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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
605
ChIP-seq
222
total RNA-seq
134
single cell RNA-seq
61
ATAC-seq
27
snATAC-seq
17
WGBS
11
DNase-seq
4
RRBS
2
FAIRE-seq
GRO-seq
1
Hi-C
Assay category
605
DNA binding
356
Transcription
101
DNA accessibility
21
DNA methylation
1
3D chromatin structure
Target of assay
391
transcription factor
146
control
112
histone modification
111
histone
81
recombinant protein
80
RNA binding protein
62
broad histone mark
narrow histone mark
27
chromatin remodeller
5
other context
5
other post-translational modification
Date released
305
November, 2017
170
August, 2017
85
November, 2018
76
February, 2023
55
October, 2018
50
July, 2018
48
December, 2017
45
February, 2021
44
April, 2018
41
September, 2018
41
September, 2020
35
December, 2018
27
January, 2019
24
May, 2022
13
October, 2017
11
September, 2017
7
August, 2020
3
August, 2018
3
June, 2018
1
March, 2019
Available data
2683
bam
2456
bigWig
1469
tsv
1266
bed narrowPeak
1084
fastq
868
bigBed narrowPeak
291
bed broadPeak
270
bigBed broadPeak
228
bed bed3+
193
tagAlign
158
txt
153
zippedFastqFolder
64
xls
36
bed bedMethyl
36
bigBed bedMethyl
19
hic
16
bedpe bed3+
8
csv
7
bed bed3
5
hdf5
4
tar
3
cool
1
bedpe
1
vcf
Organism
1079
Homo sapiens
Biosample type
407
cell line
348
primary cell
327
tissue
in vitro differentiated cells
2
stem cell
Organ
424
liver
395
pancreas
207
epithelium
59
blood
59
bodily fluid
33
connective tissue
30
adipose tissue
22
spleen
14
brain
4
vasculature
2
blood vessel
2
musculature of body
Project
915
AMP
169
HPAP
Genome assembly (visualization)
760
hg19
711
GRCh38
Lab
889
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:
missing controlled_by
Audit category:
20
inconsistent control read length
2
inconsistent assembly
2
inconsistent control run_type
assay_title!
GRO-seq
biosample_type!
in vitro differentiated cells
audit.NOT_COMPLIANT.category!
missing controlled_by
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
1084 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
RRBS
FAIRE-seq
Hi-C
cell line
HepG2
341
5
1
1
GM12878
59
primary cell
pancreatic alpha cell
9
52
12
13
6
Langerhans cell
34
27
pancreatic beta cell
9
21
12
10
exocrine cell
39
pancreatic acinar cell
4
9
5
+ See 17 more…
tissue
islet of Langerhans
13
97
6
20
1
1
liver
62
1
2
1
body of pancreas
28
4
2
2
spleen
18
1
2
1
pancreas
12
2
1
+ See 7 more…
stem cell
hESC
2
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