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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
163
ChIP-seq
137
ATAC-seq
53
single cell RNA-seq
33
total RNA-seq
31
DNase-seq
6
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
169
DNA accessibility
163
DNA binding
88
Transcription
DNA methylation
6
3D chromatin structure
Target of assay
121
histone
121
histone modification
61
broad histone mark
60
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
September, 2018
58
August, 2017
55
June, 2019
54
May, 2021
July, 2018
43
April, 2018
34
October, 2019
22
July, 2019
12
February, 2023
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
2
October, 2018
1
March, 2020
1
November, 2018
Available data
309
bam
303
bigWig
165
bed narrowPeak
118
fastq
95
bigBed narrowPeak
94
tsv
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
16
tagAlign
4
hdf5
2
hic
1
bed bed3
1
bedpe bed3+
1
csv
1
tar
Organism
427
Homo sapiens
Biosample type
2522
tissue
650
cell line
427
primary cell
394
in vitro differentiated cells
8
stem cell
Organ
154
epithelium
85
pancreas
36
vasculature
35
connective tissue
33
kidney
31
blood vessel
22
vein
20
brain
13
liver
13
musculature of body
12
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
427
AMP
277
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
315
hg19
225
GRCh38
Lab
392
AMP-T2D consortium
35
Kyle Gaulton, UCSD
Audit category:
41
inconsistent ontology term
1
audit script error
Audit category:
12
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_slims!
DNA methylation
month_released!
July, 2018
September, 2018
BIOSAMPLE
ASSAY
427 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
DNase-seq
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
CD8-positive, alpha-beta T cell
33
2
2
naive thymus-derived CD4-positive, alpha-beta T cell
2
22
1
CD4-positive, alpha-beta memory T cell
22
endothelial cell of umbilical vein
17
2
2
1
pancreatic alpha cell
13
3
5
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