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rVarBase: an updated database for regulatory features of human variants
Guo, Liyuan1; Du, Yang1,2; Qu, Susu1,2; Wang, Jing1
2016-01-04
发表期刊NUCLEIC ACIDS RESEARCH
ISSN0305-1048
文章类型Article
卷号44期号:D1页码:D888-D893
摘要We present here the rVarBase database (http://rv.psych.ac.cn), an updated version of the rSNPBase database, to provide reliable and detailed regulatory annotations for known and novel human variants. This update expands the database to include additional types of human variants, such as copy number variations (CNVs) and novel variants, and include additional types of regulatory features. Now rVarBase annotates variants in three dimensions: chromatin states of the surrounding regions, overlapped regulatory elements and variants' potential target genes. Two new types of regulatory elements (lncRNAs and miRNA target sites) have been introduced to provide additional annotation. Detailed information about variants' overlapping transcription factor binding sites (TFBSs) (often less than 15 bp) within experimentally supported TF-binding regions (similar to 150 bp) is provided, along with the binding motifs of matched TF families. Additional types of extended variants and variant-associated phenotypes were also added. In addition to the enrichment in data content, an element-centric search module was added, and the web interface was refined. In summary, rVarBase hosts more types of human variants and includes more types of up-to-date regulatory information to facilitate in-depth functional research and to provide practical clues for experimental design.
DOI10.1093/nar/gkv1107
收录类别SCI
语种英语
项目资助者Key Laboratory of Mental Health, Institute of Psychology ; Chinese Academy of Sciences ; CAS/SAFEA International Partnership Program for Creative Research Teams(Y2CX131003) ; Chinese Academy of Sciences(KSCX2-EW-J-8) ; National Natural Science Foundation of China(81201046)
WOS研究方向Biochemistry & Molecular Biology
WOS类目Biochemistry & Molecular Biology
WOS记录号WOS:000371261700126
WOS标题词Science & Technology ; Life Sciences & Biomedicine
关键词[WOS]GENOMIC STRUCTURAL VARIATION ; GENE-EXPRESSION ; HUMAN-DISEASE ; INTEGRATIVE ANALYSIS ; ASSOCIATIONS ; RESOURCE ; TARGETS ; ANNOTATION ; INSIGHTS ; PROJECT
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被引频次:18[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.psych.ac.cn/handle/311026/19689
专题中国科学院心理健康重点实验室
作者单位1.Chinese Acad Sci, Inst Psychol, Key Lab Mental Hlth, Beijing 100101, Peoples R China
2.Univ Chinese Acad Sci, Beijing, Peoples R China
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Guo, Liyuan,Du, Yang,Qu, Susu,et al. rVarBase: an updated database for regulatory features of human variants[J]. NUCLEIC ACIDS RESEARCH,2016,44(D1):D888-D893.
APA Guo, Liyuan,Du, Yang,Qu, Susu,&Wang, Jing.(2016).rVarBase: an updated database for regulatory features of human variants.NUCLEIC ACIDS RESEARCH,44(D1),D888-D893.
MLA Guo, Liyuan,et al."rVarBase: an updated database for regulatory features of human variants".NUCLEIC ACIDS RESEARCH 44.D1(2016):D888-D893.
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