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rSNPBase 3.0: an updated database of SNP-related regulatory elements, element-gene pairs and SNP-based gene regulatory networks
Guo, Liyuan1,2; Wang, Jing1,2
2018-01-04
发表期刊NUCLEIC ACIDS RESEARCH
通讯作者邮箱wangjing@psych.ac.cn ; guoly@psych.ac.cn
ISSN0305-1048
文章类型Article
卷号46期号:D1页码:D1111-D1116
产权排序1
摘要

Here, we present the updated rSNPBase 3.0 database (http://rsnp3.psych.ac.cn), which provides human SNP-related regulatory elements, element-gene pairs and SNP-based regulatory networks. This database is the updated version of the SNP regulatory annotation database rSNPBase and rVarBase. In comparison to the last two versions, there are both structural and data adjustments in rSNPBase 3.0: (i) The most significant new feature is the expansion of analysis scope from SNP-related regulatory elements to include regulatory element-target gene pairs (E-G pairs), therefore it can provide SNP-based gene regulatory networks. (ii) Web function was modified according to data content and a new network search module is provided in the rSNPBase 3.0 in addition to the previous regulatory SNP (rSNP) search module. The two search modules support data query for detailed information (related-elements, element-gene pairs, and other extended annotations) on specific SNPs and SNP-related graphic networks constructed by interacting transcription factors (TFs), miRNAs and genes. (3) The type of regulatory elements was modified and enriched. To our best knowledge, the updated rSNPBase 3.0 is the first data tool supports SNP functional analysis from a regulatory network prospective, it will provide both a comprehensive understanding and concrete guidance for SNP-related regulatory studies.

DOI10.1093/nar/gkx1101
收录类别SCI
语种英语
项目资助者CAS Key Laboratory of Mental Health, Institute of Psychology ; CAS/SAFEA International Partnership Program for Creative Research Teams(Y2CX131003) ; Knowledge Innovation Program of the 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:000419550700159
WOS标题词Science & Technology ; Life Sciences & Biomedicine
关键词[WOS]TRANSCRIPTION FACTOR ; SIGNAL-TRANSDUCTION ; MICRORNA ; EXPRESSION ; GENOME ; VARIANTS ; SEQUENCE ; DISEASE ; TARGETS ; CANCER
引用统计
文献类型期刊论文
条目标识符http://ir.psych.ac.cn/handle/311026/22302
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, CAS Key Lab Mental Hlth, Beijing 100101, Peoples R China
2.Univ Chinese Acad Sci, Dept Psychol, Beijing 100049, Peoples R China
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GB/T 7714
Guo, Liyuan,Wang, Jing. rSNPBase 3.0: an updated database of SNP-related regulatory elements, element-gene pairs and SNP-based gene regulatory networks[J]. NUCLEIC ACIDS RESEARCH,2018,46(D1):D1111-D1116.
APA Guo, Liyuan,&Wang, Jing.(2018).rSNPBase 3.0: an updated database of SNP-related regulatory elements, element-gene pairs and SNP-based gene regulatory networks.NUCLEIC ACIDS RESEARCH,46(D1),D1111-D1116.
MLA Guo, Liyuan,et al."rSNPBase 3.0: an updated database of SNP-related regulatory elements, element-gene pairs and SNP-based gene regulatory networks".NUCLEIC ACIDS RESEARCH 46.D1(2018):D1111-D1116.
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