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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
191
total RNA-seq
186
ATAC-seq
175
single cell RNA-seq
158
ChIP-seq
41
WGBS
31
DNase-seq
29
snATAC-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
FAIRE-seq
Assay category
368
Transcription
247
DNA accessibility
158
DNA binding
51
DNA methylation
6
3D chromatin structure
Target of assay
119
histone
119
histone modification
63
narrow histone mark
56
broad histone mark
32
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
73
September, 2018
59
August, 2017
59
September, 2020
55
June, 2019
February, 2021
48
July, 2018
43
April, 2018
34
October, 2019
31
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
2
October, 2018
1
March, 2023
1
November, 2018
Available data
457
bam
440
bigWig
364
fastq
211
tsv
167
bed narrowPeak
153
zippedFastqFolder
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
34
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
bedpe bed3+
4
hdf5
3
cool
2
csv
1
tar
Organism
830
Homo sapiens
Biosample type
2182
tissue
830
primary cell
543
cell line
225
in vitro differentiated cells
9
stem cell
Organ
396
epithelium
337
pancreas
36
kidney
36
vasculature
35
connective tissue
30
blood vessel
21
brain
21
vein
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
500
AMP
276
HPAP
53
T1D
1
ITG
Genome assembly (visualization)
437
hg19
385
GRCh38
Lab
500
AMP-T2D consortium
276
Klaus Kaestner, Upenn
53
Kyle Gaulton, UCSD
1
ITG
Audit category:
53
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assembly!
hg18
files.file_type!
bedpe bed3+
month_released!
February, 2021
May, 2021
BIOSAMPLE
ASSAY
830 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
WGBS
DNase-seq
snATAC-seq
RRBS
Hi-C
small RNA-seq
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
13
25
Langerhans cell
73
21
pancreatic beta cell
21
23
12
13
16
exocrine cell
39
pancreatic acinar cell
4
9
12
8
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