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Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
21
ChIP-seq
5
total RNA-seq
3
polyA mRNA RNA-seq
2
ATAC-seq
1
CAGE
1
DNase-seq
1
small RNA-seq
Assay category
21
DNA binding
10
Transcription
3
DNA accessibility
Target of assay
11
histone
11
histone modification
7
transcription factor
6
broad histone mark
5
narrow histone mark
3
control
2
chromatin remodeller
Date released
8
April, 2012
4
March, 2012
3
August, 2012
3
July, 2011
2
February, 2012
2
January, 2017
2
July, 2012
2
June, 2011
2
March, 2016
2
May, 2012
1
August, 2011
1
June, 2012
1
October, 2015
1
September, 2014
Available data
34
bam
34
bigWig
34
fastq
19
bed broadPeak
19
bed narrowPeak
19
bigBed broadPeak
19
bigBed narrowPeak
10
tsv
3
bed bedRnaElements
3
bigBed bedRnaElements
2
bigBed bed3+
2
gtf
1
bed idr_peak
1
bed tss_peak
1
bigBed idr_peak
1
bigBed tss_peak
1
gff gff3
Organism
30
Mus musculus
4
Homo sapiens
Biosample type
24
primary cell
7
tissue
3
stem cell
Organ
661
brain
543
connective tissue
447
intestine
387
skin of body
376
muscle organ
298
heart
292
lung
289
embryonic structure
281
liver
255
kidney
253
large intestine
241
stomach
197
blood vessel
153
extraembryonic component
147
penis
135
adipose tissue
120
mammary gland
109
esophagus
107
small intestine
104
pancreas
101
adrenal gland
95
gonad
93
spleen
69
vein
54
thyroid gland
53
thymus
48
ovary
44
breast
44
testis
43
placenta
39
prostate gland
37
blood
36
artery
34
bone element
31
eye
31
ureter
30
uterus
26
spinal cord
25
vagina
24
mouth
21
urinary bladder
20
bronchus
6
lymphatic vessel
5
tongue
3
trachea
2
skeleton
1
nose
Project
34
ENCODE
Genome assembly (visualization)
25
mm10
8
mm9
4
GRCh38
4
hg19
Audit category:
12
insufficient read depth
8
control low read depth
6
control insufficient read depth
2
insufficient read length
1
poor library complexity
Audit category:
17
low read length
14
inconsistent control read length
12
inconsistent platforms
9
low read depth
8
control low read depth
7
mild to moderate bottlenecking
6
mixed read lengths
3
moderate library complexity
2
borderline replicate concordance
2
low replicate concordance
2
missing spikeins
1
insufficient read depth
BIOSAMPLE
ASSAY
34 results
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ChIP-seq
total RNA-seq
polyA mRNA RNA-seq
ATAC-seq
CAGE
DNase-seq
small RNA-seq
primary cell
megakaryocyte
9
2
1
1
bone marrow macrophage
6
1
granulocyte monocyte progenitor cell
2
1
stromal cell of bone marrow
1
tissue
bone marrow
6
1
stem cell
mesenchymal stem cell of the bone marrow
1
1
1
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