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Items: 1 to 20 of 62

1.

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data.

Pique-Regi R, Degner JF, Pai AA, Gaffney DJ, Gilad Y, Pritchard JK.

Genome Res. 2011 Mar;21(3):447-55. doi: 10.1101/gr.112623.110. Epub 2010 Nov 24.

2.

Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain.

Gibbs JR, van der Brug MP, Hernandez DG, Traynor BJ, Nalls MA, Lai SL, Arepalli S, Dillman A, Rafferty IP, Troncoso J, Johnson R, Zielke HR, Ferrucci L, Longo DL, Cookson MR, Singleton AB.

PLoS Genet. 2010 May 13;6(5):e1000952. doi: 10.1371/journal.pgen.1000952.

3.

CpG islands influence chromatin structure via the CpG-binding protein Cfp1.

Thomson JP, Skene PJ, Selfridge J, Clouaire T, Guy J, Webb S, Kerr AR, Deaton A, Andrews R, James KD, Turner DJ, Illingworth R, Bird A.

Nature. 2010 Apr 15;464(7291):1082-6. doi: 10.1038/nature08924.

4.

Heritable individual-specific and allele-specific chromatin signatures in humans.

McDaniell R, Lee BK, Song L, Liu Z, Boyle AP, Erdos MR, Scott LJ, Morken MA, Kucera KS, Battenhouse A, Keefe D, Collins FS, Willard HF, Lieb JD, Furey TS, Crawford GE, Iyer VR, Birney E.

Science. 2010 Apr 9;328(5975):235-9. doi: 10.1126/science.1184655. Epub 2010 Mar 18.

5.

Variation in transcription factor binding among humans.

Kasowski M, Grubert F, Heffelfinger C, Hariharan M, Asabere A, Waszak SM, Habegger L, Rozowsky J, Shi M, Urban AE, Hong MY, Karczewski KJ, Huber W, Weissman SM, Gerstein MB, Korbel JO, Snyder M.

Science. 2010 Apr 9;328(5975):232-5. doi: 10.1126/science.1183621. Epub 2010 Mar 18.

6.

Comparison of the DNA methylation profiles of human peripheral blood cells and transformed B-lymphocytes.

Sun YV, Turner ST, Smith JA, Hammond PI, Lazarus A, Van De Rostyne JL, Cunningham JM, Kardia SL.

Hum Genet. 2010 Jun;127(6):651-8. doi: 10.1007/s00439-010-0810-y. Epub 2010 Mar 18.

7.

Genetic analysis of variation in transcription factor binding in yeast.

Zheng W, Zhao H, Mancera E, Steinmetz LM, Snyder M.

Nature. 2010 Apr 22;464(7292):1187-91. doi: 10.1038/nature08934. Epub 2010 Mar 17.

8.

Understanding mechanisms underlying human gene expression variation with RNA sequencing.

Pickrell JK, Marioni JC, Pai AA, Degner JF, Engelhardt BE, Nkadori E, Veyrieras JB, Stephens M, Gilad Y, Pritchard JK.

Nature. 2010 Apr 1;464(7289):768-72. doi: 10.1038/nature08872. Epub 2010 Mar 10.

9.

Transcriptome genetics using second generation sequencing in a Caucasian population.

Montgomery SB, Sammeth M, Gutierrez-Arcelus M, Lach RP, Ingle C, Nisbett J, Guigo R, Dermitzakis ET.

Nature. 2010 Apr 1;464(7289):773-7. doi: 10.1038/nature08903. Epub 2010 Mar 10.

10.

Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains.

Rakyan VK, Down TA, Maslau S, Andrew T, Yang TP, Beyan H, Whittaker P, McCann OT, Finer S, Valdes AM, Leslie RD, Deloukas P, Spector TD.

Genome Res. 2010 Apr;20(4):434-9. doi: 10.1101/gr.103101.109. Epub 2010 Mar 10.

11.

Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer.

Teschendorff AE, Menon U, Gentry-Maharaj A, Ramus SJ, Weisenberger DJ, Shen H, Campan M, Noushmehr H, Bell CG, Maxwell AP, Savage DA, Mueller-Holzner E, Marth C, Kocjan G, Gayther SA, Jones A, Beck S, Wagner W, Laird PW, Jacobs IJ, Widschwendter M.

