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Items: 1 to 20 of 100

1.

Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection.

Ye CJ, Chen J, Villani AC, Gate RE, Subramaniam M, Bhangale T, Lee MN, Raj T, Raychowdhury R, Li W, Rogel N, Simmons S, Imboywa SH, Chipendo PI, McCabe C, Lee MH, Frohlich IY, Stranger BE, De Jager PL, Regev A, Behrens T, Hacohen N.

Genome Res. 2018 Dec;28(12):1812-1825. doi: 10.1101/gr.240390.118. Epub 2018 Nov 16.

2.

Balancing selection maintains a form of ERAP2 that undergoes nonsense-mediated decay and affects antigen presentation.

Andrés AM, Dennis MY, Kretzschmar WW, Cannons JL, Lee-Lin SQ, Hurle B; NISC Comparative Sequencing Program, Schwartzberg PL, Williamson SH, Bustamante CD, Nielsen R, Clark AG, Green ED.

PLoS Genet. 2010 Oct 14;6(10):e1001157. doi: 10.1371/journal.pgen.1001157.

3.

Genetic diversity at endoplasmic reticulum aminopeptidases is maintained by balancing selection and is associated with natural resistance to HIV-1 infection.

Cagliani R, Riva S, Biasin M, Fumagalli M, Pozzoli U, Lo Caputo S, Mazzotta F, Piacentini L, Bresolin N, Clerici M, Sironi M.

Hum Mol Genet. 2010 Dec 1;19(23):4705-14. doi: 10.1093/hmg/ddq401. Epub 2010 Sep 15.

PMID:
20843824
4.

Genetic Variants in ERAP1 and ERAP2 Associated With Immune-Mediated Diseases Influence Protein Expression and the Isoform Profile.

Hanson AL, Cuddihy T, Haynes K, Loo D, Morton CJ, Oppermann U, Leo P, Thomas GP, Lê Cao KA, Kenna TJ, Brown MA.

Arthritis Rheumatol. 2018 Feb;70(2):255-265. doi: 10.1002/art.40369. Epub 2017 Dec 29.

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.

Common genetic variants modulate pathogen-sensing responses in human dendritic cells.

Lee MN, Ye C, Villani AC, Raj T, Li W, Eisenhaure TM, Imboywa SH, Chipendo PI, Ran FA, Slowikowski K, Ward LD, Raddassi K, McCabe C, Lee MH, Frohlich IY, Hafler DA, Kellis M, Raychaudhuri S, Zhang F, Stranger BE, Benoist CO, De Jager PL, Regev A, Hacohen N.

Science. 2014 Mar 7;343(6175):1246980. doi: 10.1126/science.1246980.

7.

Long non-coding RNA PSMB8-AS1 regulates influenza virus replication.

More S, Zhu Z, Lin K, Huang C, Pushparaj S, Liang Y, Sathiaseelan R, Yang X, Liu L.

RNA Biol. 2019 Mar;16(3):340-353. doi: 10.1080/15476286.2019.1572448. Epub 2019 Jan 28.

PMID:
30669933
8.

Autoimmune risk variants in ERAP2 are associated with gene-expression levels in thymus.

Gabrielsen IS, Viken MK, Amundsen SS, Helgeland H, Holm K, Flåm ST, Lie BA.

Genes Immun. 2016 Dec;17(7):406-411. doi: 10.1038/gene.2016.39. Epub 2016 Nov 10.

PMID:
27829666
9.

Modeling host genetic regulation of influenza pathogenesis in the collaborative cross.

Ferris MT, Aylor DL, Bottomly D, Whitmore AC, Aicher LD, Bell TA, Bradel-Tretheway B, Bryan JT, Buus RJ, Gralinski LE, Haagmans BL, McMillan L, Miller DR, Rosenzweig E, Valdar W, Wang J, Churchill GA, Threadgill DW, McWeeney SK, Katze MG, Pardo-Manuel de Villena F, Baric RS, Heise MT.

PLoS Pathog. 2013 Feb;9(2):e1003196. doi: 10.1371/journal.ppat.1003196. Epub 2013 Feb 28.

10.

Topological analysis of metabolic networks integrating co-segregating transcriptomes and metabolomes in type 2 diabetic rat congenic series.

Dumas ME, Domange C, Calderari S, Martínez AR, Ayala R, Wilder SP, Suárez-Zamorano N, Collins SC, Wallis RH, Gu Q, Wang Y, Hue C, Otto GW, Argoud K, Navratil V, Mitchell SC, Lindon JC, Holmes E, Cazier JB, Nicholson JK, Gauguier D.

Genome Med. 2016 Sep 30;8(1):101.

11.

Strand-Specific Dual RNA Sequencing of Bronchial Epithelial Cells Infected with Influenza A/H3N2 Viruses Reveals Splicing of Gene Segment 6 and Novel Host-Virus Interactions.

