Difference between revisions of "GTRD statistics"

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Line 20: Line 20:
 
!ChIP-seq experiments count
 
!ChIP-seq experiments count
 
|-
 
|-
! align="right"|CTCF <nowiki>[</nowiki>11<nowiki>]</nowiki>
+
! align="right"|CTCF <nowiki>[</nowiki>11<nowiki>]</nowiki>:
 
|195
 
|195
 
|-
 
|-
! align="right"|c-Myc
+
! align="right"|c-Myc:
 
|45
 
|45
 
|-
 
|-
! align="right"|Estrogen receptor α (ERα) (NR3A1)
+
! align="right"|Estrogen receptor α (ERα) (NR3A1):
 
|44
 
|44
 
|-
 
|-
! align="right"|REST <nowiki>[</nowiki>1+7+1<nowiki>]</nowiki> (NRSF, XBR)
+
! align="right"|REST <nowiki>[</nowiki>1+7+1<nowiki>]</nowiki> (NRSF, XBR):
 
|37
 
|37
 
|-
 
|-
! align="right"|C/EBPβ (NF-IL6-1)
+
! align="right"|C/EBPβ (NF-IL6-1):
 
|37
 
|37
 
|-
 
|-
! align="right"|GATA-1 (GF-1, EryF1, NF-E1)
+
! align="right"|GATA-1 (GF-1, EryF1, NF-E1):
 
|33
 
|33
 
|-
 
|-
! align="right"|NF-κB p65 (RelA)
+
! align="right"|NF-κB p65 (RelA):
 
|30
 
|30
 
|-
 
|-
! align="right"|Max
+
! align="right"|Max:
 
|30
 
|30
 
|-
 
|-
! align="right"|PU.1 (Spi-1)
+
! align="right"|PU.1 (Spi-1):
 
|29
 
|29
 
|-
 
|-
! align="right"|Glucocorticoid receptor (GR) (NR3C1)
+
! align="right"|Glucocorticoid receptor (GR) (NR3C1):
 
|24
 
|24
 
|}
 
|}
Line 55: Line 55:
 
{|
 
{|
 
|-
 
|-
! align="right"|Total:
+
! align="right"|Total::
 
|5.9515E7
 
|5.9515E7
 
|-
 
|-
! align="right"|Per experiment in avg.:
+
! align="right"|Per experiment in avg.::
 
|32899
 
|32899
 
|-
 
|-
! align="right"|Experiments with peaks:
+
! align="right"|Experiments with peaks::
 
|1809
 
|1809
 
|}
 
|}
Line 69: Line 69:
 
{|
 
{|
 
|-
 
|-
! align="right"|Total:
+
! align="right"|Total::
 
|5.8848E10
 
|5.8848E10
 
|-
 
|-
! align="right"|Per experiment in avg.:
+
! align="right"|Per experiment in avg.::
 
|2.5675E7
 
|2.5675E7
 
|-
 
|-
! align="right"|Experiments with alignment:
+
! align="right"|Experiments with alignment::
 
|2292
 
|2292
 
|}
 
|}
Line 83: Line 83:
 
{|
 
{|
 
|-
 
|-
! align="right"|Total:
+
! align="right"|Total::
 
|8.0808E10
 
|8.0808E10
 
|-
 
|-
! align="right"|Per experiment in avg.:
+
! align="right"|Per experiment in avg.::
 
|3.4937E7
 
|3.4937E7
 
|-
 
|-
! align="right"|Experiments with alignment:
+
! align="right"|Experiments with alignment::
 
|2313
 
|2313
 
|}
 
|}

Revision as of 14:41, 7 August 2013

GTRD statistics

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

Contents

Experiments by species

GTRD statistics-by-species.png

Control experiments

GTRD statistics-control.png

Experiments by transcription factor

4.07 experiments per transcription factor in average.

284 (60%) transcription factors measured only in one experiment.

Top 10 transcription factors

Transcription Factor ChIP-seq experiments count
CTCF [11]: 195
c-Myc: 45
Estrogen receptor α (ERα) (NR3A1): 44
REST [1+7+1] (NRSF, XBR): 37
C/EBPβ (NF-IL6-1): 37
GATA-1 (GF-1, EryF1, NF-E1): 33
NF-κB p65 (RelA): 30
Max: 30
PU.1 (Spi-1): 29
Glucocorticoid receptor (GR) (NR3C1): 24

ChIP-seq peaks

Total:: 5.9515E7
Per experiment in avg.:: 32899
Experiments with peaks:: 1809

GTRD statistics-peakCounts.png

Alignment

Total:: 5.8848E10
Per experiment in avg.:: 2.5675E7
Experiments with alignment:: 2292

GTRD statistics-alignCounts.png

Raw reads

Total:: 8.0808E10
Per experiment in avg.:: 3.4937E7
Experiments with alignment:: 2313

GTRD statistics-readCounts.png

Percent aligned per experiment distribution

GTRD statistics-percentAligned.png

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