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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
243
total RNA-seq
160
ATAC-seq
157
ChIP-seq
154
single cell RNA-seq
35
snATAC-seq
30
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
6
WGBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
399
Transcription
226
DNA accessibility
157
DNA binding
17
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
May, 2022
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
9
November, 2017
8
January, 2021
7
August, 2020
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
503
bam
490
bigWig
376
fastq
266
tsv
181
bed narrowPeak
87
bigBed narrowPeak
49
tagAlign
40
bed broadPeak
40
bigBed broadPeak
35
bed bed3+
19
zippedFastqFolder
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
826
Homo sapiens
Biosample type
2404
tissue
826
primary cell
637
cell line
338
in vitro differentiated cells
9
stem cell
Organ
295
epithelium
239
pancreas
31
kidney
29
connective tissue
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
475
AMP
190
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
504
hg19
434
GRCh38
Lab
460
AMP-T2D consortium
190
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
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
month_released!
November, 2020
May, 2022
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
826 results
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total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
DNase-seq
pCHi-C
Hi-C
RRBS
WGBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
54
15
41
1
1
pancreatic alpha cell
52
13
10
12
1
6
Langerhans cell
52
27
pancreatic beta cell
21
10
10
12
1
exocrine cell
39
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