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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
632
ChIP-seq
28
total RNA-seq
27
ATAC-seq
9
DNase-seq
7
WGBS
6
single cell RNA-seq
5
GRO-seq
1
FAIRE-seq
1
Hi-C
1
pCHi-C
Assay category
632
DNA binding
37
DNA accessibility
34
Transcription
7
DNA methylation
1
3D chromatin structure
Target of assay
401
transcription factor
134
control
92
histone
92
histone modification
82
recombinant protein
77
RNA binding protein
52
broad histone mark
40
narrow histone mark
33
chromatin remodeller
5
other context
5
other post-translational modification
Date released
312
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
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
tar
2
ibed
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
717
Homo sapiens
Biosample type
424
cell line
primary cell
202
tissue
87
in vitro differentiated cells
4
stem cell
Organ
434
liver
86
pancreas
60
blood
60
bodily fluid
27
embryo
26
adipose tissue
26
connective tissue
24
spleen
19
epithelium
12
brain
Project
717
AMP
Genome assembly (visualization)
570
hg19
515
GRCh38
5
hg18
Lab
691
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
files.file_type!
tar
biosample_type!
primary cell
month_released!
August, 2017
BIOSAMPLE
ASSAY
717 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
single cell RNA-seq
GRO-seq
FAIRE-seq
Hi-C
pCHi-C
cell line
HepG2
357
5
1
1
GM12878
60
tissue
liver
42
2
body of pancreas
33
4
2
2
islet of Langerhans
6
8
20
6
spleen
20
1
1
2
omental fat pad
11
1
1
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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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