HapMap SNP Scanner: an online program to mine SNPs responsible for cell phenotype.
HapMap SNP Scanner: an online program to mine SNPs responsible for cell phenotype.
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DOI：
10.1111/j.1399-0039.2012.01883.x
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发表时间：
2012-08
期刊：
影响因子：
--
通讯作者：
Akatsuka Y
中科院分区：
文献类型：
--
作者：
Yamamura T;Hikita J;Bleakley M;Hirosawa T;Sato-Otsubo A;Torikai H;Hamajima T;Nannya Y;Demachi-Okamura A;Maruya E;Saji H;Yamamoto Y;Takahashi T;Emi N;Morishima Y;Kodera Y;Kuzushima K;Riddell SR;Ogawa S;Akatsuka Y
次要组织相容性 (H) 抗原是人类白细胞抗原 (HLA) 匹配的同种异体造血干细胞移植后移植物抗宿主病和移植物抗肿瘤反应的靶标。最近，我们报道了一种编码新型次要 H 抗原的连锁不平衡 (LD) 块的遗传图谱策略，该策略使用国际 HapMap 项目的大数据集结合常规免疫学测定来评估次要 H 抗原特异性 T 细胞对 HapMap B 淋巴样细胞系 (B-LCL) 的识别。在这项研究中，我们构建并提供了一个在线交互式程序，并证明了其在搜索负责次要 H 抗原生成的单核苷酸多态性 (SNP) 方面的实用性。该网站以“HapMap SNP Scanner”的形式提供，可以将 T 细胞识别和其他数据与来自 CEU、JPT、CHB 和 YRI 的基因分型数据集结合起来，提供与观察到的表型相关的候选 SNP 列表。该方法应大大促进负责次要 H 抗原的新型 SNP 的发现，并适用于其他特定细胞表型（例如药物敏感性）的测定，以识别可能受益于基于 SNP 的定制疗法的个体。
Minor histocompatibility (H) antigens are targets of graft-versus-host disease and graft-versus-tumor responses after human leukocyte antigen (HLA) matched allogeneic hematopoietic stem cell transplantation. Recently, we reported a strategy for genetic mapping of linkage disequilibrium (LD) blocks that encoded novel minor H antigens using the large data set from the International HapMap Project combined with conventional immunologic assays to assess recognition of HapMap B lymphoid cell line (B-LCL) by minor H antigen-specific T cells. In this study, we have constructed and provide an online interactive program and demonstrate its utility for searching for single nucleotide polymorphisms (SNPs) responsible for minor H antigen generation. The website is available as “HapMap SNP Scanner”, and can incorporate T cell recognition and other data with genotyping data sets from CEU, JPT, CHB and YRI to provide a list of candidate SNPs that correlate with observed phenotypes. This method should substantially facilitate discovery of novel SNPs responsible for minor H antigens and be applicable for assaying of other specific cell phenotypes (e.g. drug sensitivity) to identify individuals who may benefit from SNP-based customized therapies.
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影响因子：
20.3
作者：
Bleakley, Marie;Otterud, Brith E.;Riddell, Stanley R.
通讯作者：
Riddell, Stanley R.
