Difference between revisions of "GTRD"

Revision as of 17:37, 1 July 2013 (view source) Ivan Yevshin (Talk | contribs) ← Older edit		Revision as of 17:45, 1 July 2013 (view source) Ivan Yevshin (Talk | contribs) Newer edit →
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	==Database statistics==		==Database statistics==
−	GTRD uses 2417 ChIP-seq experiments for 470 distinct sequence specific transcription factors.	+	GTRD uses 2417 ChIP-seq experiments for 470 distinct sequence specific transcription factors. [[File:gtrd_exp_by_specie.png|thumb|ChIP-seq experiments by species]]
−	[[File:gtrd_exp_by_specie.png|ChIP-seq experiments by species]]	+
−	Most of ChIP-seq experiments (1638) have corresponding control experiment.	+	Most of ChIP-seq experiments (1638) have corresponding control experiment. [[File:gtrd_exp_control.png|thumb|Control experiments]]
−	[[File:gtrd_exp_control.png|thumb|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:
		+
		+	{| class="wikitable"
		+	|-
		+	! 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
		+	|}
		+	Transcription Factor ChIP-seq experiments count

---

Revision as of 17:45, 1 July 2013

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

The web interface to GTRD is freely 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. Most of ChIP-seq experiments (1638) have corresponding control experiment.

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

Transcription Factor ChIP-seq experiments count