iHMMune-align:: hidden Markov model-based alignment and identification of germline genes in rearranged immunoglobulin gene sequences

被引：99

作者：

Gaeta, Bruno A. ^{[1
]}

Malming, Harald R.

Jackson, Katherine J. L.

Bain, Michael E.

Wilson, Patrick

Collins, Andrew M.

机构：

[1] Univ New S Wales, Sch Biotechnol & Biomol Sci, Sydney, NSW 2052, Australia

[2] Univ New S Wales, Sch Engn & Comp Sci, Sydney, NSW 2052, Australia

[3] Oklahoma Med Res Fdn, Mol Immunogenet Program, Oklahoma City, OK 73104 USA

来源：

BIOINFORMATICS | 2007年 / 23卷 / 13期

关键词：

D O I：

10.1093/bioinformatics/btm147

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Motivation: Immunoglobulin heavy chain (IGH) genes in mature B lymphocytes are the result of recombination of IGHV, IGHD and IGHJ germline genes, followed by somatic mutation. The correct identification of the germline genes that make up a variable VH domain is essential to our understanding of the process of antibody diversity generation as well as to clinical investigations of some leukaemias and lymphomas. Results: We have developed iHMMune-align, an alignment program that uses a hidden Markov model (HMM) to model the processes involved in human IGH gene rearrangement and maturation. The performance of iHMMune-align was compared to that of other immunoglobulin gene alignment utilities using both clonally related and randomly selected IGH sequences. This evaluation suggests that iHMMune-align provides a more accurate identification of component germline genes than other currently available IGH gene characterization programs.

引用

页码：1580 / 1587

页数：8

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