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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
67
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
107
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
81
February, 2023
73
September, 2018
60
October, 2018
51
December, 2017
50
July, 2018
47
February, 2021
44
April, 2018
41
September, 2020
35
December, 2018
30
January, 2019
24
May, 2022
16
October, 2017
11
September, 2017
7
August, 2020
3
August, 2018
3
June, 2018
1
January, 2018
1
March, 2019
Available data
3101
bam
2909
bigWig
1685
bed narrowPeak
1469
tsv
1216
fastq
1025
bigBed narrowPeak
358
tagAlign
320
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
1216
Homo sapiens
Biosample type
428
cell line
410
primary cell
381
tissue
in vitro differentiated cells
4
stem cell
Organ
470
pancreas
451
liver
238
epithelium
60
blood
60
bodily fluid
47
connective tissue
43
adipose tissue
24
spleen
22
brain
6
vasculature
4
bone element
4
skeleton
3
blood vessel
2
musculature of body
Project
1054
AMP
169
HPAP
Genome assembly (visualization)
896
hg19
834
GRCh38
1
hg18
Lab
1029
AMP-T2D consortium
169
Klaus Kaestner, Upenn
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
Stephen Parker, UMich
Audit category:
28
inconsistent control
27
audit script error
7
inconsistent ontology term
1
inconsistent replicate
Audit category:
83
missing controlled_by
Audit category:
39
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
lab.title!
Stephen Parker, UMich
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
1223 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
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 19 more…
tissue
islet of Langerhans
28
97
6
19
1
1
liver
67
1
2
1
body of pancreas
33
4
2
2
spleen
20
1
2
1
pancreas
16
2
1
+ See 12 more…
stem cell
hESC
3
1
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