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rSNPBase

Is a database that provides reliable, comprehensive, and user-friendly regulatory annotations on rSNPs. It will assist researchers in selecting candidate SNPs for further genetic studies (especially for QTL studies), identifying causal variants of certain phenotypes, and exploring in-depth molecular mechanisms. An example for database usage. Is different from previous SNP annotation databases on such features:. Detailed data infomation is shown on Data content. Last update: March 26, 2014.

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Is a database that provides reliable, comprehensive, and user-friendly regulatory annotations on rSNPs. It will assist researchers in selecting candidate SNPs for further genetic studies (especially for QTL studies), identifying causal variants of certain phenotypes, and exploring in-depth molecular mechanisms. An example for database usage. Is different from previous SNP annotation databases on such features:. Detailed data infomation is shown on Data content. Last update: March 26, 2014.
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rSNPBase | rsnp.psych.ac.cn Reviews

https://rsnp.psych.ac.cn

Is a database that provides reliable, comprehensive, and user-friendly regulatory annotations on rSNPs. It will assist researchers in selecting candidate SNPs for further genetic studies (especially for QTL studies), identifying causal variants of certain phenotypes, and exploring in-depth molecular mechanisms. An example for database usage. Is different from previous SNP annotation databases on such features:. Detailed data infomation is shown on Data content. Last update: March 26, 2014.

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rsnp.psych.ac.cn rsnp.psych.ac.cn
1

rSNPBase

http://rsnp.psych.ac.cn/aboutus.do

If you have any questions while using the site, please feel free to Contact Us. Institute of Psychology, CAS. Bioinformatics Lab, Institute of Psychology, CAS. Last update: March 26, 2014.

2

rSNPBase

http://rsnp.psych.ac.cn/tutorial.do

Figure 1 Data access of rSNPBase. Search results of rSNPBase are summarized in a table on 'Search result' page (Figure 2), in which, the regulatory features of retrieved SNPs in four regulation manners are summarized as 'Yes' or 'No'. Figure 2 Search result page of rSNPBase. Title of the table:. RSNPBase identified regulatory SNPs. SNP in strong LD (r2 0.8) with rSNPs. SNP involved in proximal transcriptional regulation. SNP involved in distal transcriptional regulation. SNP within mature miRNA. Simply c...

3

rSNPBase

http://rsnp.psych.ac.cn/upload.do

We are always welcome users' feedback to help us improve the services we provide.If you have any comments or suggestions please let us know and fill the form below. Last update: March 26, 2014.

4

rSNPBase

http://rsnp.psych.ac.cn/datacontent.do

RSNPBase includes rSNPs, LD-proxies of rSNPs, and genes that are potentially regulated by rSNPs. Experimentally supported regulatory elements were collected and utilized to annotate the regulatory feature of rSNPs. Regulation-related spatio-temporal information and experimental eQTL evidence are used as data labels for involoved SNPs. The data for rSNPBase(as of August 1, 2013) are shown in Table 1. Table 1 Data content of rSNPBase as of August 1, 2013. Genome-wide human SNPs and genes were filtered and ...

5

rSNPBase

http://rsnp.psych.ac.cn/index.do

Notice: we have updated rSNPBase to rVarBase, new features and detailed information could be found at http:/ rv.psych.ac.cn. Is a database that provides reliable, comprehensive, and user-friendly regulatory annotations on rSNPs. It will assist researchers in selecting candidate SNPs for further genetic studies (especially for QTL studies), identifying causal variants of certain phenotypes, and exploring in-depth molecular mechanisms. An example for database usage. Last update: March 26, 2014.

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bioinfo.psych.ac.cn bioinfo.psych.ac.cn

Bioinformatics Lab, Institute of Psychology, CAS

http://bioinfo.psych.ac.cn/EN/index.jsp

GSEA4GWAS v2: a web server for functional analysis of SNPs in trait-associated pathways identified from genome-wide association study. ICSNPathway: Identify candidate Causal SNPs and Pathways from genome-wide association study by one analytical framework. Gene Set Enrichment Analysis for Genome-Wide Association Study. RVarBase: an Updated Database for Regulatory Features of Human Variants. RSNPBase: A Database for Curated Regulatory SNPs. MK4MDD: Multi-level Knowledge Base for Major Depressive Disorder.

