Database Commons

a catalog of biological databases

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

Database information

OGEE (Online GEne Essentiality database)

General information

Description: OGEE is an Online Gene Essentiality database. Its main purpose is to enhance our understanding of the essentiality of genes.
Year founded: 2011
Last update: 2017-01-01
Version: v2.0
Accessibility:
Manual:
Accessible
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Country/Region: China
Data type:
DNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Huazhong University of Science and Technology
Address: College of Life Science and Technology
City: Wuhan
Province/State: Hubei
Country/Region: China
Contact name (PI/Team): Wei-Hua Chen
Contact email (PI/Helpdesk): weihuachen@hust.edu.cn

Related Database

Record metadata

Created on: 2015-06-20
Curated by:
[2018-11-27]
Lina Ma [2018-07-10]
Shixiang Sun [2017-02-20]
Lin Liu [2016-03-28]
Mengwei Li [2016-02-21]
Mengwei Li [2016-02-19]
Li Yang [2015-06-26]

Ranking

All databases:
528/4549 (88.415%)
Gene genome and annotation:
195/1211 (83.98%)
528
Total Rank
107
Citations
13.375
z-index

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Word cloud

Publications

27799467
OGEE v2: an update of the online gene essentiality database with special focus on differentially essential genes in human cancer cell lines. [PMID: 27799467]
Chen WH, Lu G, Chen X, Zhao XM, Bork P.

OGEE is an Online GEne Essentiality database. To enhance our understanding of the essentiality of genes, in OGEE we collected experimentally tested essential and non-essential genes, as well as associated gene properties known to contribute to gene essentiality. We focus on large-scale experiments, and complement our data with text-mining results. We organized tested genes into data sets according to their sources, and tagged those with variable essentiality statuses across data sets as conditionally essential genes, intending to highlight the complex interplay between gene functions and environments/experimental perturbations. Developments since the last public release include increased numbers of species and gene essentiality data sets, inclusion of non-coding essential sequences and genes with intermediate essentiality statuses. In addition, we included 16 essentiality data sets from cancer cell lines, corresponding to 9 human cancers; with OGEE, users can easily explore the shared and differentially essential genes within and between cancer types. These genes, especially those derived from cell lines that are similar to tumor samples, could reveal the oncogenic drivers, paralogous gene expression pattern and chromosomal structure of the corresponding cancer types, and can be further screened to identify targets for cancer therapy and/or new drug development. OGEE is freely available at http://ogee.medgenius.info. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

Nucleic Acids Res. 2017:45(D1) | 30 Citations (from Europe PMC, 2020-02-15)
22075992
OGEE: an online gene essentiality database. [PMID: 22075992]
Chen WH, Minguez P, Lercher MJ, Bork P.

OGEE is an Online GEne Essentiality database. Its main purpose is to enhance our understanding of the essentiality of genes. This is achieved by collecting not only experimentally tested essential and non-essential genes, but also associated gene features such as expression profiles, duplication status, conservation across species, evolutionary origins and involvement in embryonic development. We focus on large-scale experiments and complement our data with text-mining results. Genes are organized into data sets according to their sources. Genes with variable essentiality status across data sets are tagged as conditionally essential, highlighting the complex interplay between gene functions and environments. Linked tools allow the user to compare gene essentiality among different gene groups, or compare features of essential genes to non-essential genes, and visualize the results. OGEE is freely available at http://ogeedb.embl.de.

Nucleic Acids Res. 2012:40(Database issue) | 77 Citations (from Europe PMC, 2020-02-15)