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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
151
ChIP-seq
102
single cell RNA-seq
59
total RNA-seq
31
DNase-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
FAIRE-seq
1
pCHi-C
Assay category
182
DNA accessibility
163
Transcription
151
DNA binding
11
DNA methylation
6
3D chromatin structure
Target of assay
109
histone
109
histone modification
57
broad histone mark
52
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
55
June, 2019
55
May, 2021
48
July, 2018
47
August, 2017
43
April, 2018
41
September, 2018
33
October, 2019
31
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
384
bam
378
bigWig
196
fastq
178
bed narrowPeak
168
tsv
108
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
Organism
514
Homo sapiens
Biosample type
2650
tissue
638
cell line
514
primary cell
388
in vitro differentiated cells
8
stem cell
Organ
232
epithelium
150
pancreas
38
connective tissue
36
kidney
36
vasculature
30
blood vessel
21
brain
21
vein
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
514
AMP
324
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
400
hg19
301
GRCh38
Lab
479
AMP-T2D consortium
35
Kyle Gaulton, UCSD
Audit category:
49
inconsistent ontology term
1
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
FAIRE-seq
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
514 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
pCHi-C
primary cell
pancreatic beta cell
7
13
12
10
pancreatic alpha cell
6
13
12
10
CD8-positive, alpha-beta T cell
2
33
2
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
CD4-positive, alpha-beta memory T cell
22
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