Fine-mapping of genetic loci driving spontaneous clearance of hepatitis C virus infection

被引：5

作者：

Huang, Hailiang ^{[1
,2
,3
]}

Duggal, Priya ^{[4
]}

Thio, Chloe L. ^{[5
]}

Latanich, Rachel

Goedert, James J. ^{[6
]}

Mangia, Alessandra ^{[7
]}

Cox, Andrea L. ^{[5
]}

Kirk, Gregory D. ^{[5
]}

Mehta, Shruti ^{[4
,5
]}

Aneja, Jasneet ^{[3
]}

Alric, Laurent ^{[8
]}

Donfield, Sharyne M. ^{[9
]}

Cramp, Matthew E. ^{[10
]}

Khakoo, Salim I. ^{[11
]}

Tobler, Leslie H. ^{[12
,13
]}

Busch, Michael ^{[12
,13
]}

Alexander, Graeme J. ^{[14
,15
]}

Rosen, Hugo R. ^{[16
]}

Edlin, Brian R. ^{[17
]}

Segal, Florencia P. ^{[18
]}

Lauer, Georg M. ^{[3
]}

Thomas, David L.

Daly, Mark J. ^{[1
,2
,3
]}

Chung, Raymond T. ^{[3
]}

Kim, Arthur Y. ^{[3
]}

机构：

[1] Massachusetts Gen Hosp, Analyt & Translat Genet Unit, Boston, MA 02114 USA

[2] Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA

[3] Harvard Med Sch, Massachusetts Gen Hosp, Dept Med, Boston, MA 02114 USA

[4] Johns Hopkins Univ, Bloomberg Sch Publ Hlth, Baltimore, MD 21205 USA

[5] Johns Hopkins Univ, Sch Med, Baltimore, MD 21205 USA

[6] NCI, Div Canc Epidemiol & Genet, Rockville, MD 20852 USA

[7] IRCCS Casa Sollievo Sofferenza, San Giovanni Rotondo, Italy

[8] Univ Toulouse III, Purpan Hosp, Dept Med, Toulouse, France

[9] Rho, Chapel Hill, NC 27517 USA

[10] Plymouth Hosp NHS Trust, South West Liver Unit, Plymouth, Devon, England

[11] Southampton Gen Hosp, Henry Welcome Labs, Southampton, Hants, England

[12] Univ Calif San Francisco, San Francisco, CA 94118 USA

[13] Blood Syst Res Inst, San Francisco, CA 94118 USA

[14] Cambridge Univ Hosp NHS Fdn Trust, Cambridge, England

[15] Addenbrookes Hosp, Cambridge, England

[16] Univ Colorado, Aurora, CO 90045 USA

[17] State Univ New York Downstate Coll Med, Brooklyn, NY USA

[18] Brigham & Womens Hosp, 75 Francis St, Boston, MA 02115 USA

来源：

SCIENTIFIC REPORTS | 2017年 / 7卷

基金：

美国国家卫生研究院;

关键词：

INFLAMMATORY-BOWEL-DISEASE; 38 SUSCEPTIBILITY LOCI; CLASS-I; ASSOCIATION; COMMON; RISK; MAP;

D O I：

10.1038/s41598-017-16011-2

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Approximately three quarters of acute hepatitis C (HCV) infections evolve to a chronic state, while one quarter are spontaneously cleared. Genetic predispositions strongly contribute to the development of chronicity. We have conducted a genome-wide association study to identify genomic variants underlying HCV spontaneous clearance using ImmunoChip in European and African ancestries. We confirmed two previously reported significant associations, in the IL28B/IFNL4 and the major histocompatibility complex (MHC) regions, with spontaneous clearance in the European population. We further fine-mapped the association in the MHC to a region of about 50 kilo base pairs, down from 1 mega base pairs in the previous study. Additional analyses suggested that the association in MHC is stronger in samples from North America than those from Europe.

