redhand mysql配置文件_TRED:Transcriptional Regulatory Element Database

In order to understand gene regulation, accurate and

comprehensive knowledge of transcriptional regulatory elements is

essential. Transcriptional Regulatory Element Database (TRED) has

been built in response to increasing needs of an integrated

repository for both cis- and trans- regulatory elements in mammals,

and the lack of such resources at present.

Genome-wide human, mouse and rat promoter annotation in TRED

was realized by an automated pipeline to extract known promoters

from databases such as Genbank, EPD and DBTSS, and employ promoter

finding program FirstEF combined with mRNA/EST information and

cross-species comparisons. We have also carried out hand curation

to assess computational prediction and ensure data accuracy. A

quality level is assigned to each promoter based on the reliability

of the supporting evidence.

Curation has also been done for transcriptional regulation

information, including transcription factor binding motifs and

experimental evidence. Binding motifs are mapped on promoters of

the corresponding genes and binding quality levels are assigned

based on definitiveness of the binding evidence. Curation is

currently focusing on target genes of 36 cancer-related TF

families.

Distinguishing features of TRED include: