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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
188
ATAC-seq
180
single cell RNA-seq
170
ChIP-seq
151
total RNA-seq
48
snATAC-seq
47
WGBS
28
DNase-seq
8
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
333
Transcription
265
DNA accessibility
170
DNA binding
56
DNA methylation
3D chromatin structure
Target of assay
136
histone
136
histone modification
70
broad histone mark
66
narrow histone mark
30
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
98
May, 2020
82
February, 2023
73
September, 2018
59
August, 2017
59
September, 2020
55
May, 2021
48
February, 2021
43
April, 2018
42
July, 2018
31
October, 2019
30
June, 2019
25
July, 2019
9
November, 2017
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
4
August, 2021
3
August, 2018
2
June, 2018
2
May, 2019
2
October, 2018
1
November, 2018
Available data
402
fastq
395
bigWig
388
bam
186
bed narrowPeak
161
tsv
153
zippedFastqFolder
86
bigBed narrowPeak
46
bed broadPeak
46
bigBed broadPeak
30
bed bed3+
16
tagAlign
8
bed bedMethyl
8
bigBed bedMethyl
2
csv
1
bed bed3
1
tar
Organism
825
Homo sapiens
Biosample type
2639
tissue
825
primary cell
562
cell line
279
in vitro differentiated cells
9
stem cell
Organ
389
epithelium
338
pancreas
32
vasculature
28
kidney
27
blood vessel
24
connective tissue
20
vein
18
brain
12
liver
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
504
AMP
321
HPAP
T1D
Genome assembly (visualization)
401
hg19
323
GRCh38
Lab
469
AMP-T2D consortium
321
Klaus Kaestner, Upenn
35
Kyle Gaulton, UCSD
Audit category:
inconsistent ontology term
27
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
assay_slims!
3D chromatin structure
award.project!
T1D
BIOSAMPLE
ASSAY
825 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
snATAC-seq
WGBS
DNase-seq
RRBS
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
35
12
13
52
31
Langerhans cell
85
48
pancreatic beta cell
23
12
13
21
16
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
2
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