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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
679
ChIP-seq
226
total RNA-seq
128
single cell RNA-seq
61
ATAC-seq
27
snATAC-seq
17
WGBS
11
DNase-seq
4
RRBS
2
FAIRE-seq
1
GRO-seq
1
Hi-C
Assay category
679
DNA binding
354
Transcription
101
DNA accessibility
21
DNA methylation
1
3D chromatin structure
Target of assay
406
transcription factor
149
histone modification
148
histone
119
control
82
recombinant protein
76
broad histone mark
72
RNA binding protein
72
narrow histone mark
33
chromatin remodeller
5
other context
5
other post-translational modification
Date released
324
November, 2017
233
August, 2017
88
November, 2018
76
February, 2023
73
September, 2018
October, 2018
51
December, 2017
50
July, 2018
45
February, 2021
44
April, 2018
41
September, 2020
35
December, 2018
30
January, 2019
24
May, 2022
17
October, 2017
11
September, 2017
7
August, 2020
3
August, 2018
3
June, 2018
1
January, 2018
1
March, 2019
Available data
3025
bam
2823
bigWig
1600
bed narrowPeak
1467
tsv
1157
fastq
980
bigBed narrowPeak
358
tagAlign
321
bed broadPeak
284
bigBed broadPeak
248
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
1150
Homo sapiens
Biosample type
427
cell line
407
primary cell
319
tissue
in vitro differentiated cells
4
stem cell
Organ
450
liver
434
pancreas
236
epithelium
60
blood
60
bodily fluid
24
spleen
23
connective tissue
21
brain
20
adipose tissue
6
vasculature
3
blood vessel
2
musculature of body
Project
988
AMP
169
HPAP
Genome assembly (visualization)
857
hg19
800
GRCh38
1
hg18
Lab
962
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:
83
missing controlled_by
Audit category:
38
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
biosample_type!
in vitro differentiated cells
month_released!
October, 2018
BIOSAMPLE
ASSAY
1157 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
RRBS
FAIRE-seq
GRO-seq
Hi-C
cell line
HepG2
360
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 ductal cell
13
4
9
4
+ See 18 more…
tissue
islet of Langerhans
28
103
20
1
1
liver
67
1
2
1
spleen
20
1
2
1
pancreas
14
2
1
right lobe of liver
10
1
1
+ See 8 more…
stem cell
hESC
3
1
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