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Items: 1 to 20 of 148


Whole-genome bisulfite sequencing with improved accuracy and cost.

Suzuki M, Liao W, Wos F, Johnston AD, DeGrazia J, Ishii J, Bloom T, Zody MC, Germer S, Greally JM.

Genome Res. 2018 Aug 9. doi: 10.1101/gr.232587.117. [Epub ahead of print]


Mechanisms of establishment and functional significance of DNA demethylation during erythroid differentiation.

Bartholdy B, Lajugie J, Yan Z, Zhang S, Mukhopadhyay R, Greally JM, Suzuki M, Bouhassira EE.

Blood Adv. 2018 Aug 14;2(15):1833-1852. doi: 10.1182/bloodadvances.2018015651.


DNA methylation haplotypes as cancer markers.

Seoighe C, Tosh NJ, Greally JM.

Nat Genet. 2018 Aug;50(8):1062-1063. doi: 10.1038/s41588-018-0185-x. No abstract available.


The RUNX1/IL-34/CSF-1R axis is an autocrinally regulated modulator of resistance to BRAF-V600E inhibition in melanoma.

Giricz O, Mo Y, Dahlman KB, Cotto-Rios XM, Vardabasso C, Nguyen H, Matusow B, Bartenstein M, Polishchuk V, Johnson DB, Bhagat TD, Shellooe R, Burton E, Tsai J, Zhang C, Habets G, Greally JM, Yu Y, Kenny PA, Fields GB, Pradhan K, Stanley ER, Bernstein E, Bollag G, Gavathiotis E, West BL, Sosman JA, Verma AK.

JCI Insight. 2018 Jul 25;3(14). pii: 120422. doi: 10.1172/jci.insight.120422. [Epub ahead of print]


Detecting, quantifying, and discriminating the mechanism of mosaic chromosomal aneuploidies using MAD-seq.

Kong Y, Berko ER, Marcketta A, Maqbool SB, Simões-Pires CA, Kronn DF, Ye KQ, Suzuki M, Auton A, Greally JM.

Genome Res. 2018 Jul;28(7):1039-1052. doi: 10.1101/gr.226282.117. Epub 2018 May 17.


Selective modulation of local linkages between active transcription and oxidative demethylation activity shapes cardiomyocyte-specific gene-body epigenetic status in mice.

Oda M, Wakabayashi S, Ari Wijetunga N, Yuasa S, Enomoto H, Kaneda R, Yoon SH, Mittal N, Jing Q, Suzuki M, Greally JM, Fukuda K, Makino S.

BMC Genomics. 2018 May 10;19(1):349. doi: 10.1186/s12864-018-4752-4.


Intrauterine Hyperglycemia Is Associated with an Impaired Postnatal Response to Oxidative Damage.

Tozour JN, Delahaye F, Suzuki M, Praiss A, Zhao Y, Cai L, Heo HJ, Greally JM, Hughes F.

Stem Cells Dev. 2018 May 15;27(10):683-691. doi: 10.1089/scd.2017.0232. Epub 2018 Apr 26.


A user's guide to the ambiguous word 'epigenetics'.

Greally JM.

Nat Rev Mol Cell Biol. 2018 Apr;19(4):207-208. doi: 10.1038/nrm.2017.135. Epub 2018 Jan 17. No abstract available.


Development and validation of a targeted next generation DNA sequencing panel outperforming whole exome sequencing for the identification of clinically relevant genetic variants.

Miller EM, Patterson NE, Zechmeister JM, Bejerano-Sagie M, Delio M, Patel K, Ravi N, Quispe-Tintaya W, Maslov A, Simmons N, Castaldi M, Vijg J, Karabakhtsian RG, Greally JM, Kuo DYS, Montagna C.

Oncotarget. 2017 Oct 26;8(60):102033-102045. doi: 10.18632/oncotarget.22116. eCollection 2017 Nov 24.


The HELP-Based DNA Methylation Assays.

Greally JM.

Methods Mol Biol. 2018;1708:191-207. doi: 10.1007/978-1-4939-7481-8_11.


