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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
100
single cell RNA-seq
98
total RNA-seq
71
ATAC-seq
29
DNase-seq
4
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
200
Transcription
158
DNA binding
101
DNA accessibility
4
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
90
May, 2020
72
September, 2018
58
August, 2017
55
June, 2019
48
July, 2018
43
April, 2018
31
October, 2019
18
July, 2019
9
November, 2017
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
February, 2021
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
Available data
460
bam
442
bigWig
409
fastq
218
tsv
168
bed narrowPeak
153
zippedFastqFolder
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
464
Homo sapiens
Biosample type
1879
tissue
579
cell line
464
primary cell
213
in vitro differentiated cells
3
stem cell
Organ
246
epithelium
197
pancreas
36
connective tissue
33
vasculature
31
kidney
28
blood vessel
21
vein
17
brain
13
musculature of body
12
heart
12
liver
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
416
AMP
45
T1D
3
HPAP
Genome assembly (visualization)
429
hg19
376
GRCh38
Lab
416
AMP-T2D consortium
45
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
45
inconsistent ontology term
3
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
files.file_type!
hdf5
month_released!
May, 2021
BIOSAMPLE
ASSAY
464 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
pancreatic beta cell
13
12
10
7
1
pancreatic alpha cell
13
12
10
6
1
pancreatic ductal cell
13
10
4
4
pancreatic acinar cell
8
12
4
5
1
pancreatic endocrine cell
23
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