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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
88
total RNA-seq
86
ChIP-seq
69
single cell RNA-seq
32
ATAC-seq
17
DNase-seq
7
Hi-C
6
WGBS
5
RRBS
1
FAIRE-seq
Assay category
157
Transcription
86
DNA binding
50
DNA accessibility
11
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
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
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
228
bam
220
bigWig
110
tsv
100
bed narrowPeak
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
311
Homo sapiens
Biosample type
311
primary cell
19
in vitro differentiated cells
14
tissue
3
cell line
Organ
311
epithelium
261
pancreas
36
vasculature
31
blood vessel
28
kidney
26
connective tissue
22
vein
21
brain
8
blood
8
bodily fluid
8
liver
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
239
AMP
72
HPAP
Genome assembly (visualization)
214
hg19
213
GRCh38
Lab
239
AMP-T2D consortium
72
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
month_released!
December, 2019
May, 2022
BIOSAMPLE
ASSAY
311 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
RRBS
FAIRE-seq
primary cell
pancreatic alpha cell
52
13
12
13
1
6
pancreatic beta cell
21
13
12
10
1
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
4
8
11
5
1
endothelial cell of umbilical vein
17
2
2
1
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