Database Commons

a catalog of biological databases

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

Database information

MTD (mammalian transcriptomic database)

General information

Description: MTD is a mammalian transcriptomic database that is focused on mammalian transcriptomes, and the current version contains data from humans, mice, rats and pigs.
Year founded: 2015
Last update: 2015-11-05
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: No.1 Beichen West Road, Chaoyang District
City: Beijing
Province/State:
Country/Region: China
Contact name (PI/Team): Jingfa Xiao
Contact email (PI/Helpdesk): xiaojf@big.ac.cn

Record metadata

Created on: 2016-05-06
Curated by:
[2018-11-28]

Ranking

All databases:
2261/4656 (51.46%)
Expression:
438/833 (47.539%)
Pathway:
139/314 (56.051%)
2261
Total Rank
7
Citations
2.333
z-index

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Publications

26822098
MTD: a mammalian transcriptomic database to explore gene expression and regulation. [PMID: 26822098]
Sheng X, Wu J, Sun Q, Li X, Xian F, Sun M, Fang W, Chen M, Yu J, Xiao J.

A systematic transcriptome survey is essential for the characterization and comprehension of the molecular basis underlying phenotypic variations. Recently developed RNA-seq methodology has facilitated efficient data acquisition and information mining of transcriptomes in multiple tissues/cell lines. Current mammalian transcriptomic databases are either tissue-specific or species-specific, and they lack in-depth comparative features across tissues and species. Here, we present a mammalian transcriptomic database (MTD) that is focused on mammalian transcriptomes, and the current version contains data from humans, mice, rats and pigs. Regarding the core features, the MTD browses genes based on their neighboring genomic coordinates or joint KEGG pathway and provides expression information on exons, transcripts and genes by integrating them into a genome browser. We developed a novel nomenclature for each transcript that considers its genomic position and transcriptional features. The MTD allows a flexible search of genes or isoforms with user-defined transcriptional characteristics and provides both table-based descriptions and associated visualizations. To elucidate the dynamics of gene expression regulation, the MTD also enables comparative transcriptomic analysis in both intraspecies and interspecies manner. The MTD thus constitutes a valuable resource for transcriptomic and evolutionary studies. The MTD is freely accessible at http://mtd.cbi.ac.cn. © The Author 2016. Published by Oxford University Press.

Brief Bioinform. 2017:18(1) | 7 Citations (from Europe PMC, 2020-08-08)