ITP OpenIR  > SCI期刊论文
Gao, CY; Cecconi, F2,3; Vulpiani, A2,3,4; Zhou, HJ; Aurell, E5,6,7,8
DCA for genome-wide epistasis analysis: the statistical genetics perspective
发表期刊PHYSICAL BIOLOGY
语种英语
关键词DIRECT-COUPLING ANALYSIS PROTEIN-STRUCTURE CONTACTS HIV IDENTIFICATION RECOMBINATION LINKAGE LANDSCAPE INFERENCE MODEL
摘要Direct coupling analysis (DCA) is a now widely used method to leverage statistical information from many similar biological systems to draw meaningful conclusions on each system separately. DCA has been applied with great success to sequences of homologous proteins, and also more recently to whole-genome population-wide sequencing data. We here argue that the use of DCA on the genome scale is contingent on fundamental issues of population genetics. DCA can be expected to yield meaningful results when a population is in the quasi-linkage equilibrium (QLE) phase studied by Kimura and others, but not, for instance, in a phase of clonal competition. We discuss how the exponential (Potts model) distributions emerge in QLE, and compare couplings to correlations obtained in a study of about 3000 genomes of the human pathogen Streptococcus pneumoniae.
2019
ISSN1478-3967
卷号16期号:2页码:26002
学科领域Biochemistry & Molecular Biology ; Biophysics
学科门类Biochemistry & Molecular Biology ; Biophysics
DOI10.1088/1478-3975/aafbe0
收录类别SCIE
引用统计
被引频次:7[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.itp.ac.cn/handle/311006/23476
专题SCI期刊论文
计算平台成果
作者单位1.Chinese Acad Sci, Inst Theoret Phys, Key Lab Theoret Phys, Beijing 100190, Peoples R China
2.Univ Chinese Acad Sci, Sch Phys Sci, Beijing 100049, Peoples R China
3.Sapienza Univ Roma, CNR ISC, Ple Moro 2, I-00185 Rome, Italy
4.Sapienza Univ Roma, Dipartimento Fis, Ple Moro 2, I-00185 Rome, Italy
5.Accademia Lincei, Ctr Interdisciplinare B Segre, Rome, Italy
6.KTH Royal Inst Technol, Dept Computat Biol, SE-10044 Stockholm, Sweden
7.Aalto Univ, Dept Appl Phys, FIN-00076 Aalto, Finland
8.Aalto Univ, Dept Comp Sci, FIN-00076 Aalto, Finland
9.PSL Res Univ, Lab Phys Chim Theor, UMR CNRS Gulliver 7083, ESPCI, 10 Rue Vauquelin, F-75231 Paris, France
推荐引用方式
GB/T 7714
Gao, CY,Cecconi, F,Vulpiani, A,et al. DCA for genome-wide epistasis analysis: the statistical genetics perspective[J]. PHYSICAL BIOLOGY,2019,16(2):26002.
APA Gao, CY,Cecconi, F,Vulpiani, A,Zhou, HJ,&Aurell, E.(2019).DCA for genome-wide epistasis analysis: the statistical genetics perspective.PHYSICAL BIOLOGY,16(2),26002.
MLA Gao, CY,et al."DCA for genome-wide epistasis analysis: the statistical genetics perspective".PHYSICAL BIOLOGY 16.2(2019):26002.
条目包含的文件
文件名称/大小 文献类型 版本类型 开放类型 使用许可
DCA for genome-wide (1652KB)期刊论文作者接受稿开放获取CC BY-NC-SA请求全文
个性服务
推荐该条目
保存到收藏夹
查看访问统计
导出为Endnote文件
谷歌学术
谷歌学术中相似的文章
[Gao, CY]的文章
[Cecconi, F]的文章
[Vulpiani, A]的文章
百度学术
百度学术中相似的文章
[Gao, CY]的文章
[Cecconi, F]的文章
[Vulpiani, A]的文章
必应学术
必应学术中相似的文章
[Gao, CY]的文章
[Cecconi, F]的文章
[Vulpiani, A]的文章
相关权益政策
暂无数据
收藏/分享
所有评论 (0)
暂无评论
 

除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。