LincSNP 2.0 – an updated database for linking disease-associated SNPs to human long non-coding RNAs

Researchers from Harbin Medical University describe LincSNP 2.0, an updated database that is used specifically to store and annotate disease-associated single nucleotide polymorphisms (SNPs) in human long non-coding RNAs (lncRNAs) and their transcription factor binding sites (TFBSs).

In LincSNP 2.0, the researchers have updated the database with more data and several new features, including:

  1. expanding disease-associated SNPs in human lncRNAs;
  2. identifying disease-associated SNPs in lncRNA TFBSs;
  3. updating LD-SNPs from the 1000 Genomes Project; and
  4. collecting more experimentally supported SNP-lncRNA-disease associations.

Furthermore, the researchers developed three flexible online tools to retrieve and analyze the data. Linc-Mart is a convenient way for users to customize their own data. Linc-Browse is a tool for all data visualization. Linc-Score predicts the associations between lncRNA and disease. In addition, they provided users a newly designed, user-friendly interface to search and download all the data in LincSNP 2.0 and they also provided an interface to submit novel data into the database. LincSNP 2.0 is a continually updated database and will serve as an important resource for investigating the functions and mechanisms of lncRNAs in human diseases.

Architecture of LincSNP 2.0

lncRNA

Availability – LincSNP 2.0 is available at: http://bioinfo.hrbmu.edu.cn/LincSNP

Ning S, Yue M, Wang P, Liu Y, Zhi H, Zhang Y, Zhang J, Gao Y, Guo M, Zhou D, Li X, Li X. (2017) LincSNP 2.0: an updated database for linking disease-associated SNPs to human long non-coding RNAs and their TFBSs. Nucleic Acids Res 45(D1):D74-D78. [article]

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