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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
200
total RNA-seq
187
single cell RNA-seq
164
ChIP-seq
100
ATAC-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
389
Transcription
188
DNA accessibility
164
DNA binding
48
DNA methylation
10
3D chromatin structure
Target of assay
237
histone
237
histone modification
122
broad histone mark
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
154
May, 2021
May, 2020
134
May, 2022
88
February, 2023
59
September, 2020
58
September, 2018
48
February, 2021
48
July, 2018
44
June, 2019
43
April, 2018
36
August, 2017
25
October, 2019
22
July, 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
416
bam
411
bigWig
369
fastq
225
tsv
191
bed narrowPeak
153
zippedFastqFolder
83
bigBed narrowPeak
53
tagAlign
41
bed broadPeak
41
bigBed broadPeak
35
bed bed3+
10
bed bedMethyl
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
816
Homo sapiens
Biosample type
2262
tissue
816
primary cell
641
cell line
339
in vitro differentiated cells
9
stem cell
Organ
365
epithelium
315
pancreas
34
connective tissue
28
kidney
28
vasculature
24
blood vessel
17
brain
16
vein
11
liver
10
heart
9
musculature of body
8
blood
8
bodily fluid
3
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
372
AMP
324
HPAP
119
T1D
1
ITG
Genome assembly (visualization)
416
hg19
389
GRCh38
Lab
347
AMP-T2D consortium
324
Klaus Kaestner, Upenn
144
Kyle Gaulton, UCSD
1
ITG
Audit category:
35
inconsistent ontology term
31
audit script error
Audit category:
21
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
bigBed bedMethyl
month_released!
May, 2020
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
816 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
12
9
35
31
1
Langerhans cell
85
48
monocyte
52
44
13
1
1
pancreatic beta cell
21
12
9
23
16
1
exocrine cell
39
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