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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
155
total RNA-seq
112
ATAC-seq
single cell RNA-seq
53
ChIP-seq
17
pCHi-C
10
RRBS
8
snATAC-seq
7
Hi-C
2
DNase-seq
2
small RNA-seq
1
DNAme array
Assay category
157
Transcription
122
DNA accessibility
53
DNA binding
11
DNA methylation
7
3D chromatin structure
Target of assay
32
control
21
histone
21
histone modification
11
narrow histone mark
10
broad histone mark
Date released
147
May, 2020
79
May, 2021
28
July, 2019
26
August, 2017
26
September, 2018
13
October, 2019
12
February, 2023
8
January, 2021
8
June, 2019
5
December, 2019
4
November, 2020
3
November, 2017
2
February, 2021
2
October, 2018
1
August, 2021
1
March, 2020
1
March, 2023
1
May, 2019
Available data
509
bam
503
bigWig
bed narrowPeak
164
tsv
146
fastq
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
367
Homo sapiens
Biosample type
1613
tissue
367
primary cell
260
in vitro differentiated cells
258
cell line
8
stem cell
Organ
78
epithelium
52
pancreas
18
connective tissue
16
vasculature
14
blood vessel
14
kidney
9
vein
8
blood
8
bodily fluid
8
liver
7
brain
7
heart
5
musculature of body
2
adipose tissue
2
artery
2
eye
1
bone element
1
bone marrow
1
pericardium
Project
246
AMP
120
T1D
1
ITG
Genome assembly (visualization)
237
hg19
165
GRCh38
Lab
241
AMP-T2D consortium
Klaus Kaestner, Upenn
125
Kyle Gaulton, UCSD
1
ITG
Audit category:
22
inconsistent ontology term
1
audit script error
Audit category:
12
missing controlled_by
files.file_type!
bed narrowPeak
assay_title!
single cell RNA-seq
lab.title!
Klaus Kaestner, Upenn
BIOSAMPLE
ASSAY
367 results
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total RNA-seq
ATAC-seq
ChIP-seq
pCHi-C
RRBS
snATAC-seq
Hi-C
DNase-seq
small RNA-seq
DNAme array
primary cell
monocyte
54
2
1
1
1
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
2
1
CD4-positive, alpha-beta memory T cell
22
pancreatic alpha cell
10
6
pancreatic beta cell
10
6
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