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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
157
ChIP-seq
155
total RNA-seq
151
ATAC-seq
102
single cell RNA-seq
31
DNase-seq
17
pCHi-C
10
RRBS
8
snATAC-seq
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
259
Transcription
191
DNA accessibility
157
DNA binding
11
DNA methylation
7
3D chromatin structure
Target of assay
237
histone
237
histone modification
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
140
May, 2021
56
September, 2018
48
July, 2018
47
June, 2019
43
April, 2018
43
August, 2017
31
July, 2019
22
October, 2019
12
February, 2023
9
November, 2017
8
January, 2021
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
February, 2021
3
June, 2018
3
May, 2019
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
509
bam
485
bigWig
264
tsv
207
fastq
183
bed narrowPeak
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
642
Homo sapiens
Biosample type
2454
tissue
643
cell line
642
primary cell
338
in vitro differentiated cells
9
stem cell
Organ
223
epithelium
167
pancreas
35
connective tissue
31
kidney
28
vasculature
22
blood vessel
21
brain
13
heart
13
liver
13
vein
10
musculature of body
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
481
AMP
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
507
hg19
430
GRCh38
Lab
466
AMP-T2D consortium
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
inconsistent ontology term
1
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
award.project!
HPAP
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
642 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
RRBS
snATAC-seq
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
41
54
15
1
1
pancreatic beta cell
10
10
7
12
pancreatic alpha cell
10
10
6
12
naive thymus-derived CD4-positive, alpha-beta T cell
1
1
22
1
pancreatic acinar cell
4
4
5
12
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