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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
187
single cell RNA-seq
157
ChIP-seq
149
total RNA-seq
48
snATAC-seq
47
WGBS
31
DNase-seq
10
RRBS
4
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
338
Transcription
280
DNA accessibility
157
DNA binding
58
DNA methylation
4
3D chromatin structure
Target of assay
118
histone
118
histone modification
60
narrow histone mark
58
broad histone mark
32
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
102
May, 2020
88
February, 2023
73
September, 2018
59
September, 2020
55
June, 2019
54
August, 2017
48
February, 2021
48
July, 2018
43
April, 2018
33
October, 2019
31
July, 2019
20
May, 2021
9
November, 2017
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
2
October, 2018
1
November, 2018
Available data
424
bam
404
fastq
393
bigWig
176
bed narrowPeak
174
tsv
153
zippedFastqFolder
108
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
838
Homo sapiens
Biosample type
2708
tissue
838
primary cell
629
cell line
326
in vitro differentiated cells
8
stem cell
Organ
397
epithelium
339
pancreas
38
connective tissue
36
kidney
35
vasculature
29
blood vessel
21
brain
20
vein
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
517
AMP
321
HPAP
Genome assembly (visualization)
403
hg19
350
GRCh38
Lab
517
AMP-T2D consortium
321
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
Audit category:
49
inconsistent ontology term
27
audit script error
Audit category:
44
missing controlled_by
Audit category:
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
files.file_type!
hic
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
838 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
snATAC-seq
WGBS
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
35
12
11
52
31
Langerhans cell
85
48
pancreatic beta cell
23
12
11
21
16
exocrine cell
39
pancreatic acinar cell
9
12
8
4
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