LnCeCell: a comprehensive database of predicted lncRNA-associated ceRNA networks at single-cell resolution.

Nucleic Acids Research
Peng WangXia Li

Abstract

Within the tumour microenvironment, cells exhibit different behaviours driven by fine-tuning of gene regulation. Identification of cellular-specific gene regulatory networks will deepen the understanding of disease pathology at single-cell resolution and contribute to the development of precision medicine. Here, we describe a database, LnCeCell (http://www.bio-bigdata.net/LnCeCell/ or http://bio-bigdata.hrbmu.edu.cn/LnCeCell/), which aims to document cellular-specific long non-coding RNA (lncRNA)-associated competing endogenous RNA (ceRNA) networks for personalised characterisation of diseases based on the 'One Cell, One World' theory. LnCeCell is curated with cellular-specific ceRNA regulations from >94 000 cells across 25 types of cancers and provides >9000 experimentally supported lncRNA biomarkers, associated with tumour metastasis, recurrence, prognosis, circulation, drug resistance, etc. For each cell, LnCeCell illustrates a global map of ceRNA sub-cellular locations, which have been manually curated from the literature and related data sources, and portrays a functional state atlas for a single cancer cell. LnCeCell also provides several flexible tools to infer ceRNA functions based on a specific cellular background. LnC...Continue Reading

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Citations

Jun 12, 2021·Frontiers in Oncology·Yue QiQiuyan Guo
Aug 4, 2021·Wiley Interdisciplinary Reviews. RNA·Junpeng ZhangThuc Duy Le

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Methods Mentioned

BETA
single-cell sequencing
scRNA-seq

Software Mentioned

Tomcat
Firefox
Survival
Cell
CancerSEA
Safari
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SCPortalen
R

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