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Items: 1 to 20 of 109

1.

Mapping transcription mechanisms from multimodal genomic data.

Chang HH, McGeachie M, Alterovitz G, Ramoni MF.

BMC Bioinformatics. 2010 Oct 28;11 Suppl 9:S2. doi: 10.1186/1471-2105-11-S9-S2.

2.

Integrating genome-wide genetic variations and monocyte expression data reveals trans-regulated gene modules in humans.

Rotival M, Zeller T, Wild PS, Maouche S, Szymczak S, Schillert A, Castagné R, Deiseroth A, Proust C, Brocheton J, Godefroy T, Perret C, Germain M, Eleftheriadis M, Sinning CR, Schnabel RB, Lubos E, Lackner KJ, Rossmann H, Münzel T, Rendon A; Cardiogenics Consortium, Erdmann J, Deloukas P, Hengstenberg C, Diemert P, Montalescot G, Ouwehand WH, Samani NJ, Schunkert H, Tregouet DA, Ziegler A, Goodall AH, Cambien F, Tiret L, Blankenberg S.

PLoS Genet. 2011 Dec;7(12):e1002367. doi: 10.1371/journal.pgen.1002367. Epub 2011 Dec 1.

3.

Large-scale East-Asian eQTL mapping reveals novel candidate genes for LD mapping and the genomic landscape of transcriptional effects of sequence variants.

Narahara M, Higasa K, Nakamura S, Tabara Y, Kawaguchi T, Ishii M, Matsubara K, Matsuda F, Yamada R.

PLoS One. 2014 Jun 23;9(6):e100924. doi: 10.1371/journal.pone.0100924. eCollection 2014.

4.

Genomic variation and its impact on gene expression in Drosophila melanogaster.

Massouras A, Waszak SM, Albarca-Aguilera M, Hens K, Holcombe W, Ayroles JF, Dermitzakis ET, Stone EA, Jensen JD, Mackay TF, Deplancke B.

PLoS Genet. 2012;8(11):e1003055. doi: 10.1371/journal.pgen.1003055. Epub 2012 Nov 15.

5.

Conditional entropy in variation-adjusted windows detects selection signatures associated with expression quantitative trait loci (eQTLs).

Handelman SK, Seweryn M, Smith RM, Hartmann K, Wang D, Pietrzak M, Johnson AD, Kloczkowski A, Sadee W.

BMC Genomics. 2015;16 Suppl 8:S8. doi: 10.1186/1471-2164-16-S8-S8. Epub 2015 Jun 18.

6.

Cis-regulatory variations: a study of SNPs around genes showing cis-linkage in segregating mouse populations.

GuhaThakurta D, Xie T, Anand M, Edwards SW, Li G, Wang SS, Schadt EE.

BMC Genomics. 2006 Sep 15;7:235.

7.

A cross-platform analysis of 14,177 expression quantitative trait loci derived from lymphoblastoid cell lines.

Liang L, Morar N, Dixon AL, Lathrop GM, Abecasis GR, Moffatt MF, Cookson WO.

Genome Res. 2013 Apr;23(4):716-26. doi: 10.1101/gr.142521.112. Epub 2013 Jan 23.

8.

Integrative modeling of eQTLs and cis-regulatory elements suggests mechanisms underlying cell type specificity of eQTLs.

Brown CD, Mangravite LM, Engelhardt BE.

PLoS Genet. 2013;9(8):e1003649. doi: 10.1371/journal.pgen.1003649. Epub 2013 Aug 1.

9.

Mapping eQTLs in the Norfolk Island genetic isolate identifies candidate genes for CVD risk traits.

Benton MC, Lea RA, Macartney-Coxson D, Carless MA, Göring HH, Bellis C, Hanna M, Eccles D, Chambers GK, Curran JE, Harper JL, Blangero J, Griffiths LR.

Am J Hum Genet. 2013 Dec 5;93(6):1087-99. doi: 10.1016/j.ajhg.2013.11.004.

10.

Expression QTL-based analyses reveal the mechanisms underlying colorectal cancer predisposition.

Zhang J, Jiang K, Shen Z, Gao Z, Lv L, Ye Y, Wang S.

Tumour Biol. 2014 Dec;35(12):12607-11. doi: 10.1007/s13277-014-2583-8. Epub 2014 Sep 10.

PMID:
25201067
11.

Inference of modules associated to eQTLs.

Kreimer A, Litvin O, Hao K, Molony C, Pe'er D, Pe'er I.