引用

页数：9

共 31 条

[1] A haplotype map of the human genome
Altshuler, D
Brooks, LD
Chakravarti, A
Collins, FS
Daly, MJ
Donnelly, P
Gibbs, RA
Belmont, JW
Boudreau, A
Leal, SM
Hardenbol, P
Pasternak, S
Wheeler, DA
Willis, TD
Yu, FL
Yang, HM
Zeng, CQ
Gao, Y
Hu, HR
Hu, WT
Li, CH
Lin, W
Liu, SQ
Pan, H
Tang, XL
Wang, J
Wang, W
Yu, J
Zhang, B
Zhang, QR
Zhao, HB
Zhao, H
Zhou, J
Gabriel, SB
Barry, R
Blumenstiel, B
Camargo, A
Defelice, M
Faggart, M
Goyette, M
Gupta, S
Moore, J
Nguyen, H
Onofrio, RC
Parkin, M
Roy, J
Stahl, E
Winchester, E
Ziaugra, L
Shen, Y
[J]. NATURE, 2005, 437 (7063) : 1299 - 1320
[2] A map of human genome variation from population-scale sequencing
Altshuler, David
Durbin, Richard M.
Abecasis, Goncalo R.
Bentley, David R.
Chakravarti, Aravinda
Clark, Andrew G.
Collins, Francis S.
De la Vega, Francisco M.
Donnelly, Peter
Egholm, Michael
Flicek, Paul
Gabriel, Stacey B.
Gibbs, Richard A.
Knoppers, Bartha M.
Lander, Eric S.
Lehrach, Hans
Mardis, Elaine R.
McVean, Gil A.
Nickerson, DebbieA.
Peltonen, Leena
Schafer, Alan J.
Sherry, Stephen T.
Wang, Jun
Wilson, Richard K.
Gibbs, Richard A.
Deiros, David
Metzker, Mike
Muzny, Donna
Reid, Jeff
Wheeler, David
Wang, Jun
Li, Jingxiang
Jian, Min
Li, Guoqing
Li, Ruiqiang
Liang, Huiqing
Tian, Geng
Wang, Bo
Wang, Jian
Wang, Wei
Yang, Huanming
Zhang, Xiuqing
Zheng, Huisong
Lander, Eric S.
Altshuler, David L.
Ambrogio, Lauren
Bloom, Toby
Cibulskis, Kristian
Fennell, Tim J.
Gabriel, Stacey B.
[J]. NATURE, 2010, 467 (7319) : 1061 - 1073
[3] Interleukin 28B polymorphisms are the only common genetic variants associated with low-density lipoprotein cholesterol (LDL-C) in genotype-1 chronic hepatitis C and determine the association between LDL-C and treatment response
Clark, P. J.
Thompson, A. J.
Zhu, M.
Vock, D. M.
Zhu, Q.
Ge, D.
Patel, K.
Harrison, S. A.
Urban, T. J.
Naggie, S.
Fellay, J.
Tillmann, H. L.
Shianna, K.
Noviello, S.
Pedicone, L. D.
Esteban, R.
Kwo, P.
Sulkowski, M. S.
Afdhal, N.
Albrecht, J. K.
Goldstein, D. B.
McHutchison, J. G.
Muir, A. J.
[J]. JOURNAL OF VIRAL HEPATITIS, 2012, 19 (05) : 332 - 340
[4] Identification of multiple risk variants for ankylosing spondylitis through high-density genotyping of immune-related loci
Cortes, Adrian
Hadler, Johanna
Pointon, Jenny P.
Robinson, Philip C.
Karaderi, Tugce
Leo, Paul
Cremin, Katie
Pryce, Karena
Harris, Jessica
Lee, Seunghun
Joo, Kyung Bin
Shim, Seung-Cheol
Weisman, Michael
Ward, Michael
Zhou, Xiaodong
Garchon, Henri-Jean
Chiocchia, Gilles
Nossent, Johannes
Lie, Benedicte A.
Forre, Oystein
Tuomilehto, Jaakko
Laiho, Kari
Jiang, Lei
Liu, Yu
Wu, Xin
Bradbury, Linda A.
Elewaut, Dirk
Burgos-Vargas, Ruben
Stebbings, Simon
Appleton, Louise
Farrah, Claire
Lau, Jonathan
Kenna, Tony J.
Haroon, Nigil
Ferreira, Manuel A.
Yang, Jian
Mulero, Juan
Fernandez-Sueiro, Jose Luis
Gonzalez-Gay, Miguel A.
Lopez-Larrea, Carlos
Deloukas, Panos
Donnelly, Peter
Bowness, Paul
Gafney, Karl
Gaston, Hill
Gladman, Dafna D.
Rahman, Proton
Maksymowych, Walter P.
Xu, Huji
Crusius, J. Bart A.
[J]. NATURE GENETICS, 2013, 45 (07) : 730 - +
