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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
ATAC-seq
187
single cell RNA-seq
151
total RNA-seq
117
ChIP-seq
48
snATAC-seq
31
DNase-seq
10
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
340
Transcription
117
DNA binding
80
DNA accessibility
DNA methylation
10
3D chromatin structure
Target of assay
153
histone
153
histone modification
broad histone mark
75
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
76
February, 2023
56
September, 2020
54
May, 2022
48
July, 2018
47
June, 2019
43
April, 2018
42
September, 2018
41
February, 2021
39
August, 2017
22
July, 2019
20
October, 2019
19
May, 2021
9
November, 2017
5
December, 2019
5
November, 2020
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
3
October, 2022
2
May, 2020
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
337
fastq
289
bam
281
bigWig
156
tsv
104
bed narrowPeak
73
zippedFastqFolder
66
bigBed narrowPeak
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
9
tagAlign
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
tar
Organism
548
Homo sapiens
Biosample type
2156
tissue
604
cell line
548
primary cell
296
in vitro differentiated cells
9
stem cell
Organ
250
epithelium
201
pancreas
31
connective tissue
28
kidney
27
vasculature
22
blood vessel
20
brain
13
vein
12
heart
11
liver
9
musculature of body
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
319
AMP
228
HPAP
T1D
1
ITG
Genome assembly (visualization)
280
hg19
255
GRCh38
Lab
304
AMP-T2D consortium
228
Klaus Kaestner, Upenn
15
Kyle Gaulton, UCSD
1
ITG
Audit category:
31
audit script error
27
inconsistent ontology term
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
assay_slims!
DNA methylation
assay_title!
ATAC-seq
award.project!
T1D
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
548 results
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single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
DNase-seq
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
Langerhans cell
85
48
pancreatic alpha cell
12
52
10
1
pancreatic beta cell
12
21
10
1
exocrine cell
39
pancreatic acinar cell
12
4
4
1
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