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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
737
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
1
GRO-seq
1
Hi-C
Assay category
737
DNA binding
356
Transcription
101
DNA accessibility
21
DNA methylation
1
3D chromatin structure
Target of assay
421
transcription factor
165
histone modification
164
histone
146
control
87
broad histone mark
83
RNA binding protein
82
recombinant protein
77
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
60
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
3047
bam
2879
bigWig
1653
bed narrowPeak
1449
tsv
1217
fastq
1025
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
17
hic
14
bedpe bed3+
8
csv
7
bed bed3
5
hdf5
4
tar
3
cool
1
bedpe
1
tagAlign bed3+
1
vcf
Organism
1210
Homo sapiens
Biosample type
427
cell line
409
primary cell
377
tissue
in vitro differentiated cells
4
stem cell
Organ
471
pancreas
450
liver
238
epithelium
60
blood
60
bodily fluid
46
connective tissue
43
adipose tissue
24
spleen
21
brain
6
vasculature
3
blood vessel
2
musculature of body
Project
1048
AMP
169
HPAP
Genome assembly (visualization)
890
hg19
833
GRCh38
1
hg18
Lab
1022
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:
39
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
assay_title!
CRISPR genome editing followed by DNA sequencing
biosample_type!
in vitro differentiated cells
month_released!
November, 2019
BIOSAMPLE
ASSAY
1217 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
97
6
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 8 more…
stem cell
hESC
3
1
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