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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
total RNA-seq
203
ChIP-seq
200
ATAC-seq
184
single cell RNA-seq
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
433
Transcription
232
DNA accessibility
203
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
193
histone
193
histone modification
101
broad histone mark
92
narrow histone mark
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
203
May, 2021
147
May, 2020
113
May, 2022
88
February, 2023
59
September, 2020
48
July, 2018
47
June, 2019
43
April, 2018
41
September, 2018
34
August, 2017
31
October, 2019
28
July, 2019
21
February, 2021
7
August, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
August, 2021
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
559
bigWig
533
bam
322
fastq
267
tsv
263
bed narrowPeak
132
zippedFastqFolder
109
bigBed narrowPeak
98
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
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
953
Homo sapiens
Biosample type
2536
tissue
953
primary cell
566
cell line
351
in vitro differentiated cells
9
stem cell
Organ
364
epithelium
290
pancreas
36
connective tissue
33
kidney
33
vasculature
28
blood vessel
20
vein
15
brain
13
liver
12
musculature of body
11
heart
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
480
AMP
276
HPAP
196
T1D
1
ITG
Genome assembly (visualization)
574
hg19
489
GRCh38
Lab
448
AMP-T2D consortium
276
Klaus Kaestner, Upenn
228
Kyle Gaulton, UCSD
1
ITG
Audit category:
49
inconsistent ontology term
4
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
assay_title!
snATAC-seq
target.investigated_as!
control
BIOSAMPLE
ASSAY
953 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
7
35
12
31
1
Langerhans cell
85
pancreatic beta cell
21
7
23
12
16
1
exocrine cell
39
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