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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
231
total RNA-seq
197
ATAC-seq
163
ChIP-seq
147
single cell RNA-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
380
Transcription
285
DNA accessibility
163
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
235
histone
235
histone modification
121
broad histone mark
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
154
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
September, 2020
58
September, 2018
48
February, 2021
48
July, 2018
44
June, 2019
43
April, 2018
36
August, 2017
31
July, 2019
25
October, 2019
8
January, 2021
7
August, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
505
bam
497
bigWig
327
fastq
270
tsv
190
bed narrowPeak
134
zippedFastqFolder
82
bigBed narrowPeak
52
tagAlign
40
bed broadPeak
40
bigBed broadPeak
35
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
913
Homo sapiens
Biosample type
2452
tissue
913
primary cell
642
cell line
339
in vitro differentiated cells
9
stem cell
Organ
352
epithelium
296
pancreas
35
connective tissue
31
kidney
29
vasculature
24
blood vessel
18
brain
16
vein
12
liver
11
heart
10
musculature of body
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
483
AMP
265
HPAP
164
T1D
1
ITG
Genome assembly (visualization)
515
hg19
430
GRCh38
Lab
458
AMP-T2D consortium
265
Klaus Kaestner, Upenn
189
Kyle Gaulton, UCSD
1
ITG
Audit category:
45
inconsistent ontology term
31
audit script error
Audit category:
21
missing controlled_by
Audit category:
inconsistent assembly
month_released!
September, 2020
audit.WARNING.category!
inconsistent assembly
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
913 results
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total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
37
33
9
12
31
1
monocyte
54
15
44
1
1
Langerhans cell
45
48
pancreatic beta cell
20
22
9
12
16
1
exocrine cell
39
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