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    Distinct Contributions of Replication and Transcription to Mutation Rate Variation of Human Genomes

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    Type
    Article
    Authors
    Cui, Peng cc
    Ding, Feng cc
    Lin, Qiang
    Zhang, Lingfang
    Li, Ang
    Zhang, Zhang
    Hu, Songnian
    Yu, Jun
    KAUST Department
    Biological and Environmental Science and Engineering (BESE) Division
    Center for Desert Agriculture
    Computational Bioscience Research Center (CBRC)
    Date
    2012-03-23
    Online Publication Date
    2012-03-23
    Print Publication Date
    2012-02
    Permanent link to this record
    http://hdl.handle.net/10754/552425
    
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    Abstract
    Here, we evaluate the contribution of two major biological processes—DNA replication and transcription—to mutation rate variation in human genomes. Based on analysis of the public human tissue transcriptomics data, high-resolution replicating map of Hela cells and dbSNP data, we present significant correlations between expression breadth, replication time in local regions and SNP density. SNP density of tissue-specific (TS) genes is significantly higher than that of housekeeping (HK) genes. TS genes tend to locate in late-replicating genomic regions and genes in such regions have a higher SNP density compared to those in early-replication regions. In addition, SNP density is found to be positively correlated with expression level among HK genes. We conclude that the process of DNA replication generates stronger mutational pressure than transcription-associated biological processes do, resulting in an increase of mutation rate in TS genes while having weaker effects on HK genes. In contrast, transcription-associated processes are mainly responsible for the accumulation of mutations in highly-expressed HK genes.
    Citation
    Distinct Contributions of Replication and Transcription to Mutation Rate Variation of Human Genomes 2012, 10 (1):4 Genomics, Proteomics & Bioinformatics
    Publisher
    Elsevier BV
    Journal
    Genomics, Proteomics & Bioinformatics
    DOI
    10.1016/S1672-0229(11)60028-4
    PubMed ID
    22449396
    Additional Links
    http://linkinghub.elsevier.com/retrieve/pii/S1672022911600284
    ae974a485f413a2113503eed53cd6c53
    10.1016/S1672-0229(11)60028-4
    Scopus Count
    Collections
    Articles; Biological and Environmental Science and Engineering (BESE) Division; Computational Bioscience Research Center (CBRC); Center for Desert Agriculture

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