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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
188
ATAC-seq
187
single cell RNA-seq
171
total RNA-seq
157
ChIP-seq
56
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
360
Transcription
276
DNA accessibility
157
DNA binding
58
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
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
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
509
bam
495
bigWig
300
fastq
258
tsv
183
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
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
878
Homo sapiens
Biosample type
2359
tissue
878
primary cell
637
cell line
322
in vitro differentiated cells
9
stem cell
Organ
338
epithelium
282
pancreas
35
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
469
AMP
248
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
510
hg19
440
GRCh38
Lab
454
AMP-T2D consortium
248
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
40
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!
February, 2023
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
878 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
35
12
25
10
31
1
monocyte
15
54
41
1
1
pancreatic beta cell
23
12
11
10
16
1
pancreatic acinar cell
9
12
4
4
1
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