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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
93
total RNA-seq
72
ATAC-seq
70
single cell RNA-seq
54
ChIP-seq
47
WGBS
16
DNase-seq
6
RRBS
5
Hi-C
Assay category
163
Transcription
88
DNA accessibility
54
DNA binding
53
DNA methylation
5
3D chromatin structure
Target of assay
30
histone
30
histone modification
19
control
18
narrow histone mark
12
broad histone mark
5
RNA binding protein
5
transcription factor
Date released
80
May, 2022
40
September, 2018
37
February, 2023
33
April, 2018
33
July, 2018
29
August, 2017
20
June, 2019
19
September, 2020
13
July, 2019
12
October, 2019
7
August, 2020
6
February, 2021
6
November, 2017
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
October, 2022
2
October, 2018
1
June, 2018
Available data
217
fastq
201
bam
195
bigWig
116
tsv
80
zippedFastqFolder
72
bed narrowPeak
48
bigBed narrowPeak
19
bed bed3+
18
bed broadPeak
18
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
4
tagAlign
3
bedpe bed3+
3
cool
3
hic
2
hdf5
Organism
363
Homo sapiens
Biosample type
363
primary cell
79
cell line
24
in vitro differentiated cells
15
tissue
Organ
385
epithelium
302
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
vein
21
brain
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
211
AMP
152
HPAP
Genome assembly (visualization)
192
GRCh38
189
hg19
Lab
211
AMP-T2D consortium
152
Klaus Kaestner, Upenn
Audit category:
10
inconsistent ontology term
3
audit script error
Audit category:
missing controlled_by
Audit category:
4
inconsistent control read length
audit.NOT_COMPLIANT.category!
missing controlled_by
organ_slims!
vein
BIOSAMPLE
ASSAY
363 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
WGBS
DNase-seq
RRBS
Hi-C
primary cell
pancreatic alpha cell
52
35
12
13
31
1
pancreatic beta cell
21
23
12
13
16
1
pancreatic acinar cell
4
9
12
1
pancreatic ductal cell
4
4
10
epithelial cell of proximal tubule
1
10
1
1
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