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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
654
ChIP-seq
228
total RNA-seq
128
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
654
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
49
narrow histone mark
27
chromatin remodeller
5
other context
5
other post-translational modification
Date released
314
November, 2017
199
August, 2017
85
November, 2018
76
February, 2023
60
October, 2018
51
December, 2017
50
July, 2018
45
February, 2021
44
April, 2018
41
September, 2018
41
September, 2020
35
December, 2018
30
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
3019
bam
2828
bigWig
1637
bed narrowPeak
1469
tsv
1133
fastq
1010
bigBed narrowPeak
354
tagAlign
319
bed broadPeak
284
bigBed broadPeak
234
bed bed3+
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
tagAlign bed3+
1
vcf
Organism
1126
Homo sapiens
Biosample type
414
cell line
365
primary cell
351
tissue
in vitro differentiated cells
3
stem cell
Organ
437
liver
417
pancreas
217
epithelium
60
blood
60
bodily fluid
34
connective tissue
31
adipose tissue
24
spleen
17
brain
6
vasculature
3
blood vessel
2
musculature of body
Project
964
AMP
169
HPAP
Genome assembly (visualization)
809
hg19
759
GRCh38
Lab
938
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:
34
inconsistent control read length
3
inconsistent assembly
3
inconsistent control run_type
assay_title!
GRO-seq
biosample_type!
in vitro differentiated cells
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
1133 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
347
5
1
1
GM12878
60
primary cell
pancreatic alpha cell
13
52
12
13
6
Langerhans cell
34
27
pancreatic beta cell
13
21
12
10
exocrine cell
39
pancreatic acinar cell
4
9
5
+ See 17 more…
tissue
islet of Langerhans
18
103
20
1
1
liver
67
1
2
1
body of pancreas
33
4
2
2
spleen
20
1
2
1
pancreas
16
2
1
+ See 7 more…
stem cell
hESC
3
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