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Immunostaining of modified histones defines high-level features of the human metaphase epigenome.

Terrenoire E, McRonald F, Halsall JA, Page P, Illingworth RS, Taylor AM, Davison V, O'Neill LP, Turner BM.

Genome Biol. 2010;11(11):R110. doi: 10.1186/gb-2010-11-11-r110. Epub 2010 Nov 15.


Chromatin state analysis of the barley epigenome reveals a higher-order structure defined by H3K27me1 and H3K27me3 abundance.

Baker K, Dhillon T, Colas I, Cook N, Milne I, Milne L, Bayer M, Flavell AJ.

Plant J. 2015 Oct;84(1):111-24. doi: 10.1111/tpj.12963. Epub 2015 Sep 9.


Histone modifications for human epigenome analysis.

Kimura H.

J Hum Genet. 2013 Jul;58(7):439-45. doi: 10.1038/jhg.2013.66. Epub 2013 Jun 6. Review.


H3K27me3 forms BLOCs over silent genes and intergenic regions and specifies a histone banding pattern on a mouse autosomal chromosome.

Pauler FM, Sloane MA, Huang R, Regha K, Koerner MV, Tamir I, Sommer A, Aszodi A, Jenuwein T, Barlow DP.

Genome Res. 2009 Feb;19(2):221-33. doi: 10.1101/gr.080861.108. Epub 2008 Dec 1.


Chromatin environment of histone variant H3.3 revealed by quantitative imaging and genome-scale chromatin and DNA immunoprecipitation.

Delbarre E, Jacobsen BM, Reiner AH, Sørensen AL, Küntziger T, Collas P.

Mol Biol Cell. 2010 Jun 1;21(11):1872-84. doi: 10.1091/mbc.E09-09-0839. Epub 2010 Apr 7. Erratum in: Mol Biol Cell. 2010 Nov;21(21):3759.


HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data.

Ashoor H, Hérault A, Kamoun A, Radvanyi F, Bajic VB, Barillot E, Boeva V.

Bioinformatics. 2013 Dec 1;29(23):2979-86. doi: 10.1093/bioinformatics/btt524. Epub 2013 Sep 9.


Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk.

Brinkman AB, Gu H, Bartels SJ, Zhang Y, Matarese F, Simmer F, Marks H, Bock C, Gnirke A, Meissner A, Stunnenberg HG.

Genome Res. 2012 Jun;22(6):1128-38. doi: 10.1101/gr.133728.111. Epub 2012 Mar 30.


Stability of histone modifications across mammalian genomes: implications for 'epigenetic' marking.

Lee BM, Mahadevan LC.

J Cell Biochem. 2009 Sep 1;108(1):22-34. doi: 10.1002/jcb.22250.


Interrogation of allelic chromatin states in human cells by high-density ChIP-genotyping.

Light N, Adoue V, Ge B, Chen SH, Kwan T, Pastinen T.

Epigenetics. 2014 Sep;9(9):1238-51. doi: 10.4161/epi.29920. Epub 2014 Jul 23.


CpG islands under selective pressure are enriched with H3K4me3, H3K27ac and H3K36me3 histone modifications.

Akhtar MM, Scala G, Cocozza S, Miele G, Monticelli A.

BMC Evol Biol. 2013 Jul 10;13:145. doi: 10.1186/1471-2148-13-145.


Genome-wide analysis of histone modifications in latently HIV-1 infected T cells.

Park J, Lim CH, Ham S, Kim SS, Choi BS, Roh TY.

AIDS. 2014 Jul 31;28(12):1719-28. doi: 10.1097/QAD.0000000000000309.


MMDiff: quantitative testing for shape changes in ChIP-Seq data sets.

Schweikert G, Cseke B, Clouaire T, Bird A, Sanguinetti G.

BMC Genomics. 2013 Nov 24;14:826. doi: 10.1186/1471-2164-14-826.


Techniques to study epigenetic control and the epigenome in parasites.

Nardelli SC, Ting LM, Kim K.

Methods Mol Biol. 2015;1201:177-91. doi: 10.1007/978-1-4939-1438-8_10.


Comparative analysis of genome-wide chromosomal histone modification patterns in maize cultivars and their wild relatives.

He S, Yan S, Wang P, Zhu W, Wang X, Shen Y, Shao K, Xin H, Li S, Li L.

PLoS One. 2014 May 12;9(5):e97364. doi: 10.1371/journal.pone.0097364. eCollection 2014.


Analysis of chromatin-state plasticity identifies cell-type-specific regulators of H3K27me3 patterns.

Pinello L, Xu J, Orkin SH, Yuan GC.

Proc Natl Acad Sci U S A. 2014 Jan 21;111(3):E344-53. doi: 10.1073/pnas.1322570111. Epub 2014 Jan 6.


Genome-wide analysis of histone H3 lysine 27 trimethylation by ChIP-chip in gastric cancer patients.

Zhang L, Zhong K, Dai Y, Zhou H.

J Gastroenterol. 2009;44(4):305-12. doi: 10.1007/s00535-009-0027-9. Epub 2009 Mar 10.


Genome-wide analysis identifies changes in histone retention and epigenetic modifications at developmental and imprinted gene loci in the sperm of infertile men.

Hammoud SS, Nix DA, Hammoud AO, Gibson M, Cairns BR, Carrell DT.

Hum Reprod. 2011 Sep;26(9):2558-69. doi: 10.1093/humrep/der192. Epub 2011 Jun 17.

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