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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
635
ChIP-seq
28
total RNA-seq
27
ATAC-seq
15
WGBS
9
DNase-seq
6
RRBS
6
single cell RNA-seq
5
GRO-seq
1
FAIRE-seq
1
Hi-C
1
pCHi-C
Assay category
635
DNA binding
37
DNA accessibility
34
Transcription
21
DNA methylation
1
3D chromatin structure
Target of assay
404
transcription factor
134
control
92
histone
92
histone modification
82
recombinant protein
78
RNA binding protein
52
broad histone mark
40
narrow histone mark
33
chromatin remodeller
5
other context
5
other post-translational modification
Date released
315
November, 2017
August, 2017
94
December, 2017
87
November, 2018
58
October, 2018
39
February, 2018
35
December, 2018
30
January, 2019
24
May, 2022
17
October, 2017
14
July, 2019
6
April, 2018
6
September, 2017
5
January, 2018
2
July, 2018
1
August, 2018
1
March, 2019
Available data
2559
bam
2330
bigWig
1413
bed narrowPeak
1241
tsv
910
bigBed narrowPeak
720
fastq
246
bed broadPeak
235
bigBed broadPeak
225
tagAlign
203
bed bed3+
161
txt
64
xls
21
bed bedMethyl
21
bigBed bedMethyl
19
bedpe bed3+
17
hic
11
bed bed3
7
bed bedgraph
6
csv
3
tar
2
ibed
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
734
Homo sapiens
Biosample type
427
cell line
primary cell
216
tissue
87
in vitro differentiated cells
4
stem cell
Organ
437
liver
88
pancreas
60
blood
60
bodily fluid
27
embryo
26
adipose tissue
26
connective tissue
24
spleen
19
epithelium
13
brain
7
heart
1
blood vessel
1
kidney
1
limb
1
musculature of body
1
pericardium
1
vasculature
Project
734
AMP
Genome assembly (visualization)
579
hg19
523
GRCh38
5
hg18
Lab
708
AMP-T2D consortium
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
28
inconsistent control
4
inconsistent ontology term
Audit category:
18
missing controlled_by
Audit category:
40
inconsistent control read length
8
inconsistent control run_type
biosample_type!
primary cell
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
month_released!
August, 2017
BIOSAMPLE
ASSAY
734 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
DNase-seq
RRBS
single cell RNA-seq
GRO-seq
FAIRE-seq
Hi-C
pCHi-C
cell line
HepG2
360
5
1
1
GM12878
60
tissue
liver
42
2
body of pancreas
33
4
2
2
islet of Langerhans
6
8
20
1
6
spleen
20
1
2
1
omental fat pad
11
1
1
+ See 13 more…
in vitro differentiated cells
pancreatic endoderm
18
4
1
hepatocyte
15
definitive endodermal cell
8
2
1
primitive gut cell
8
2
1
Posterior foregut
5
1
+ See 6 more…
stem cell
hESC
3
1
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