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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
200
total RNA-seq
187
single cell RNA-seq
100
ATAC-seq
56
snATAC-seq
47
WGBS
42
ChIP-seq
31
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
389
Transcription
188
DNA accessibility
58
DNA methylation
42
DNA binding
10
3D chromatin structure
Target of assay
237
histone
histone modification
122
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
May, 2020
134
May, 2022
88
February, 2023
88
May, 2021
59
September, 2020
48
February, 2021
48
July, 2018
43
April, 2018
41
September, 2018
36
June, 2019
31
July, 2019
21
August, 2017
13
October, 2019
8
January, 2021
7
August, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
October, 2022
2
May, 2019
2
October, 2018
1
August, 2021
1
March, 2020
1
March, 2023
1
November, 2018
Available data
336
fastq
316
bam
293
bigWig
225
tsv
153
zippedFastqFolder
79
bed narrowPeak
62
bigBed narrowPeak
34
bed bed3+
33
bed broadPeak
33
bigBed broadPeak
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
2
tagAlign
1
bed bed3
1
tar
Organism
704
Homo sapiens
Biosample type
1980
tissue
704
primary cell
621
cell line
282
in vitro differentiated cells
8
stem cell
Organ
340
epithelium
288
pancreas
31
connective tissue
26
kidney
20
vasculature
18
brain
15
blood vessel
11
heart
11
liver
8
blood
8
bodily fluid
7
vein
6
musculature of body
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
324
HPAP
304
AMP
75
T1D
1
ITG
Genome assembly (visualization)
308
hg19
293
GRCh38
Lab
324
Klaus Kaestner, Upenn
299
AMP-T2D consortium
80
Kyle Gaulton, UCSD
1
ITG
Audit category:
31
audit script error
29
inconsistent ontology term
target.investigated_as!
other post-translational modification
histone modification
month_released!
May, 2020
BIOSAMPLE
ASSAY
704 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
ChIP-seq
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
12
35
31
6
1
Langerhans cell
85
48
pancreatic beta cell
21
12
23
16
6
1
monocyte
52
13
1
1
exocrine cell
39
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