ARG-walker: inference of individual specific strengths of meiotic recombination hotspots by population genomics analysis

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• 作者：Hao Chen ; Peng Yang ; Jing Guo ; Chee Keong Kwoh ; Teresa M Przytycka…
• 关键词：Meiotic recombination hotspot ; individual recombination strength ; ancestral recombination graph (ARG) ; genome ; wide association study (GWAS) ; major histocompatibility complex (MHC) ; random walks on graphs
• 刊名：BMC Genomics
• 出版年：2015
• 出版时间：December 2015
• 年：2015
• 卷：16
• 期：12-supp
• 全文大小：1,879 KB
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• 作者单位：Hao Chen (1) (2)
  Peng Yang (1) (3)
  Jing Guo (1)
  Chee Keong Kwoh (1)
  Teresa M Przytycka (4)
  Jie Zheng (1) (5)
  
  1. Biomedical Informatics Graduate Lab, School of Computer Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore, 639798, Singapore
  2. Singapore Immunology Network (SIgN), A*STAR, Biopolis, Singapore, 138648, Singapore
  3. Institute for Infocomm Research (I2R), A*STAR (Agency for Science, Technology, and Research), 1 Fusionopolis, Singapore, 138632, Singapore
  4. Computational Biology Branch, National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), 8600 Rockville Pike, Bethesda, Maryland, 20894, USA
  5. Genome Institute of Singapore, A*STAR, Biopolis, Singapore, 138672, Singapore
  
• 刊物主题：Life Sciences, general; Microarrays; Proteomics; Animal Genetics and Genomics; Microbial Genetics and Genomics; Plant Genetics & Genomics;
• 出版者：BioMed Central
• ISSN：1471-2164

文摘

Background Meiotic recombination hotspots play important roles in various aspects of genomics, but the underlying mechanisms for regulating the locations and strengths of recombination hotspots are not yet fully revealed. Most existing algorithms for estimating recombination rates from sequence polymorphism data can only output average recombination rates of a population, although there is evidence for the heterogeneity in recombination rates among individuals. For genome-wide association studies (GWAS) of recombination hotspots, an efficient algorithm that estimates the individualized strengths of recombination hotspots is highly desirable.