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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
200
ATAC-seq
187
single cell RNA-seq
149
total RNA-seq
118
ChIP-seq
48
snATAC-seq
47
WGBS
31
DNase-seq
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
338
Transcription
280
DNA accessibility
118
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
79
histone
79
histone modification
42
narrow histone mark
37
broad histone mark
32
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
102
May, 2020
88
February, 2023
59
September, 2020
55
June, 2019
48
February, 2021
48
July, 2018
47
August, 2017
43
April, 2018
41
September, 2018
34
October, 2019
31
July, 2019
20
May, 2021
9
November, 2017
7
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
385
bam
365
fastq
354
bigWig
174
tsv
153
zippedFastqFolder
149
bed narrowPeak
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
805
Homo sapiens
Biosample type
2659
tissue
805
primary cell
644
cell line
341
in vitro differentiated cells
10
stem cell
Organ
385
epithelium
302
pancreas
38
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
480
AMP
324
HPAP
1
ITG
Genome assembly (visualization)
369
hg19
312
GRCh38
Lab
480
AMP-T2D consortium
324
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
49
inconsistent ontology term
31
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
805 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
35
12
52
13
31
1
Langerhans cell
85
48
pancreatic beta cell
23
12
21
13
16
1
exocrine cell
39
pancreatic acinar cell
9
12
4
1
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