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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
151
ATAC-seq
133
ChIP-seq
99
single cell RNA-seq
57
total RNA-seq
31
DNase-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
183
DNA accessibility
158
Transcription
133
DNA binding
11
DNA methylation
6
3D chromatin structure
Target of assay
123
histone
123
histone modification
65
narrow histone mark
58
broad histone mark
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
73
September, 2018
48
July, 2018
47
June, 2019
46
August, 2017
43
April, 2018
31
October, 2019
28
July, 2019
20
May, 2021
12
February, 2023
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
August, 2021
3
February, 2021
3
June, 2018
2
October, 2018
1
March, 2020
1
November, 2018
Available data
397
bam
381
bigWig
224
fastq
181
bed narrowPeak
165
tsv
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
14
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
492
Homo sapiens
Biosample type
2240
tissue
539
cell line
492
primary cell
308
in vitro differentiated cells
7
stem cell
Organ
233
epithelium
182
pancreas
35
connective tissue
33
kidney
33
vasculature
28
blood vessel
20
vein
15
brain
13
liver
12
musculature of body
11
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
492
AMP
Genome assembly (visualization)
403
hg19
342
GRCh38
Lab
492
AMP-T2D consortium
324
Klaus Kaestner, Upenn
236
Kyle Gaulton, UCSD
1
ITG
Audit category:
44
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
target.investigated_as!
control
BIOSAMPLE
ASSAY
492 results
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ATAC-seq
ChIP-seq
single cell RNA-seq
total RNA-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic beta cell
7
7
12
10
pancreatic alpha cell
6
7
12
10
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
5
8
12
4
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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