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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
total RNA-seq
193
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
47
WGBS
43
ChIP-seq
31
DNase-seq
21
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
DNAme array
1
FAIRE-seq
1
GRO-seq
Assay category
438
Transcription
281
DNA accessibility
58
DNA methylation
43
DNA binding
10
3D chromatin structure
Target of assay
239
histone
histone modification
123
broad histone mark
116
narrow histone mark
36
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
134
May, 2022
88
February, 2023
88
May, 2021
59
September, 2020
48
February, 2021
48
July, 2018
43
April, 2018
41
September, 2018
36
June, 2019
31
July, 2019
21
August, 2017
13
October, 2019
8
January, 2021
August, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
March, 2020
5
September, 2017
3
August, 2018
3
June, 2018
3
March, 2023
3
October, 2022
2
May, 2019
2
October, 2018
1
August, 2021
1
December, 2017
1
January, 2018
1
November, 2018
Available data
407
bam
377
bigWig
331
fastq
274
tsv
153
zippedFastqFolder
79
bed narrowPeak
62
bigBed narrowPeak
35
bed bed3+
33
bed broadPeak
33
bigBed broadPeak
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
2
tagAlign
1
bed bed3
1
tar
Organism
850
Homo sapiens
Biosample type
2149
tissue
844
primary cell
624
cell line
282
in vitro differentiated cells
8
stem cell
Organ
333
epithelium
281
pancreas
32
connective tissue
26
kidney
20
vasculature
18
brain
15
blood vessel
11
heart
11
liver
8
blood
8
bodily fluid
7
vein
6
musculature of body
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
412
AMP
317
HPAP
120
T1D
2
community
1
ITG
Genome assembly (visualization)
399
hg19
332
GRCh38
1
hg18
Lab
407
AMP-T2D consortium
317
Klaus Kaestner, Upenn
125
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
1
ITG
Audit category:
38
inconsistent ontology term
31
audit script error
month_released!
August, 2020
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
852 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
ChIP-seq
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
CRISPR RNA-seq
CRISPRi RNA-seq
DNAme array
FAIRE-seq
GRO-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
52
30
12
31
6
1
pancreatic beta cell
21
21
12
16
6
1
monocyte
54
15
1
1
exocrine cell
39
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stem cell
SB Ad3.1
1
1
hESC
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
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