GTRD

GTRD (Gene Transcription Regulation Database) is a database of transcription factor binding sites identified from ChIP-seq experiments. GTRD analyze freely avalable ChIP-seq experiments from literature, GEO, SRA and ENCODE databases.

The web interface to GTRD is available at http://192.168.199.241/bioumlweb/#anonymous=true&perspective=GTRD.

Database statistics

GTRD uses 2417 ChIP-seq experiments for 470 distinct sequence specific transcription factors.

ChIP-seq experiments by species

Most of ChIP-seq experiments (1638) have corresponding control experiment.

Control experiments

In average each transcription factor is measured in 4.07 ChIP-seq experiments, but 284 (60%) transcription factors measured only in only one experiment.

The ten most studied transcription factors listed bellow:

Transcription Factor	Number of ChIP-seq experiments
CTCF	195
c-Myc	45
ERα	44
NRSF	37
C/EBPβ	37
GATA-1	33
NF-κB p65	30
Max	30
PU.1	29
GR	24

• ChIP-seq reads total 80.808E9, per experiment in average 34.937E6.
• Read alignments total 58.848E9, per experiment in average: 25.675E6.
• ChIP-seq peaks total 59.515E6, per experiment in average: 32899.