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Results: 1 to 20 of 97

1.

methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles.

Akalin A, Kormaksson M, Li S, Garrett-Bakelman FE, Figueroa ME, Melnick A, Mason CE.

Genome Biol. 2012 Oct 3;13(10):R87. doi: 10.1186/gb-2012-13-10-r87.

PMID:
23034086
[PubMed - in process]
Free PMC Article
2.

An optimized algorithm for detecting and annotating regional differential methylation.

Li S, Garrett-Bakelman FE, Akalin A, Zumbo P, Levine R, To BL, Lewis ID, Brown AL, D'Andrea RJ, Melnick A, Mason CE.

BMC Bioinformatics. 2013;14 Suppl 5:S10. doi: 10.1186/1471-2105-14-S5-S10. Epub 2013 Apr 10.

PMID:
23735126
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

CMS: a web-based system for visualization and analysis of genome-wide methylation data of human cancers.

Gu F, Doderer MS, Huang YW, Roa JC, Goodfellow PJ, Kizer EL, Huang TH, Chen Y.

PLoS One. 2013 Apr 22;8(4):e60980. doi: 10.1371/journal.pone.0060980. Print 2013.

PMID:
23630576
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Prediction of epigenetically regulated genes in breast cancer cell lines.

Loss LA, Sadanandam A, Durinck S, Nautiyal S, Flaucher D, Carlton VE, Moorhead M, Lu Y, Gray JW, Faham M, Spellman P, Parvin B.

BMC Bioinformatics. 2010 Jun 4;11:305. doi: 10.1186/1471-2105-11-305.

PMID:
20525369
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Methyl-Analyzer--whole genome DNA methylation profiling.

Xin Y, Ge Y, Haghighi FG.

Bioinformatics. 2011 Aug 15;27(16):2296-7. doi: 10.1093/bioinformatics/btr356. Epub 2011 Jun 17.

PMID:
21685051
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Comprehensive DNA methylation and hydroxymethylation analysis in the human brain and its implication in mental disorders.

Kato T, Iwamoto K.

Neuropharmacology. 2014 May;80:133-9. doi: 10.1016/j.neuropharm.2013.12.019. Epub 2014 Jan 2.

PMID:
24389572
[PubMed - in process]
7.

MethVisual - visualization and exploratory statistical analysis of DNA methylation profiles from bisulfite sequencing.

Zackay A, Steinhoff C.

BMC Res Notes. 2010 Dec 15;3:337. doi: 10.1186/1756-0500-3-337.

PMID:
21159174
[PubMed]
Free PMC Article
8.

Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax.

Bracht JR, Perlman DH, Landweber LF.

Genome Biol. 2012 Oct 17;13(10):R99. doi: 10.1186/gb-2012-13-10-r99.

PMID:
23075511
[PubMed - in process]
Free PMC Article
9.

DNA methylation profiling of the human major histocompatibility complex: a pilot study for the human epigenome project.

Rakyan VK, Hildmann T, Novik KL, Lewin J, Tost J, Cox AV, Andrews TD, Howe KL, Otto T, Olek A, Fischer J, Gut IG, Berlin K, Beck S.

PLoS Biol. 2004 Dec;2(12):e405. Epub 2004 Nov 23.

PMID:
15550986
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Determining the effect of DNA methylation on gene expression in cancer cells.

Lee CJ, Evans J, Kim K, Chae H, Kim S.

Methods Mol Biol. 2014;1101:161-78. doi: 10.1007/978-1-62703-721-1_9.

PMID:
24233782
[PubMed - indexed for MEDLINE]
11.

Genome-wide analysis of aberrant methylation in human breast cancer cells using methyl-DNA immunoprecipitation combined with high-throughput sequencing.

Ruike Y, Imanaka Y, Sato F, Shimizu K, Tsujimoto G.

BMC Genomics. 2010 Feb 25;11:137. doi: 10.1186/1471-2164-11-137.

PMID:
20181289
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Genome-wide analysis and modeling of DNA methylation susceptibility in 30 breast cancer cell lines by using CpG flanking sequences.

An J, Kim K, Rhee SM, Chae H, Nephew KP, Kim S.

J Bioinform Comput Biol. 2013 Jun;11(3):1341003. doi: 10.1142/S0219720013410035.

PMID:
23796180
[PubMed - indexed for MEDLINE]
13.

DNA methylation profiling distinguishes three clusters of breast cancer cell lines.

Zheng S, Zhao Z.

Chem Biodivers. 2012 May;9(5):848-56. doi: 10.1002/cbdv.201100354.

PMID:
22589087
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Genome-wide DNA methylation in human heart failure.

Movassagh M, Vujic A, Foo R.

Epigenomics. 2011 Feb;3(1):103-9. doi: 10.2217/epi.10.70. Review.

PMID:
22126157
[PubMed - indexed for MEDLINE]
15.

Strategies for discovery and validation of methylated and hydroxymethylated DNA biomarkers.

Olkhov-Mitsel E, Bapat B.

Cancer Med. 2012 Oct;1(2):237-60. doi: 10.1002/cam4.22. Epub 2012 Sep 14. Review.

PMID:
23342273
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Integrated analysis of genome-wide DNA methylation and gene expression profiles in molecular subtypes of breast cancer.

Rhee JK, Kim K, Chae H, Evans J, Yan P, Zhang BT, Gray J, Spellman P, Huang TH, Nephew KP, Kim S.

Nucleic Acids Res. 2013 Oct;41(18):8464-74. doi: 10.1093/nar/gkt643. Epub 2013 Jul 24.

PMID:
23887935
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

MethylSig: a whole genome DNA methylation analysis pipeline.

Park Y, Figueroa ME, Rozek LS, Sartor MA.

Bioinformatics. 2014 Sep 1;30(17):2414-22. doi: 10.1093/bioinformatics/btu339. Epub 2014 May 16.

PMID:
24836530
[PubMed - in process]
18.

Methylated DNA immunoprecipitation and high-throughput sequencing (MeDIP-seq) using low amounts of genomic DNA.

Zhao MT, Whyte JJ, Hopkins GM, Kirk MD, Prather RS.

Cell Reprogram. 2014 Jun;16(3):175-84. doi: 10.1089/cell.2014.0002. Epub 2014 Apr 28.

PMID:
24773292
[PubMed - in process]
19.

Methodological aspects of whole-genome bisulfite sequencing analysis.

Adusumalli S, Mohd Omar MF, Soong R, Benoukraf T.

Brief Bioinform. 2014 May 27. pii: bbu016. [Epub ahead of print]

PMID:
24867940
[PubMed - as supplied by publisher]
20.

Genome-wide DNA hydroxymethylation changes are associated with neurodevelopmental genes in the developing human cerebellum.

Wang T, Pan Q, Lin L, Szulwach KE, Song CX, He C, Wu H, Warren ST, Jin P, Duan R, Li X.

Hum Mol Genet. 2012 Dec 15;21(26):5500-10. doi: 10.1093/hmg/dds394. Epub 2012 Oct 5.

PMID:
23042784
[PubMed - indexed for MEDLINE]
Free PMC Article

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