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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
195
ATAC-seq
187
single cell RNA-seq
160
ChIP-seq
149
total RNA-seq
48
snATAC-seq
47
WGBS
31
DNase-seq
10
RRBS
4
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
338
Transcription
275
DNA accessibility
160
DNA binding
58
DNA methylation
4
3D chromatin structure
Target of assay
121
histone
121
histone modification
64
narrow histone mark
57
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
73
September, 2018
59
September, 2020
57
August, 2017
55
June, 2019
48
February, 2021
48
July, 2018
43
April, 2018
33
October, 2019
31
July, 2019
20
May, 2021
9
November, 2017
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
2
October, 2018
1
November, 2018
Available data
422
bam
402
fastq
391
bigWig
174
bed narrowPeak
174
tsv
153
zippedFastqFolder
102
bigBed narrowPeak
48
bed broadPeak
48
bigBed broadPeak
35
bed bed3+
15
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
836
Homo sapiens
Biosample type
2707
tissue
836
primary cell
654
cell line
343
in vitro differentiated cells
10
stem cell
Organ
396
epithelium
338
pancreas
38
connective tissue
36
kidney
35
vasculature
29
blood vessel
21
brain
20
vein
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
515
AMP
321
HPAP
Genome assembly (visualization)
401
hg19
348
GRCh38
Lab
515
AMP-T2D consortium
321
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
Audit category:
49
inconsistent ontology term
27
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
inconsistent assembly
1
inconsistent control run_type
audit.WARNING.category!
inconsistent assembly
files.file_type!
hic
lab.title!
Kyle Gaulton, UCSD
month_released!
September, 2017
BIOSAMPLE
ASSAY
836 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
snATAC-seq
WGBS
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
33
12
13
52
31
Langerhans cell
85
48
pancreatic beta cell
21
12
13
21
16
exocrine cell
39
pancreatic acinar cell
8
12
8
4
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