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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
158
ChIP-seq
138
ATAC-seq
102
single cell RNA-seq
100
total RNA-seq
31
DNase-seq
10
RRBS
8
snATAC-seq
7
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
204
Transcription
178
DNA accessibility
158
DNA binding
10
DNA methylation
7
3D chromatin structure
Target of assay
119
histone
119
histone modification
63
narrow histone mark
56
broad histone mark
32
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
May, 2021
147
May, 2020
73
September, 2018
59
August, 2017
55
June, 2019
48
July, 2018
43
April, 2018
34
October, 2019
31
July, 2019
12
February, 2023
9
November, 2017
8
January, 2021
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
February, 2021
3
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
460
bam
432
bigWig
240
fastq
212
tsv
168
bed narrowPeak
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
558
Homo sapiens
Biosample type
2736
tissue
641
cell line
558
primary cell
262
in vitro differentiated cells
10
stem cell
Organ
254
epithelium
194
pancreas
38
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
504
AMP
53
T1D
1
ITG
Genome assembly (visualization)
441
hg19
377
GRCh38
Lab
504
AMP-T2D consortium
Klaus Kaestner, Upenn
53
Kyle Gaulton, UCSD
1
ITG
Audit category:
53
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
month_released!
May, 2021
organ_slims!
esophagus
lab.title!
Klaus Kaestner, Upenn
BIOSAMPLE
ASSAY
558 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
DNase-seq
RRBS
snATAC-seq
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
pancreatic beta cell
13
7
12
10
pancreatic alpha cell
13
6
12
10
pancreatic ductal cell
13
4
10
4
pancreatic acinar cell
8
5
12
4
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
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