A Novel HMM for Analyzing Chromosomal Aberrations in Heterogeneous Tumor Samples

摘要：

　　Comprehensive detection and identification of copy number and LOH of chromosomal aberration is required to provide an accurate therapy of human cancer.As a cost-saving and high-throughput tool,SNP arrays facilitate analysis of chromosomal aberration throughout the whole genome.The performance of previous approaches has been limited to several critical issues such as normal cell contamination,aneuploidy and tumor heterogeneity.For these reasons we present a Hidden Markov Model (HMM) based approach called TH-HMM (Tumor Heterogeneity HMM),for simultaneous detection of copy number and LOH in heterogeneous tumor samples using data from Illumina SNP arrays.Through adopting an efficient EM algorithm,our method can correctly detect chromosomal aberration events in tumor subclones.Evaluation on simulated data series indicated that TH-HMM could accurately estimate both normal cell and subclone proportions,and finally recovery the aberration profiles for each clones.

关键词： chromosomal aberration genotype copy number LOH SNP arrray heterogeneous tumor sample

作者: Hong Xia Yuanning Liu Minghui Wang Huanqing Feng Ao Li

作者单位: School of Information Science and Technology University of Science and Technology of ChinaHefei, China

会议类型: 国际会议

会议名称: 7th International Conference on Systems Biology(第7届计算系统生物学国际研讨会)(ISB2013)

会议地点: 安徽黄山

会议语种:英文

页码: 92-96

在线出版日期: 2013-08-22（万方平台首次上网日期，不代表论文的发表时间）