影响因子：
64.8
作者：
Frazer, Kelly A.;Ballinger, Dennis G.;Cox, David R.;Hinds, David A.;Stuve, Laura L.;Gibbs, Richard A.;Belmont, John W.;Boudreau, Andrew;Hardenbol, Paul;Leal, Suzanne M.;Pasternak, Shiran;Wheeler, David A.;Willis, Thomas D.;Yu, Fuli;Yang, Huanming;Zeng, Changqing;Gao, Yang;Hu, Haoran;Hu, Weitao;Li, Chaohua;Lin, Wei;Liu, Siqi;Pan, Hao;Tang, Xiaoli;Wang, Jian;Wang, Wei;Yu, Jun;Zhang, Bo;Zhang, Qingrun;Zhao, Hongbin;Zhao, Hui;Zhou, Jun;Gabriel, Stacey B.;Barry, Rachel;Blumenstiel, Brendan;Camargo, Amy;Defelice, Matthew;Faggart, Maura;Goyette, Mary;Gupta, Supriya;Moore, Jamie;Nguyen, Huy;Onofrio, Robert C.;Parkin, Melissa;Roy, Jessica;Stahl, Erich;Winchester, Ellen;Ziaugra, Liuda;Altshuler, David;Shen, Yan;Yao, Zhijian;Huang, Wei;Chu, Xun;He, Yungang;Jin, Li;Liu, Yangfan;Shen, Yayun;Sun, Weiwei;Wang, Haifeng;Wang, Yi;Wang, Ying;Xiong, Xiaoyan;Xu, Liang;Waye, Mary M. Y.;Tsui, Stephen K. W.;Wong, J. Tze-Fei;Galver, Luana M.;Fan, Jian-Bing;Gunderson, Kevin;Murray, Sarah S.;Oliphant, Arnold R.;Chee, Mark S.;Montpetit, Alexandre;Chagnon, Fanny;Ferretti, Vincent;Leboeuf, Martin;Olivier, Jean-Franccois;Phillips, Michael S.;Roumy, Stephanie;Sallee, Clementine;Verner, Andrei;Hudson, Thomas J.;Kwok, Pui-Yan;Cai, Dongmei;Koboldt, Daniel C.;Miller, Raymond D.;Pawlikowska, Ludmila;Taillon-Miller, Patricia;Xiao, Ming;Tsui, Lap-Chee;Mak, William;Song, You Qiang;Tam, Paul K. H.;Nakamura, Yusuke;Kawaguchi, Takahisa;Kitamoto, Takuya;Morizono, Takashi;Nagashima, Atsushi;Ohnishi, Yozo;Sekine, Akihiro;Tanaka, Toshihiro;Tsunoda, Tatsuhiko;Deloukas, Panos;Bird, Christine P.;Delgado, Marcos;Dermitzakis, Emmanouil T.;Gwilliam, Rhian;Hunt, Sarah;Morrison, Jonathan;Powell, Don;Stranger, Barbara E.;Whittaker, Pamela;Bentley, David R.;Daly, Mark J.;de Bakker, Paul I. W.;Barrett, Jeff;Chretien, Yves R.;Maller, Julian;McCarroll, Steve;Patterson, Nick;Pe'er, Itsik;Price, Alkes;Purcell, Shaun;Richter, Daniel J.;Sabeti, Pardis;Saxena, Richa;Schaffner, Stephen F.;Sham, Pak C.;Varilly, Patrick;Altshuler, David;Stein, Lincoln D.;Krishnan, Lalitha;Smith, Albert Vernon;Tello-Ruiz, Marcela K.;Thorisson, Gudmundur A.;Chakravarti, Aravinda;Chen, Peter E.;Cutler, David J.;Kashuk, Carl S.;Lin, Shin;Abecasis, Goncalo R.;Guan, Weihua;Li, Yun;Munro, Heather M.;Qin, Zhaohui Steve;Thomas, Daryl J.;McVean, Gilean;Auton, Adam;Bottolo, Leonardo;Cardin, Niall;Eyheramendy, Susana;Freeman, Colin;Marchini, Jonathan;Myers, Simon;Spencer, Chris;Stephens, Matthew;Donnelly, Peter;Cardon, Lon R.;Clarke, Geraldine;Evans, David M.;Morris, Andrew P.;Weir, Bruce S.;Tsunoda, Tatsuhiko;Johnson, Todd A.;Mullikin, James C.;Sherry, Stephen T.;Feolo, Michael;Skol, Andrew
通讯作者：
Skol, Andrew
DOI：
10.1084/jem.189.2.301
发表时间：
1999-01-18
期刊：
The Journal of experimental medicine
影响因子：
--
作者：
Dolstra H;Fredrix H;Maas F;Coulie PG;Brasseur F;Mensink E;Adema GJ;de Witte TM;Figdor CG;van de Wiel-van Kemenade E
通讯作者：
van de Wiel-van Kemenade E
鉴定多态性基因BCL2A1，编码了两个新型的造血谱系特异性小型组织相容性抗原。
影响因子：
15.3
作者：
Akatsuka, Y;Nishida, T;Kondo, E;Miyazaki, M;Taji, H;Iida, H;Tsujimura, K;Yazaki, M;Naoe, T;Morishima, Y;Kodera, Y;Kuzushima, K;Takahashi, T
通讯作者：
Takahashi, T
影响因子：
64.8
作者：
Gibbs, RA;Belmont, JW;Tanaka, T
通讯作者：
Tanaka, T