-51. doi: 10.1007/978-1-61779-603-6_2
-
(2012)
Methods Mol. Biol.
, vol.859
, pp. 29-51
-
-
Tempel, S.1
-
18
-
-
84873086126
-
Chromatin marks identify critical cell types for fine mapping complex trait variants
-
Trynka, G., Sandor, C., Han, B., Xu, H., Stranger, B. E., Liu, X. S., et al. (2013). Chromatin marks identify critical cell types for fine mapping complex trait variants. Nat. Genet. 45, 124-130. doi: 10.1038/ng.2504
-
(2013)
Nat. Genet.
, vol.45
, pp. 124-130
-
-
Trynka, G.1
Sandor, C.2
Han, B.3
Xu, H.4
Stranger, B.E.5
Liu, X.S.6
-
19
-
-
80053217575
-
ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity
-
Young, M. D., Willson, T. A., Wakefield, M. J., Trounson, E., Hilton, D. J., Blewitt, M. E., et al. (2011). ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity. Nucleic Acids Res. 39, 7415-7427. doi: 10.1093/nar/gkr416
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 7415-7427
-
-
Young, M.D.1
Willson, T.A.2
Wakefield, M.J.3
Trounson, E.4
Hilton, D.J.5
Blewitt, M.E.6
-
20
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS)
-
Zhang, Y., Liu, T., Meyer, C. A., Eeckhoute, J., Johnson, D. S., Bernstein, B. E., et al. (2008). Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9:R137. doi: 10.1186/gb-2008-9-9-r137
-
(2008)
Genome Biol
, vol.9
-
-
Zhang, Y.1
Liu, T.2
Meyer, C.A.3
Eeckhoute, J.4
Johnson, D.S.5
Bernstein, B.E.6
-
21
-
-
84873310426
-
Genome-wide chromatin state transitions associated with developmental and environmental cues
-
Zhu, J., Adli, M., Zou, J. Y., Verstappen, G., Coyne, M., Zhang, X., et al. (2013). Genome-wide chromatin state transitions associated with developmental and environmental cues. Cell 152, 642-654. doi: 10.1016/j.cell.2012.12.033
-
(2013)
Cell
, vol.152
, pp. 642-654
-
-
Zhu, J.1
Adli, M.2
Zou, J.Y.3
Verstappen, G.4
Coyne, M.5
Zhang, X.6
|