Nucleic Acids Res. 2012 Jul;40(13):e98. doi: 10.1093/nar/gks269. Epub 2012 Mar 24.

12.

Global analysis of the impact of environmental perturbation on cis-regulation of gene expression.

Grundberg E, Adoue V, Kwan T, Ge B, Duan QL, Lam KC, Koka V, Kindmark A, Weiss ST, Tantisira K, Mallmin H, Raby BA, Nilsson O, Pastinen T.

PLoS Genet. 2011 Jan 20;7(1):e1001279. doi: 10.1371/journal.pgen.1001279.

13.

Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA.

Fehrmann RS, Jansen RC, Veldink JH, Westra HJ, Arends D, Bonder MJ, Fu J, Deelen P, Groen HJ, Smolonska A, Weersma RK, Hofstra RM, Buurman WA, Rensen S, Wolfs MG, Platteel M, Zhernakova A, Elbers CC, Festen EM, Trynka G, Hofker MH, Saris CG, Ophoff RA, van den Berg LH, van Heel DA, Wijmenga C, Te Meerman GJ, Franke L.

PLoS Genet. 2011 Aug;7(8):e1002197. doi: 10.1371/journal.pgen.1002197. Epub 2011 Aug 4.

14.

Mapping the genetic architecture of gene regulation in whole blood.

Schramm K, Marzi C, Schurmann C, Carstensen M, Reinmaa E, Biffar R, Eckstein G, Gieger C, Grabe HJ, Homuth G, Kastenmüller G, Mägi R, Metspalu A, Mihailov E, Peters A, Petersmann A, Roden M, Strauch K, Suhre K, Teumer A, Völker U, Völzke H, Wang-Sattler R, Waldenberger M, Meitinger T, Illig T, Herder C, Grallert H, Prokisch H.

PLoS One. 2014 Apr 16;9(4):e93844. doi: 10.1371/journal.pone.0093844. eCollection 2014.

15.

Synthesis of 53 tissue and cell line expression QTL datasets reveals master eQTLs.

Zhang X, Gierman HJ, Levy D, Plump A, Dobrin R, Goring HH, Curran JE, Johnson MP, Blangero J, Kim SK, O'Donnell CJ, Emilsson V, Johnson AD.

BMC Genomics. 2014 Jun 27;15:532. doi: 10.1186/1471-2164-15-532.

16.

Learning gene networks under SNP perturbations using eQTL datasets.

Zhang L, Kim S.

PLoS Comput Biol. 2014 Feb 27;10(2):e1003420. doi: 10.1371/journal.pcbi.1003420. eCollection 2014 Feb. Erratum in: PLoS Comput Biol. 2014 Apr;10(4):e1003608.

17.

Cis and trans effects of human genomic variants on gene expression.

Bryois J, Buil A, Evans DM, Kemp JP, Montgomery SB, Conrad DF, Ho KM, Ring S, Hurles M, Deloukas P, Davey Smith G, Dermitzakis ET.

PLoS Genet. 2014 Jul 10;10(7):e1004461. doi: 10.1371/journal.pgen.1004461. eCollection 2014 Jul.

18.

Mediation analysis demonstrates that trans-eQTLs are often explained by cis-mediation: a genome-wide analysis among 1,800 South Asians.

Pierce BL, Tong L, Chen LS, Rahaman R, Argos M, Jasmine F, Roy S, Paul-Brutus R, Westra HJ, Franke L, Esko T, Zaman R, Islam T, Rahman M, Baron JA, Kibriya MG, Ahsan H.

PLoS Genet. 2014 Dec 4;10(12):e1004818. doi: 10.1371/journal.pgen.1004818. eCollection 2014 Dec.

19.

Airway Epithelial Expression Quantitative Trait Loci Reveal Genes Underlying Asthma and Other Airway Diseases.

Luo W, Obeidat M, Di Narzo AF, Chen R, Sin DD, Paré PD, Hao K.

Am J Respir Cell Mol Biol. 2016 Feb;54(2):177-87. doi: 10.1165/rcmb.2014-0381OC.

PMID:
26102239
20.

Gene expression quantitative trait locus analysis of 16 000 barley genes reveals a complex pattern of genome-wide transcriptional regulation.

Potokina E, Druka A, Luo Z, Wise R, Waugh R, Kearsey M.

Plant J. 2008 Jan;53(1):90-101. Epub 2007 Oct 17.

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