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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
95
total RNA-seq
87
single cell RNA-seq
72
ChIP-seq
56
snATAC-seq
51
ATAC-seq
47
WGBS
17
pCHi-C
10
RRBS
9
Hi-C
4
DNase-seq
1
DNAme array
1
FAIRE-seq
Assay category
182
Transcription
112
DNA accessibility
72
DNA binding
58
DNA methylation
9
3D chromatin structure
Target of assay
39
histone
39
histone modification
32
control
26
broad histone mark
13
narrow histone mark
1
RNA binding protein
1
transcription factor
Date released
134
May, 2022
May, 2020
88
February, 2023
57
May, 2021
56
September, 2020
46
February, 2021
17
August, 2017
13
July, 2019
12
October, 2019
8
January, 2021
8
June, 2019
3
November, 2017
3
October, 2022
1
August, 2021
1
March, 2020
1
May, 2019
1
November, 2018
1
September, 2018
Available data
180
fastq
153
zippedFastqFolder
49
bigWig
39
bam
34
bed narrowPeak
18
tsv
10
bed bedMethyl
10
bigBed bedMethyl
7
bed bed3+
5
hic
4
bed broadPeak
4
bedpe bed3+
4
bigBed broadPeak
4
bigBed narrowPeak
4
hdf5
3
cool
2
csv
2
tagAlign
1
tar
Organism
450
Homo sapiens
Biosample type
884
tissue
450
primary cell
197
cell line
120
in vitro differentiated cells
7
stem cell
Organ
181
epithelium
154
pancreas
15
vasculature
13
blood vessel
10
vein
8
blood
8
bodily fluid
8
kidney
7
brain
7
connective tissue
3
heart
3
liver
3
musculature of body
2
eye
1
bone element
1
bone marrow
Project
314
HPAP
112
AMP
24
T1D
Genome assembly (visualization)
533
hg19
GRCh38
Lab
314
Klaus Kaestner, Upenn
77
AMP-T2D consortium
59
Kyle Gaulton, UCSD
Audit category:
31
audit script error
14
inconsistent ontology term
assembly!
GRCh38
lab.title!
Struan F.A. Grant, CHOP
month_released!
December, 2019
May, 2020
BIOSAMPLE
ASSAY
450 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
DNase-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
6
22
31
1
pancreatic beta cell
11
6
13
16
1
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
1
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