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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
187
ChIP-seq
98
total RNA-seq
87
single cell RNA-seq
58
ATAC-seq
49
WGBS
48
snATAC-seq
4
RRBS
2
FAIRE-seq
1
DNase-seq
1
GRO-seq
1
Hi-C
Assay category
187
DNA binding
185
Transcription
109
DNA accessibility
53
DNA methylation
1
3D chromatin structure
Target of assay
142
control
42
transcription factor
7
RNA binding protein
3
histone
3
histone modification
2
broad histone mark
2
chromatin remodeller
1
narrow histone mark
1
recombinant protein
Date released
158
May, 2022
101
November, 2017
76
February, 2023
56
September, 2020
45
February, 2021
33
August, 2017
27
October, 2018
12
December, 2017
9
November, 2018
5
December, 2018
4
January, 2019
4
September, 2017
3
October, 2017
1
January, 2018
1
March, 2019
1
September, 2018
Available data
407
bam
384
fastq
223
bigWig
196
tsv
181
bed narrowPeak
158
txt
153
zippedFastqFolder
130
tagAlign
42
bigBed narrowPeak
40
bed broadPeak
19
bed bedMethyl
19
bigBed bedMethyl
18
bigBed broadPeak
18
hic
16
bedpe bed3+
9
bed bed3+
8
csv
5
bed bed3
4
hdf5
4
tar
3
cool
1
bedpe
1
vcf
Organism
535
Homo sapiens
Biosample type
332
primary cell
106
cell line
97
tissue
in vitro differentiated cells
1
stem cell
Organ
194
pancreas
153
epithelium
121
liver
20
adipose tissue
20
connective tissue
8
spleen
6
blood
6
bodily fluid
6
brain
2
musculature of body
2
vasculature
1
blood vessel
Project
311
HPAP
225
AMP
Genome assembly (visualization)
890
hg19
GRCh38
1
hg18
Lab
311
Klaus Kaestner, Upenn
200
AMP-T2D consortium
24
Kyle Gaulton, UCSD
1
Mark McCarthy, Oxford
Audit category:
27
audit script error
Audit category:
9
missing controlled_by
Audit category:
4
inconsistent control read length
2
inconsistent control run_type
assembly!
GRCh38
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
536 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
WGBS
snATAC-seq
RRBS
FAIRE-seq
DNase-seq
GRO-seq
Hi-C
primary cell
Langerhans cell
85
48
pancreatic alpha cell
6
42
22
31
pancreatic beta cell
6
11
13
16
exocrine cell
39
pancreatic acinar cell
4
+ See 5 more…
cell line
HepG2
99
1
GM12878
6
tissue
islet of Langerhans
5
6
19
1
liver
16
1
1
subcutaneous adipose tissue
10
body of pancreas
8
omental fat pad
8
+ See 6 more…
stem cell
hESC
1
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