rv.psych.ac.cn rv.psych.ac.cn

rVarBase

http://rv.psych.ac.cn/downloadList.do

The 20 version of rSNPBase. The whole data of rVarBase are available for downloading through FTP sites. Ftp:/ rv.psych.ac.cn/pub/rv/. Input of quick search could be:. A single nucleotide as 0-based coordinates: chr1:12345. New dimension of annotation. More detailed annotation on variant overlapped TFBS. Last update: Aug 31, 2015.

rv.psych.ac.cn rv.psych.ac.cn

rVarBase

http://rv.psych.ac.cn/upload.do

The 20 version of rSNPBase. We are always welcome users' feedback to help us improve the services we provide.If you have any comments or suggestions please let us know and fill the form below. Input of quick search could be:. A single nucleotide as 0-based coordinates: chr1:12345. New dimension of annotation. More detailed annotation on variant overlapped TFBS. Last update: Aug 31, 2015.

rv.psych.ac.cn rv.psych.ac.cn

rVarBase

http://rv.psych.ac.cn/aboutus.do

The 20 version of rSNPBase. Institute of Psychology, CAS. Bioinformatics Lab, Institute of Psychology, CAS. Input of quick search could be:. A single nucleotide as 0-based coordinates: chr1:12345. New dimension of annotation. More detailed annotation on variant overlapped TFBS. Last update: Aug 31, 2015.

bioinfo.psych.ac.cn bioinfo.psych.ac.cn

中国科学院心理所生物信息实验室

http://bioinfo.psych.ac.cn/CN/Our_db.jsp

Zhang, K.L.*, Chang, S.H.*, Guo, L.Y., Wang, J. (2014) I-GSEA4GWAS v2: a web server for functional analysis of SNPs in trait-associated pathways identified from genome-wide association study. Zhang, K.L, Chang, S.H., Cui, S.J., Guo, L.Y., Zhang, L.Y., and Wang, J., 2011 ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework. Nucleic Acids Res. 42 (D1): D1033-D1039. doi: 10.1093/nar/gkt1167. Guo, L., Zhang, W., Chang, S., Zhang, ...Zhang, L&...

rv.psych.ac.cn rv.psych.ac.cn

rVarBase

http://rv.psych.ac.cn/tutorial.do

The 20 version of rSNPBase. I Search variants and their regulatory features. 1 Search by variants. 2 Search by genes. 3 Search by elements. III Variant feature report. I Search variants and their regulatory features. Users can search regulatory variants by variants, target genes and related regulatory elements. 1 Search by variants. If a single nucleotide variant(SNV) was submitted with chromosomal location, enter it as 0-based coordinates. 2 Search by genes. Gene official symbol (one per line). RVarBase...

rv.psych.ac.cn rv.psych.ac.cn

rVarBase

http://rv.psych.ac.cn/whatisnew.do

The 20 version of rSNPBase. Is the updated version of rSNPBase. It is consistent with the old version in utilizing experimentally supported regulatory elements from ENCODE and other data resources to make relevant annotation (such as involved regulatory manner and potential target gene). There are several new features in the current version:. Compared with the old version, rVarBase provides annotation on more types of human variants, such as known CNV(less than 1M), novel SNV and structure variants.

rv.psych.ac.cn rv.psych.ac.cn

rVarBase

http://rv.psych.ac.cn/index.do

The 20 version of rSNPBase. It is consistent with the old version in utilizing experimentally supported regulatory elements from ENCODE and other data resources to make relevant annotation (such as involved regulatory manner and potential target gene).rVarBase is different from the old version in several new features:. New dimension of annotation. More detailed annotation on variant overlapped TFBS. Input of quick search could be:. A single nucleotide as 0-based coordinates: chr1:12345.

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rSNPBase

Is a database that provides reliable, comprehensive, and user-friendly regulatory annotations on rSNPs. It will assist researchers in selecting candidate SNPs for further genetic studies (especially for QTL studies), identifying causal variants of certain phenotypes, and exploring in-depth molecular mechanisms. An example for database usage. Is different from previous SNP annotation databases on such features:. Detailed data infomation is shown on Data content. Last update: March 26, 2014.

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