iHMMune-align:: hidden Markov model-based alignment and identification of germline genes in rearranged immunoglobulin gene sequences
iHMMune-align:: hidden Markov model-based alignment and identification of germline genes in rearranged immunoglobulin gene sequences
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DOI：
10.1093/bioinformatics/btm147
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发表时间：
2007-07-01
期刊：
影响因子：
5.8
通讯作者：
Collins, Andrew M.
中科院分区：
文献类型：
--
作者：
Gaeta, Bruno A.;Malming, Harald R.;Collins, Andrew M.
动机：成熟B淋巴细胞中的免疫球蛋白重链（IGH）基因是IGHV、IGHD和IGHJ生殖系基因重组后发生体细胞突变的结果。正确鉴定构成可变VH结构域的种系基因对于我们理解抗体多样性产生的过程以及一些白血病和淋巴瘤的临床研究是必不可少的。结果如下：我们已经开发了iHMMune-align，这是一种使用隐马尔可夫模型（HMM）来模拟人类IGH基因重排和成熟过程的比对程序。使用克隆相关和随机选择的IGH序列，将iHMMune-比对的性能与其他免疫球蛋白基因比对工具的性能进行比较。该评价表明，iHMMune比对提供了比其他目前可用的IGH基因表征程序更准确的组分种系基因鉴定。
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.