Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile

GEN

General information

URL: https://ngdc.cncb.ac.cn/gen/
Full name: Gene Expression Nebulas
Description: Gene Expression Nebulas (GEN) is a data portal of gene expression profiles under various conditions derived entirely from RNA-Seq data analysis in multiple species.
Year founded: 2016
Last update: 2021
Version:
Accessibility:
Manual:
Accessible
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Country/Region: China

Classification and Labelling

Data type:
RNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Beijing Institute of Genomics, Chinese Academy of Sciences
Address:
City: Beijing
Province/State: Beijing
Country/Region: China
Contact name (PI/Team): Zhangzhang
Contact email (PI/Helpdesk): zhangzhang@big.ac.cn

Publications

34591957
Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels. [PMID: 34591957]
Zhang Y, Zou D, Zhu T, Xu T, Chen M, Niu G, Zong W, Pan R, Jing W, Sang J, Liu C, Xiong Y, Sun Y, Zhai S, Chen H, Zhao W, Xiao J, Bao Y, Hao L, Zhang Z.

Transcriptomic profiling is critical to uncovering functional elements from transcriptional and post-transcriptional aspects. Here, we present Gene Expression Nebulas (GEN, https://ngdc.cncb.ac.cn/gen/), an open-access data portal integrating transcriptomic profiles under various biological contexts. GEN features a curated collection of high-quality bulk and single-cell RNA sequencing datasets by using standardized data processing pipelines and a structured curation model. Currently, GEN houses a large number of gene expression profiles from 323 datasets (157 bulk and 166 single-cell), covering 50 500 samples and 15 540 169 cells across 30 species, which are further categorized into six biological contexts. Moreover, GEN integrates a full range of transcriptomic profiles on expression, RNA editing and alternative splicing for 10 bulk datasets, providing opportunities for users to conduct integrative analysis at both transcriptional and post-transcriptional levels. In addition, GEN provides abundant gene annotations based on value-added curation of transcriptomic profiles and delivers online services for data analysis and visualization. Collectively, GEN presents a comprehensive collection of transcriptomic profiles across multiple species, thus serving as a fundamental resource for better understanding genetic regulatory architecture and functional mechanisms from tissues to cells.

Nucleic Acids Res. 2021:() | 2 Citations (from Europe PMC, 2022-05-14)

Ranking

All databases:
2795/5177 (46.031%)
Expression:
560/989 (43.478%)
2795
Total Rank
2
Citations
2
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Record metadata

Created on: 2018-05-25
Curated by:
Dong Zou [2021-10-18]
Tianyi Xu [2021-09-24]
Dong Zou [2021-06-27]
Lina Ma [2018-05-25]