Database Commons

a catalog of biological databases

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

Database information

RED (Rice Expression Database)

General information

Description: Rice Expression Database (RED) is a repository of gene expression profiles derived entirely from RNA-Seq data analysis on tissues spanning an entire range of rice growth stages and covering a wide variety of biotic and abiotic treatments.
Year founded: 2016
Last update: 2018-04-20
Version: 1.0
Accessibility:
Manual:
Accessible
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Country/Region: China
Data type:
RNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Beijing Institute of Genomics, Chinese Academy of Sciences
Address: 1 Beichen West Road, Chaoyang District, Beijing 100101, China
City: Beijing
Province/State:
Country/Region: China
Contact name (PI/Team): Zhang Zhang
Contact email (PI/Helpdesk): zhangzhang@big.ac.cn

Related Database

Record metadata

Created on: 2017-11-06
Curated by:
Zhang Zhang [2018-11-28]
Dong Zou [2018-05-14]
Lina Ma [2017-11-09]
Lin Liu [2017-11-06]

Ranking

All databases:
1329/4549 (70.807%)
Expression:
244/800 (69.625%)
1329
Total Rank
14
Citations
4.667
z-index

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Publications

28529082
Rice Expression Database (RED): An integrated RNA-Seq-derived gene expression database for rice. [PMID: 28529082]
Xia L, Zou D, Sang J, Xu X, Yin H, Li M, Wu S, Hu S, Hao L, Zhang Z.

Rice is one of the most important stable food as well as a monocotyledonous model organism for the plant research community. Here, we present RED (Rice Expression Database; http://expression.ic4r.org), an integrated database of rice gene expression profiles derived entirely from RNA-Seq data. RED features a comprehensive collection of 284 high-quality RNA-Seq experiments, integrates a large number of gene expression profiles and covers a wide range of rice growth stages as well as various treatments. Based on massive expression profiles, RED provides a list of housekeeping and tissue-specific genes and dynamically constructs co-expression networks for gene(s) of interest. Besides, it provides user-friendly web interfaces for querying, browsing and visualizing expression profiles of concerned genes. Together, as a core resource in BIG Data Center, RED bears great utility for characterizing the function of rice genes and better understanding important biological processes and mechanisms underlying complex agronomic traits in rice. Copyright 2017 Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, and Genetics Society of China. Published by Elsevier Ltd. All rights reserved.

J Genet Genomics. 2017:44(5) | 14 Citations (from Europe PMC, 2020-04-04)