TY - JOUR
T1 - HapMap SNP Scanner
T2 - An online program to mine SNPs responsible for cell phenotype
AU - Yamamura, T.
AU - Hikita, J.
AU - Bleakley, M.
AU - Hirosawa, T.
AU - Sato-Otsubo, A.
AU - Torikai, H.
AU - Hamajima, T.
AU - Nannya, Y.
AU - Demachi-Okamura, A.
AU - Maruya, E.
AU - Saji, H.
AU - Yamamoto, Y.
AU - Takahashi, T.
AU - Emi, N.
AU - Morishima, Y.
AU - Kodera, Y.
AU - Kuzushima, K.
AU - Riddell, S. R.
AU - Ogawa, S.
AU - Akatsuka, Y.
N1 - Copyright:
Copyright 2013 Elsevier B.V., All rights reserved.
PY - 2012/8
Y1 - 2012/8
N2 - Minor histocompatibility (H) antigens are targets of graft-vs-host disease and graft-vs-tumor responses after human leukocyte antigen matched allogeneic hematopoietic stem cell transplantation. Recently, we reported a strategy for genetic mapping of linkage disequilibrium blocks that encoded novel minor H antigens using the large dataset from the International HapMap Project combined with conventional immunologic assays to assess recognition of HapMap B-lymphoid cell line 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 datasets 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.
AB - Minor histocompatibility (H) antigens are targets of graft-vs-host disease and graft-vs-tumor responses after human leukocyte antigen matched allogeneic hematopoietic stem cell transplantation. Recently, we reported a strategy for genetic mapping of linkage disequilibrium blocks that encoded novel minor H antigens using the large dataset from the International HapMap Project combined with conventional immunologic assays to assess recognition of HapMap B-lymphoid cell line 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 datasets 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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U2 - 10.1111/j.1399-0039.2012.01883.x
DO - 10.1111/j.1399-0039.2012.01883.x
M3 - Article
C2 - 22568758
AN - SCOPUS:84864335470
VL - 80
SP - 119
EP - 125
JO - HLA
JF - HLA
SN - 2059-2302
IS - 2
ER -