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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
104
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
104
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
123
histone
123
histone modification
65
narrow histone mark
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
56
September, 2018
48
February, 2021
48
July, 2018
47
June, 2019
43
April, 2018
43
August, 2017
31
July, 2019
22
October, 2019
18
May, 2021
9
November, 2017
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
376
fastq
373
bam
344
bigWig
174
tsv
153
zippedFastqFolder
133
bed narrowPeak
88
bigBed narrowPeak
41
bed broadPeak
41
bigBed broadPeak
34
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
9
tagAlign
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
791
Homo sapiens
Biosample type
2422
tissue
791
primary cell
637
cell line
301
in vitro differentiated cells
9
stem cell
Organ
375
epithelium
319
pancreas
34
connective tissue
31
kidney
28
vasculature
22
blood vessel
21
brain
13
heart
13
liver
13
vein
10
musculature of body
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
466
AMP
324
HPAP
1
ITG
Genome assembly (visualization)
359
hg19
304
GRCh38
Lab
466
AMP-T2D consortium
324
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
41
inconsistent ontology term
31
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
assay_slims!
DNA sequencing
target.investigated_as!
broad histone mark
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
791 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
10
31
1
Langerhans cell
85
48
pancreatic beta cell
23
12
21
10
16
1
exocrine cell
39
pancreatic acinar cell
9
12
4
4
1
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