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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
86
ChIP-seq
71
ATAC-seq
69
single cell RNA-seq
47
WGBS
17
DNase-seq
7
Hi-C
5
RRBS
1
FAIRE-seq
Assay category
162
Transcription
89
DNA accessibility
86
DNA binding
52
DNA methylation
7
3D chromatin structure
Target of assay
64
histone
64
histone modification
33
narrow histone mark
31
broad histone mark
19
control
3
RNA binding protein
3
transcription factor
Date released
80
May, 2022
61
September, 2018
37
February, 2023
33
April, 2018
32
July, 2018
32
October, 2019
29
August, 2017
19
September, 2020
16
June, 2019
12
July, 2019
7
August, 2020
6
February, 2021
6
November, 2017
5
December, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
October, 2022
2
May, 2019
2
October, 2018
1
June, 2018
1
March, 2020
Available data
237
fastq
233
bam
225
bigWig
115
tsv
100
bed narrowPeak
80
zippedFastqFolder
56
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
396
Homo sapiens
Biosample type
396
primary cell
19
in vitro differentiated cells
15
tissue
3
cell line
Organ
396
epithelium
341
pancreas
36
vasculature
31
blood vessel
28
kidney
26
connective tissue
22
vein
21
brain
13
liver
8
blood
8
bodily fluid
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
244
AMP
152
HPAP
Genome assembly (visualization)
219
hg19
218
GRCh38
Lab
244
AMP-T2D consortium
152
Klaus Kaestner, Upenn
Audit category:
inconsistent ontology term
4
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
396 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
DNase-seq
Hi-C
RRBS
FAIRE-seq
primary cell
pancreatic alpha cell
52
13
35
12
31
1
pancreatic beta cell
21
13
23
12
16
1
pancreatic acinar cell
4
8
9
11
1
pancreatic ductal cell
4
13
4
10
endothelial cell of umbilical vein
17
2
2
1
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