Fabozzi G, Oler AJ, Liu P, Chen Y, Mindaye S, Dolan MA, Kenney H, Gucek M, Zhu J, Rabin RL, Subbarao K.

J Virol. 2018 Aug 16;92(17). pii: e00518-18. doi: 10.1128/JVI.00518-18. Print 2018 Sep 1.

12.

Mapping eQTLs with RNA-seq reveals novel susceptibility genes, non-coding RNAs and alternative-splicing events in systemic lupus erythematosus.

Odhams CA, Cortini A, Chen L, Roberts AL, Viñuela A, Buil A, Small KS, Dermitzakis ET, Morris DL, Vyse TJ, Cunninghame Graham DS.

Hum Mol Genet. 2017 Mar 1;26(5):1003-1017. doi: 10.1093/hmg/ddw417.

13.

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.

14.

PathCellNet: Cell-type specific pathogen-response network explorer.

Katanic D, Khan A, Thakar J.

J Immunol Methods. 2016 Dec;439:15-22. doi: 10.1016/j.jim.2016.09.005. Epub 2016 Sep 20.

PMID:
27659011
15.

Innate immune activity conditions the effect of regulatory variants upon monocyte gene expression.

Fairfax BP, Humburg P, Makino S, Naranbhai V, Wong D, Lau E, Jostins L, Plant K, Andrews R, McGee C, Knight JC.

Science. 2014 Mar 7;343(6175):1246949. doi: 10.1126/science.1246949.

16.

Mapping adipose and muscle tissue expression quantitative trait loci in African Americans to identify genes for type 2 diabetes and obesity.

Sajuthi SP, Sharma NK, Chou JW, Palmer ND, McWilliams DR, Beal J, Comeau ME, Ma L, Calles-Escandon J, Demons J, Rogers S, Cherry K, Menon L, Kouba E, Davis D, Burris M, Byerly SJ, Ng MC, Maruthur NM, Patel SR, Bielak LF, Lange LA, Guo X, Sale MM, Chan KH, Monda KL, Chen GK, Taylor K, Palmer C, Edwards TL, North KE, Haiman CA, Bowden DW, Freedman BI, Langefeld CD, Das SK.

Hum Genet. 2016 Aug;135(8):869-80. doi: 10.1007/s00439-016-1680-8. Epub 2016 May 19.

17.

Comparative analysis of anti-viral transcriptomics reveals novel effects of influenza immune antagonism.

Thakar J, Hartmann BM, Marjanovic N, Sealfon SC, Kleinstein SH.

BMC Immunol. 2015 Aug 14;16:46. doi: 10.1186/s12865-015-0107-y.

18.

Identification of a Sjögren's syndrome susceptibility locus at OAS1 that influences isoform switching, protein expression, and responsiveness to type I interferons.

Li H, Reksten TR, Ice JA, Kelly JA, Adrianto I, Rasmussen A, Wang S, He B, Grundahl KM, Glenn SB, Miceli-Richard C, Bowman S, Lester S, Eriksson P, Eloranta ML, Brun JG, Gøransson LG, Harboe E, Guthridge JM, Kaufman KM, Kvarnström M, Cunninghame Graham DS, Patel K, Adler AJ, Farris AD, Brennan MT, Chodosh J, Gopalakrishnan R, Weisman MH, Venuturupalli S, Wallace DJ, Hefner KS, Houston GD, Huang AJW, Hughes PJ, Lewis DM, Radfar L, Vista ES, Edgar CE, Rohrer MD, Stone DU, Vyse TJ, Harley JB, Gaffney PM, James JA, Turner S, Alevizos I, Anaya JM, Rhodus NL, Segal BM, Montgomery CG, Scofield RH, Kovats S, Mariette X, Rönnblom L, Witte T, Rischmueller M, Wahren-Herlenius M, Omdal R, Jonsson R, Ng WF; for UK Primary Sjögren's Syndrome Registry, Nordmark G, Lessard CJ, Sivils KL.

PLoS Genet. 2017 Jun 22;13(6):e1006820. doi: 10.1371/journal.pgen.1006820. eCollection 2017 Jun.

19.

Pervasive haplotypic variation in the spliceo-transcriptome of the human major histocompatibility complex.

Vandiedonck C, Taylor MS, Lockstone HE, Plant K, Taylor JM, Durrant C, Broxholme J, Fairfax BP, Knight JC.

Genome Res. 2011 Jul;21(7):1042-54. doi: 10.1101/gr.116681.110. Epub 2011 May 31.

20.

Profiling RNA-Seq at multiple resolutions markedly increases the number of causal eQTLs in autoimmune disease.

Odhams CA, Cunninghame Graham DS, Vyse TJ.

PLoS Genet. 2017 Oct 23;13(10):e1007071. doi: 10.1371/journal.pgen.1007071. eCollection 2017 Oct.

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