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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
279
ChIP-seq
188
ATAC-seq
187
single cell RNA-seq
171
total RNA-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
RRBS
4
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
360
Transcription
279
DNA binding
276
DNA accessibility
58
DNA methylation
4
3D chromatin structure
Target of assay
237
histone
237
histone modification
122
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
134
May, 2022
February, 2023
73
September, 2018
59
August, 2017
59
September, 2020
55
June, 2019
48
February, 2021
48
July, 2018
43
April, 2018
33
October, 2019
31
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
2
October, 2018
1
November, 2018
Available data
613
bigWig
609
bam
333
fastq
295
bed narrowPeak
258
tsv
153
zippedFastqFolder
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
994
Homo sapiens
Biosample type
2631
tissue
994
primary cell
654
cell line
374
in vitro differentiated cells
10
stem cell
Organ
364
epithelium
306
pancreas
39
connective tissue
36
kidney
35
vasculature
29
blood vessel
21
brain
20
vein
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
545
AMP
245
HPAP
204
T1D
Genome assembly (visualization)
623
hg19
535
GRCh38
Lab
510
AMP-T2D consortium
245
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
Audit category:
48
inconsistent ontology term
27
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
files.file_type!
hic
month_released!
February, 2023
BIOSAMPLE
ASSAY
994 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
85
15
54
1
1
Langerhans cell
85
48
pancreatic alpha cell
13
35
12
25
31
pancreatic beta cell
13
23
12
11
16
CD8-positive, alpha-beta T cell
33
2
4
1
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