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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
246
total RNA-seq
199
ATAC-seq
175
single cell RNA-seq
157
ChIP-seq
41
WGBS
31
DNase-seq
29
snATAC-seq
16
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
423
Transcription
260
DNA accessibility
157
DNA binding
52
DNA methylation
10
3D chromatin structure
Target of assay
237
histone
237
histone modification
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
140
May, 2021
134
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
February, 2021
48
July, 2018
47
June, 2019
43
April, 2018
43
August, 2017
31
July, 2019
22
October, 2019
9
November, 2017
8
January, 2021
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
506
bam
493
bigWig
331
fastq
263
tsv
182
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
35
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
tar
Organism
918
Homo sapiens
Biosample type
1929
tissue
918
primary cell
547
cell line
312
in vitro differentiated cells
9
stem cell
Organ
369
epithelium
313
pancreas
32
connective tissue
31
kidney
28
vasculature
22
blood vessel
21
brain
13
heart
13
liver
13
vein
10
musculature of body
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
478
AMP
279
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
507
hg19
438
GRCh38
Lab
463
AMP-T2D consortium
279
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
inconsistent ontology term
4
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
month_released!
February, 2021
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
918 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
WGBS
DNase-seq
snATAC-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
10
25
1
monocyte
54
15
41
1
1
Langerhans cell
73
21
pancreatic beta cell
21
23
12
10
16
1
exocrine cell
39
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