[5] Promise and pitfalls of the Immunochip
Cortes, Adrian
Brown, Matthew A.
[J]. ARTHRITIS RESEARCH & THERAPY, 2011, 13 (01)
[6] Pervasive Sharing of Genetic Effects in Autoimmune Disease
Cotsapas, Chris
Voight, Benjamin F.
Rossin, Elizabeth
Lage, Kasper
Neale, Benjamin M.
Wallace, Chris
Abecasis, Goncalo R.
Barrett, Jeffrey C.
Behrens, Timothy
Cho, Judy
De Jager, Philip L.
Elder, James T.
Graham, Robert R.
Gregersen, Peter
Klareskog, Lars
Siminovitch, Katherine A.
van Heel, David A.
Wijmenga, Cisca
Worthington, Jane
Todd, John A.
Hafler, David A.
Rich, Stephen S.
Daly, Mark J.
[J]. PLOS GENETICS, 2011, 7 (08)
[7] Genome-Wide Association Study of Spontaneous Resolution of Hepatitis C Virus Infection: Data From Multiple Cohorts
Duggal, Priya
Thio, Chloe L.
Wojcik, Genevieve L.
Goedert, James J.
Mangia, Alessandra
Latanich, Rachel
Kim, Arthur Y.
Lauer, Georg M.
Chung, Raymond T.
Peters, Marion G.
Kirk, Gregory D.
Mehta, Shruti H.
Cox, Andrea L.
Khakoo, Salim I.
Alric, Laurent
Cramp, Matthew E.
Donfield, Sharyne M.
Edlin, Brian R.
Tobler, Leslie H.
Busch, Michael P.
Alexander, Graeme
Rosen, Hugo R.
Gao, Xiaojiang
Abdel-Hamid, Mohamed
Apps, Richard
Carrington, Mary
Thomas, David L.
[J]. ANNALS OF INTERNAL MEDICINE, 2013, 158 (04) : 235 - 245
[8] Genetic variation in IL28B predicts hepatitis C treatment-induced viral clearance
Ge, Dongliang
Fellay, Jacques
Thompson, Alexander J.
Simon, Jason S.
Shianna, Kevin V.
Urban, Thomas J.
Heinzen, Erin L.
Qiu, Ping
Bertelsen, Arthur H.
Muir, Andrew J.
Sulkowski, Mark
McHutchison, John G.
Goldstein, David B.
[J]. NATURE, 2009, 461 (7262) : 399 - 401
[9] Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine
Gormley, Padhraig
Anttila, Verneri
Winsvold, Bendik S.
Palta, Priit
Esko, Tonu
Pers, Tune H.
Farh, Kai-How
Cuenca-Leon, Ester
Muona, Mikko
Furlotte, Nicholas A.
Kurth, Tobias
Ingason, Andres
McMahon, George
Ligthart, Lannie
Terwindt, Gisela M.
Kallela, Mikko
Freilinger, Tobias M.
Ran, Caroline
Gordon, Scott G.
Stam, Anine H.
Steinberg, Stacy
Borck, Guntram
Koiranen, Markku
Quaye, Lydia
Adams, Hieab H. H.
Lehtimaki, Terho
Sarin, Antti-Pekka
Wedenoja, Juho
Hinds, David A.
Buring, Julie E.
Schurks, Markus
Ridker, Paul M.
Hrafnsdottir, Maria Gudlaug
Stefansson, Hreinn
Ring, Susan M.
Hottenga, Jouke-Jan
Penninx, Brenda W. J. H.
Farkkila, Markus
Artto, Ville
Kaunisto, Mari
Vepsalainen, Salli
Malik, Rainer
Heath, Andrew C.
Madden, Pamela A. F.
Martin, Nicholas G.
Montgomery, Grant W.
Kurki, Mitja I.
Kals, Mart
Magi, Reedik
Parn, Kalle
[J]. NATURE GENETICS, 2016, 48 (08) : 856 - +
[10] The Effects of Female Sex, Viral Genotype, and IL28B Genotype on Spontaneous Clearance of Acute Hepatitis C Virus Infection
Grebely, Jason
Page, Kimberly
Sacks-Davis, Rachel
van der Loeff, Maarten Schim
Rice, Thomas M.
Bruneau, Julie
Morris, Meghan D.
Hajarizadeh, Behzad
Amin, Janaki
Cox, Andrea L.
Kim, Arthur Y.
McGovern, Barbara H.
Schinkel, Janke
George, Jacob
Shoukry, Naglaa H.
Lauer, Georg M.
Maher, Lisa
Lloyd, Andrew R.
Hellard, Margaret
Dore, Gregory J.
Prins, Maria
[J]. HEPATOLOGY, 2014, 59 (01) : 109 - 120

← 1 2 3 4 →