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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
total RNA-seq
200
ATAC-seq
187
single cell RNA-seq
157
ChIP-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
RRBS
4
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
436
Transcription
288
DNA accessibility
157
DNA binding
58
DNA methylation
4
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
134
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
48
February, 2021
48
July, 2018
47
June, 2019
43
April, 2018
43
August, 2017
31
July, 2019
21
October, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
2
October, 2018
1
November, 2018
Available data
509
bam
495
bigWig
376
fastq
270
tsv
183
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
960
Homo sapiens
Biosample type
2443
tissue
960
primary cell
641
cell line
334
in vitro differentiated cells
9
stem cell
Organ
370
epithelium
316
pancreas
35
connective tissue
31
kidney
26
vasculature
21
brain
20
blood vessel
13
heart
13
liver
11
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
479
AMP
321
HPAP
160
T1D
Genome assembly (visualization)
505
hg19
439
GRCh38
Lab
464
AMP-T2D consortium
321
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
Audit category:
46
inconsistent ontology term
27
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
target.investigated_as!
broad histone mark
files.file_type!
hic
BIOSAMPLE
ASSAY
960 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
10
31
Langerhans cell
85
48
monocyte
54
15
41
1
1
pancreatic beta cell
21
23
12
10
16
exocrine cell
39
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