TRED -- A Transcriptional Regulatory Element Database and a platform for in silico gene regulation studies
What you can do:
Search for annotated and comprehensive information about cis- and trans-regulatory elements in human, mouse and rat genomes.
Highlights:
- As an integrated repository for both cis- and trans- regulatory elements in mammals, the database can provide good training datasets for further genome wide cis-regulatory element prediction, assist detailed functional studies, and facilitate the decipher of gene regulatory networks.
- Distinguishing features of TRED include: (i) relatively complete genome-wide promoter annotation for human, mouse and rat; (ii) availability of gene transcriptional regulation information including transcription factor binding sites and experimental evidence; (iii) data accuracy is ensured by hand curation; (iv) efficient user interface for easy and flexible data retrieval; and (v) implementation of on-the-fly sequence analysis tools.
- 2007 update:
- In this new release, we included a total of 36 TF families involved in cancer.
- There are 11,660 target genes (7479 in human, 2691 in mouse and 1490 in rat) and 14,908 target promoters (10,225 in human, 2985 in mouse and 1698 in rat).
Keywords:
- transcription factor binding sites
- DNA-binding sites
- mammalian promoter elements
- cis-elements
- trans-elements
- mammalian transcription factors
- transcriptional regulatory elements
- human transcription factor binding sites
- mouse transcription factor binding sites
- rat transcription factor binding sites
- mammalian transcription factor binding sites
- cis-regulatory element prediction
- regulatory sequences
- regulatory elements
- cancer genes transcription factors
Literature & Tutorials:
PubMed Link: TRED
PubMed Link of 2007 update: TRED: a transcriptional regulatory element database, new entries and other development
PubMed Link of 2007 update: TRED: a transcriptional regulatory element database, new entries and other development
This record last updated: 02-27-2007