Lnc2Cancer 3.0: an updated resource for experimentally supported lncRNA/circRNA cancer associations and web tools based on RNA-seq and scRNA-seq data.

Nucleic Acids Research
Yue GaoYunpeng Zhang

Abstract

An updated Lnc2Cancer 3.0 (http://www.bio-bigdata.net/lnc2cancer or http://bio-bigdata.hrbmu.edu.cn/lnc2cancer) database, which includes comprehensive data on experimentally supported long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) associated with human cancers. In addition, web tools for analyzing lncRNA expression by high-throughput RNA sequencing (RNA-seq) and single-cell RNA-seq (scRNA-seq) are described. Lnc2Cancer 3.0 was updated with several new features, including (i) Increased cancer-associated lncRNA entries over the previous version. The current release includes 9254 lncRNA-cancer associations, with 2659 lncRNAs and 216 cancer subtypes. (ii) Newly adding 1049 experimentally supported circRNA-cancer associations, with 743 circRNAs and 70 cancer subtypes. (iii) Experimentally supported regulatory mechanisms of cancer-related lncRNAs and circRNAs, involving microRNAs, transcription factors (TF), genetic variants, methylation and enhancers were included. (iv) Appending experimentally supported biological functions of cancer-related lncRNAs and circRNAs including cell growth, apoptosis, autophagy, epithelial mesenchymal transformation (EMT), immunity and coding ability. (v) Experimentally supported clinical re...Continue Reading

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Citations

Feb 3, 2021·International Journal of Biological Macromolecules·Jifeng ZhangWeidong Tian
Aug 28, 2021·Biomolecules·Fotis A BaltoumasGeorgios A Pavlopoulos
Sep 1, 2021·Journal of Hematology & Oncology·Hao ShenXiujun Cai
Sep 28, 2021·Nucleic Acids Research·Dezhong LvYongsheng Li
Nov 11, 2021·Nucleic Acids Research·Tiantongfei JiangXia Li

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Methods Mentioned

BETA
scRNA-seq
RNA-seq
RNA seq

Software Mentioned

LncBook
Ensembl
lncATLAS
Single Cell Web Tool
seq
R package Seurat
Apache
Lnc2Cancer
Linux
RNA

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