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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
200
ATAC-seq
single cell RNA-seq
162
ChIP-seq
149
total RNA-seq
48
snATAC-seq
47
WGBS
31
DNase-seq
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
pCHi-C
Assay category
280
DNA accessibility
162
DNA binding
151
Transcription
58
DNA methylation
10
3D chromatin structure
Target of assay
123
histone
123
histone modification
65
narrow histone mark
58
broad histone mark
29
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
101
May, 2022
88
February, 2023
72
September, 2018
59
August, 2017
55
June, 2019
35
February, 2021
34
October, 2019
28
July, 2019
20
May, 2021
19
September, 2020
9
November, 2017
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
Available data
328
bam
298
bigWig
281
fastq
181
bed narrowPeak
109
bigBed narrowPeak
101
zippedFastqFolder
74
tsv
49
bed broadPeak
49
bigBed broadPeak
34
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
tar
Organism
661
Homo sapiens
Biosample type
2527
tissue
661
primary cell
651
cell line
340
in vitro differentiated cells
6
stem cell
Organ
336
epithelium
272
pancreas
37
vasculature
36
kidney
33
connective tissue
31
blood vessel
22
vein
18
brain
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
421
AMP
239
HPAP
1
ITG
Genome assembly (visualization)
312
hg19
256
GRCh38
Lab
421
AMP-T2D consortium
239
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
42
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
pCHi-C
single cell RNA-seq
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
661 results
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ATAC-seq
ChIP-seq
total RNA-seq
snATAC-seq
WGBS
DNase-seq
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
35
13
52
31
1
pancreatic beta cell
23
13
21
16
1
Langerhans cell
48
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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