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:
This record last updated: 02-27-2007
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