LnCeCell: a comprehensive database of predicted lncRNA-associated ceRNA networks at single-cell resolution.
LnCeCell: a comprehensive database of predicted lncRNA-associated ceRNA networks at single-cell resolution.
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LnCeCell：单细胞分辨率预测 lncRNA 相关 ceRNA 网络的综合数据库
DOI：
10.1093/nar/gkaa1017
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发表时间：
2021-01-08
影响因子：
14.9
通讯作者：
Li X
中科院分区：
文献类型：
--
作者：
Wang P;Guo Q;Hao Y;Liu Q;Gao Y;Zhi H;Li X;Shang S;Guo S;Zhang Y;Ning S;Li X
在肿瘤微环境中，细胞表现出由基因调控微调驱动的不同行为。细胞特异性基因调控网络的鉴定将加深对单细胞分辨率疾病病理学的理解，并有助于精准医学的发展。在这里，我们描述了一个数据库，LnCeCell（http：www.bio-bigdata.net/LnCeCell/或http：//bio-bigdata.hrbmu.edu.cn/LnCeCell/），其目的是记录细胞特异性长非编码RNA（lncRNA）相关的竞争性内源性RNA（ceRNA）网络，用于基于“一个细胞，一个世界”理论的个性化疾病表征。LnCeCell利用来自25种癌症的> 94000个细胞的细胞特异性ceRNA调节进行策划，并提供>9000个实验支持的lncRNA生物标志物，与肿瘤转移，复发，预后，循环，耐药性等相关。对于每个细胞，LnCeCell说明了ceRNA亚细胞位置的全局地图，这些地图是从文献和相关数据源手动策划的，描绘单个癌细胞的功能状态图谱。LnCeCell还提供了几种灵活的工具，可以根据特定的细胞背景来推断ceRNA的功能。LnCeCell是研究单个细胞内基因调控网络的重要资源，可以帮助研究人员了解复杂微生物生态系统和个体表型的调控机制。
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. LnCeCell serves as an important resource for investigating the gene regulatory networks within a single cell and can help researchers understand the regulatory mechanisms underlying complex microbial ecosystems and individual phenotypes.
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