Genome Res. 2010 Apr;20(4):440-6. doi: 10.1101/gr.103606.109. Epub 2010 Mar 10.

12.

Genetic control of individual differences in gene-specific methylation in human brain.

Zhang D, Cheng L, Badner JA, Chen C, Chen Q, Luo W, Craig DW, Redman M, Gershon ES, Liu C.

Am J Hum Genet. 2010 Mar 12;86(3):411-9. doi: 10.1016/j.ajhg.2010.02.005.

13.

Allelic skewing of DNA methylation is widespread across the genome.

Schalkwyk LC, Meaburn EL, Smith R, Dempster EL, Jeffries AR, Davies MN, Plomin R, Mill J.

Am J Hum Genet. 2010 Feb 12;86(2):196-212. doi: 10.1016/j.ajhg.2010.01.014.

14.

Parental origin of sequence variants associated with complex diseases.

Kong A, Steinthorsdottir V, Masson G, Thorleifsson G, Sulem P, Besenbacher S, Jonasdottir A, Sigurdsson A, Kristinsson KT, Jonasdottir A, Frigge ML, Gylfason A, Olason PI, Gudjonsson SA, Sverrisson S, Stacey SN, Sigurgeirsson B, Benediktsdottir KR, Sigurdsson H, Jonsson T, Benediktsson R, Olafsson JH, Johannsson OT, Hreidarsson AB, Sigurdsson G; DIAGRAM Consortium, Ferguson-Smith AC, Gudbjartsson DF, Thorsteinsdottir U, Stefansson K.

Nature. 2009 Dec 17;462(7275):868-74. doi: 10.1038/nature08625.

15.

EBV transformation and cell culturing destabilizes DNA methylation in human lymphoblastoid cell lines.

Grafodatskaya D, Choufani S, Ferreira JC, Butcher DT, Lou Y, Zhao C, Scherer SW, Weksberg R.

Genomics. 2010 Feb;95(2):73-83. doi: 10.1016/j.ygeno.2009.12.001. Epub 2009 Dec 18.

16.

Human DNA methylomes at base resolution show widespread epigenomic differences.

Lister R, Pelizzola M, Dowen RH, Hawkins RD, Hon G, Tonti-Filippini J, Nery JR, Lee L, Ye Z, Ngo QM, Edsall L, Antosiewicz-Bourget J, Stewart R, Ruotti V, Millar AH, Thomson JA, Ren B, Ecker JR.

Nature. 2009 Nov 19;462(7271):315-22. doi: 10.1038/nature08514. Epub 2009 Oct 14.

17.

Origins and functional impact of copy number variation in the human genome.

Conrad DF, Pinto D, Redon R, Feuk L, Gokcumen O, Zhang Y, Aerts J, Andrews TD, Barnes C, Campbell P, Fitzgerald T, Hu M, Ihm CH, Kristiansson K, Macarthur DG, Macdonald JR, Onyiah I, Pang AW, Robson S, Stirrups K, Valsesia A, Walter K, Wei J; Wellcome Trust Case Control Consortium, Tyler-Smith C, Carter NP, Lee C, Scherer SW, Hurles ME.

Nature. 2010 Apr 1;464(7289):704-12. doi: 10.1038/nature08516. Epub 2009 Oct 7.

18.

Repression of transposable elements by histone biotinylation.

Zempleni J, Chew YC, Bao B, Pestinger V, Wijeratne SS.

J Nutr. 2009 Dec;139(12):2389-92. doi: 10.3945/jn.109.111856. Epub 2009 Oct 7.

19.

The relationship of DNA methylation with age, gender and genotype in twins and healthy controls.

Boks MP, Derks EM, Weisenberger DJ, Strengman E, Janson E, Sommer IE, Kahn RS, Ophoff RA.

PLoS One. 2009 Aug 26;4(8):e6767. doi: 10.1371/journal.pone.0006767.

20.

Gene expression in early expanded parthenogenetic and in vitro fertilized bovine blastocysts.

Gómez E, Caamaño JN, Bermejo-Alvarez P, Díez C, Muñoz M, Martín D, Carrocera S, Gutiérrez-Adán A.

J Reprod Dev. 2009 Dec;55(6):607-14. Epub 2009 Aug 24.

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