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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
193
ATAC-seq
187
single cell RNA-seq
149
total RNA-seq
131
ChIP-seq
48
snATAC-seq
47
WGBS
10
Hi-C
10
RRBS
7
DNase-seq
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
338
Transcription
249
DNA accessibility
131
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
104
histone
104
histone modification
54
narrow histone mark
50
broad histone mark
24
control
6
RNA binding protein
6
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
102
May, 2020
88
February, 2023
73
September, 2018
59
August, 2017
59
September, 2020
June, 2019
48
February, 2021
48
July, 2018
43
April, 2018
34
October, 2019
31
July, 2019
20
May, 2021
9
November, 2017
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
402
fastq
374
bam
344
bigWig
174
tsv
153
zippedFastqFolder
134
bed narrowPeak
62
bigBed narrowPeak
25
bed broadPeak
25
bigBed broadPeak
16
tagAlign
11
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
787
Homo sapiens
Biosample type
2562
tissue
787
primary cell
657
cell line
347
in vitro differentiated cells
10
stem cell
Organ
379
epithelium
339
pancreas
33
vasculature
29
blood vessel
23
kidney
22
vein
21
connective tissue
16
brain
12
liver
5
heart
3
musculature of body
2
adipose tissue
2
artery
1
eye
1
pericardium
Project
469
AMP
317
HPAP
1
ITG
Genome assembly (visualization)
373
hg19
302
GRCh38
Lab
469
AMP-T2D consortium
317
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
31
audit script error
24
inconsistent ontology term
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
month_released!
August, 2020
June, 2019
BIOSAMPLE
ASSAY
787 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
WGBS
Hi-C
RRBS
DNase-seq
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
30
12
52
13
31
1
Langerhans cell
85
48
pancreatic beta cell
21
12
21
13
16
1
exocrine cell
39
pancreatic acinar cell
9
12
4
8
1
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