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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
186
ATAC-seq
186
single cell RNA-seq
123
total RNA-seq
103
ChIP-seq
48
snATAC-seq
47
WGBS
29
DNase-seq
10
RRBS
8
Hi-C
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
311
Transcription
263
DNA accessibility
103
DNA binding
58
DNA methylation
8
3D chromatin structure
Target of assay
76
histone
76
histone modification
44
narrow histone mark
32
broad histone mark
30
control
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
102
May, 2020
88
February, 2023
September, 2018
59
September, 2020
57
August, 2017
51
June, 2019
48
February, 2021
48
July, 2018
43
April, 2018
31
July, 2019
20
May, 2021
13
October, 2019
7
August, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
August, 2021
4
May, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2023
1
November, 2018
Available data
331
fastq
327
bam
301
bigWig
153
zippedFastqFolder
148
tsv
112
bed narrowPeak
72
bigBed narrowPeak
40
bed broadPeak
40
bigBed broadPeak
33
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
4
hic
3
bedpe bed3+
3
cool
1
bed bed3
1
csv
Organism
744
Homo sapiens
Biosample type
2697
tissue
744
primary cell
592
cell line
341
in vitro differentiated cells
10
stem cell
Organ
340
epithelium
274
pancreas
37
connective tissue
35
vasculature
34
kidney
30
blood vessel
vein
18
brain
14
liver
14
musculature of body
12
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
419
AMP
324
HPAP
1
ITG
Genome assembly (visualization)
314
hg19
263
GRCh38
Lab
419
AMP-T2D consortium
324
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
inconsistent ontology term
30
audit script error
Audit category:
12
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!
September, 2018
organ_slims!
vein
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
744 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
pCHi-C
primary cell
Langerhans cell
85
48
pancreatic alpha cell
32
12
42
13
31
1
pancreatic beta cell
19
12
11
13
16
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
2
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