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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
553
ChIP-seq
134
single cell RNA-seq
133
total RNA-seq
56
ATAC-seq
27
snATAC-seq
13
WGBS
9
DNase-seq
1
FAIRE-seq
1
GRO-seq
1
Hi-C
Assay category
553
DNA binding
267
Transcription
93
DNA accessibility
13
DNA methylation
1
3D chromatin structure
Target of assay
394
transcription factor
119
control
85
histone
85
histone modification
82
recombinant protein
77
RNA binding protein
broad histone mark
35
narrow histone mark
32
chromatin remodeller
5
other context
5
other post-translational modification
Date released
310
November, 2017
August, 2017
88
November, 2018
76
February, 2023
56
September, 2018
50
July, 2018
49
October, 2018
47
December, 2017
45
February, 2021
44
April, 2018
41
September, 2020
35
December, 2018
26
January, 2019
24
May, 2022
11
October, 2017
11
September, 2017
7
August, 2020
3
August, 2018
3
June, 2018
1
January, 2018
1
March, 2019
Available data
2429
bam
2233
bigWig
1312
tsv
1155
bed narrowPeak
928
fastq
725
bigBed narrowPeak
252
bed broadPeak
245
bigBed broadPeak
207
bed bed3+
185
tagAlign
158
txt
153
zippedFastqFolder
64
xls
28
bed bedMethyl
28
bigBed bedMethyl
16
hic
14
bedpe bed3+
8
csv
7
bed bed3
3
cool
3
hdf5
3
tar
1
bedpe
1
tagAlign bed3+
1
vcf
Organism
928
Homo sapiens
Biosample type
419
cell line
328
primary cell
178
tissue
in vitro differentiated cells
3
stem cell
Organ
411
liver
275
pancreas
199
epithelium
60
blood
60
bodily fluid
28
connective tissue
25
adipose tissue
20
spleen
15
brain
vasculature
3
blood vessel
Project
759
AMP
169
HPAP
Genome assembly (visualization)
629
hg19
581
GRCh38
1
hg18
Lab
733
AMP-T2D consortium
169
Klaus Kaestner, Upenn
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
28
inconsistent control
27
audit script error
7
inconsistent ontology term
Audit category:
29
missing controlled_by
Audit category:
22
inconsistent control read length
8
inconsistent control run_type
biosample_type!
in vitro differentiated cells
month_released!
August, 2017
organ_slims!
vasculature
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
928 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
FAIRE-seq
GRO-seq
Hi-C
cell line
HepG2
352
5
1
1
GM12878
60
primary cell
pancreatic alpha cell
12
52
12
6
Langerhans cell
34
27
pancreatic beta cell
12
21
9
exocrine cell
39
pancreatic ductal cell
7
9
4
4
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tissue
liver
42
2
islet of Langerhans
6
6
8
20
body of pancreas
22
4
2
2
spleen
16
1
2
1
omental fat pad
11
1
1
+ See 5 more…
stem cell
hESC
2
1
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