Difference between revisions of "GTRD"
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Most of ChIP-seq experiments (1638) have corresponding control experiment. [[File:gtrd_exp_control.png|thumb|Control experiments]] | Most of ChIP-seq experiments (1638) have corresponding control experiment. [[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 average each transcription factor is measured in 4.07 ChIP-seq experiments, but 284 (60%) transcription factors measured only only in one experiment. |
The ten most studied transcription factors listed bellow: | The ten most studied transcription factors listed bellow: | ||
Revision as of 18:02, 1 July 2013
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.
In average each transcription factor is measured in 4.07 ChIP-seq experiments, but 284 (60%) transcription factors measured only 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 |
- 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.
