GTRD

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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

General statistics:

Object type Total count Per ChIP-seq experiment
ChIP-seq reads 80.808E9 34.937E6
Read alignments 58.848E9 25.675E6
ChIP-seq peaks 59.515E6 32899

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


Database structure

Web interface to database

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