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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
80
ChIP-seq
69
single cell RNA-seq
41
total RNA-seq
32
ATAC-seq
16
DNase-seq
2
Hi-C
1
FAIRE-seq
Assay category
110
Transcription
80
DNA binding
49
DNA accessibility
2
3D chromatin structure
Target of assay
73
histone
73
histone modification
37
narrow histone mark
36
broad histone mark
5
RNA binding protein
5
transcription factor
2
control
1
chromatin remodeller
Date released
61
September, 2018
33
April, 2018
32
July, 2018
25
October, 2019
17
August, 2017
15
June, 2019
14
December, 2017
7
August, 2020
7
July, 2019
6
November, 2017
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
May, 2021
3
September, 2020
2
May, 2019
2
October, 2018
1
June, 2018
Available data
252
fastq
250
bam
241
bigWig
127
bed narrowPeak
119
tsv
80
zippedFastqFolder
71
bigBed narrowPeak
21
bed broadPeak
21
bigBed broadPeak
20
bed bed3+
5
bed bedMethyl
5
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
1
tar
Organism
241
Homo sapiens
Biosample type
225
primary cell
14
in vitro differentiated cells
2
cell line
Organ
622
liver
559
connective tissue
532
pancreas
425
adipose tissue
241
epithelium
220
brain
217
heart
154
vasculature
150
blood vessel
116
kidney
90
limb
85
artery
60
musculature of body
58
bone element
55
blood
55
bodily fluid
31
nerve
25
embryo
18
ureter
16
spleen
15
vein
6
eye
1
pericardium
1
pituitary gland
Project
231
AMP
10
HPAP
Genome assembly (visualization)
234
GRCh38
225
hg19
Lab
231
AMP-T2D consortium
10
Klaus Kaestner, Upenn
Audit category:
inconsistent ontology term
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
month_released!
May, 2021
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
241 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
FAIRE-seq
primary cell
pancreatic alpha cell
7
12
10
13
pancreatic beta cell
7
12
10
10
pancreatic ductal cell
13
10
4
4
pancreatic acinar cell
8
11
4
5
endothelial cell of umbilical vein
12
2
1
+ See 18 more…
in vitro differentiated cells
hepatocyte
14
cell line
glomerular visceral epithelial cell
1
1
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