Altered hydroxymethylation is seen at regulatory regions in pancreatic cancer and regulates oncogenic pathways.

Bhattacharyya S, Pradhan K, Campbell N, Mazdo J, Vasantkumar A, Maqbool S, Bhagat TD, Gupta S, Suzuki M, Yu Y, Greally JM, Steidl U, Bradner J, Dawlaty M, Godley L, Maitra A, Verma A.

Genome Res. 2017 Nov;27(11):1830-1842. doi: 10.1101/gr.222794.117. Epub 2017 Oct 6.


In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice.

Seki Y, Suzuki M, Guo X, Glenn AS, Vuguin PM, Fiallo A, Du Q, Ko YA, Yu Y, Susztak K, Zheng D, Greally JM, Katz EB, Charron MJ.

Endocrinology. 2017 Sep 1;158(9):2860-2872. doi: 10.1210/en.2017-00334.


Epigenetically Aberrant Stroma in MDS Propagates Disease via Wnt/β-Catenin Activation.

Bhagat TD, Chen S, Bartenstein M, Barlowe AT, Von Ahrens D, Choudhary GS, Tivnan P, Amin E, Marcondes AM, Sanders MA, Hoogenboezem RM, Kambhampati S, Ramachandra N, Mantzaris I, Sukrithan V, Laurence R, Lopez R, Bhagat P, Giricz O, Sohal D, Wickrema A, Yeung C, Gritsman K, Aplan P, Hochedlinger K, Yu Y, Pradhan K, Zhang J, Greally JM, Mukherjee S, Pellagatti A, Boultwood J, Will B, Steidl U, Raaijmakers MHGP, Deeg HJ, Kharas MG, Verma A.

Cancer Res. 2017 Sep 15;77(18):4846-4857. doi: 10.1158/0008-5472.CAN-17-0282. Epub 2017 Jul 6.


Genetic-epigenetic interactions in cis: a major focus in the post-GWAS era.

Do C, Shearer A, Suzuki M, Terry MB, Gelernter J, Greally JM, Tycko B.

Genome Biol. 2017 Jun 19;18(1):120. doi: 10.1186/s13059-017-1250-y. Review.


Inflammation-associated DNA methylation patterns in epithelium of ulcerative colitis.

Barnicle A, Seoighe C, Greally JM, Golden A, Egan LJ.

Epigenetics. 2017 Aug;12(8):591-606. doi: 10.1080/15592294.2017.1334023. Epub 2017 May 30.


Associating cellular epigenetic models with human phenotypes.

Lappalainen T, Greally JM.

Nat Rev Genet. 2017 Jul;18(7):441-451. doi: 10.1038/nrg.2017.32. Epub 2017 May 30. Review.


CDC42-related genes are upregulated in helper T cells from obese asthmatic children.

Rastogi D, Nico J, Johnston AD, Tobias TAM, Jorge Y, Macian F, Greally JM.

J Allergy Clin Immunol. 2018 Feb;141(2):539-548.e7. doi: 10.1016/j.jaci.2017.04.016. Epub 2017 May 4.


Population Epigenetics.

Greally JM.

Curr Opin Syst Biol. 2017 Feb;1:84-89. doi: 10.1016/j.coisb.2017.01.004. Epub 2017 Jan 27.


SMITE: an R/Bioconductor package that identifies network modules by integrating genomic and epigenomic information.

Wijetunga NA, Johnston AD, Maekawa R, Delahaye F, Ulahannan N, Kim K, Greally JM.

BMC Bioinformatics. 2017 Jan 18;18(1):41. doi: 10.1186/s12859-017-1477-3.


Non-CpG methylation by DNMT3B facilitates REST binding and gene silencing in developing mouse hearts.

Zhang D, Wu B, Wang P, Wang Y, Lu P, Nechiporuk T, Floss T, Greally JM, Zheng D, Zhou B.

Nucleic Acids Res. 2017 Apr 7;45(6):3102-3115. doi: 10.1093/nar/gkw1258.

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