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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
93
total RNA-seq
92
ChIP-seq
72
ATAC-seq
70
single cell RNA-seq
18
DNase-seq
7
Hi-C
1
FAIRE-seq
Assay category
163
Transcription
92
DNA binding
91
DNA accessibility
DNA methylation
7
3D chromatin structure
Target of assay
66
histone
66
histone modification
35
narrow histone mark
31
broad histone mark
21
control
5
RNA binding protein
5
transcription factor
Date released
61
September, 2018
39
May, 2022
37
February, 2023
33
April, 2018
33
July, 2018
33
October, 2019
29
August, 2017
20
June, 2019
19
September, 2020
7
August, 2020
7
July, 2019
6
November, 2017
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
October, 2022
2
October, 2018
1
June, 2018
1
March, 2020
Available data
242
bam
232
fastq
231
bigWig
110
tsv
106
bed narrowPeak
61
bigBed narrowPeak
39
zippedFastqFolder
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
5
hic
4
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
1
tar
Organism
353
Homo sapiens
Biosample type
353
primary cell
79
cell line
24
in vitro differentiated cells
15
tissue
Organ
353
epithelium
299
pancreas
38
connective tissue
36
vasculature
33
kidney
31
blood vessel
22
vein
20
brain
13
liver
13
musculature of body
12
heart
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
248
AMP
105
HPAP
Genome assembly (visualization)
225
GRCh38
221
hg19
Lab
248
AMP-T2D consortium
105
Klaus Kaestner, Upenn
Audit category:
9
inconsistent ontology term
4
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
353 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
Hi-C
FAIRE-seq
primary cell
pancreatic alpha cell
52
13
35
12
1
pancreatic beta cell
21
13
23
12
1
pancreatic acinar cell
4
8
9
12
1
pancreatic ductal cell
4
13
4
10
endothelial cell of umbilical vein
17
2
2
1
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