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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
116
ATAC-seq
97
total RNA-seq
86
single cell RNA-seq
47
WGBS
37
ChIP-seq
29
snATAC-seq
20
pCHi-C
10
RRBS
6
Hi-C
2
DNase-seq
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
DNAme array
1
GRO-seq
Assay category
185
Transcription
147
DNA accessibility
58
DNA methylation
37
DNA binding
6
3D chromatin structure
Target of assay
34
histone
34
histone modification
22
broad histone mark
12
narrow histone mark
3
control
Date released
134
May, 2022
88
February, 2023
59
September, 2020
57
May, 2020
57
May, 2021
18
February, 2021
13
July, 2019
8
January, 2021
7
August, 2020
5
March, 2020
3
March, 2023
2
October, 2019
1
August, 2017
1
January, 2018
1
November, 2018
September, 2018
Available data
544
bigWig
bam
313
fastq
251
bed narrowPeak
248
tsv
153
zippedFastqFolder
100
tagAlign
95
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
40
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
hic
1
bed bed3
1
bedpe bed3+
1
csv
1
tar
Organism
452
Homo sapiens
Biosample type
861
tissue
447
primary cell
101
in vitro differentiated cells
80
cell line
7
stem cell
Organ
160
epithelium
149
pancreas
8
blood
8
bodily fluid
5
kidney
4
brain
4
connective tissue
4
vasculature
3
blood vessel
2
liver
1
bone element
1
bone marrow
1
eye
1
heart
1
musculature of body
1
vein
Project
294
HPAP
133
AMP
24
T1D
2
community
1
ITG
Genome assembly (visualization)
50
hg19
11
GRCh38
1
hg18
Lab
294
Klaus Kaestner, Upenn
98
AMP-T2D consortium
59
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
1
ITG
Audit category:
audit script error
10
inconsistent ontology term
audit.ERROR.category!
audit script error
files.file_type!
bam
month_released!
September, 2018
BIOSAMPLE
ASSAY
454 results
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ATAC-seq
total RNA-seq
single cell RNA-seq
WGBS
ChIP-seq
snATAC-seq
pCHi-C
RRBS
Hi-C
DNase-seq
CRISPR RNA-seq
CRISPRi RNA-seq
DNAme array
GRO-seq
primary cell
Langerhans cell
85
21
pancreatic alpha cell
29
42
31
pancreatic beta cell
16
11
16
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
1
+ See 40 more…
stem cell
SB Ad3.1
1
1
hESC
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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