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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
57
ATAC-seq
53
total RNA-seq
47
WGBS
32
ChIP-seq
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
Assay category
60
DNA accessibility
53
DNA methylation
53
Transcription
32
DNA binding
8
3D chromatin structure
Target of assay
30
control
5
histone
5
histone modification
4
broad histone mark
3
nucleotide modification
1
narrow histone mark
Date released
80
May, 2022
38
February, 2023
17
May, 2021
16
September, 2020
12
August, 2017
12
October, 2019
8
July, 2019
6
February, 2021
6
November, 2020
3
August, 2021
3
December, 2017
3
March, 2020
3
November, 2019
3
October, 2022
2
June, 2019
2
November, 2017
1
May, 2019
Available data
80
zippedFastqFolder
76
fastq
33
bam
9
bigWig
7
tsv
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
3
cool
2
bed bed3+
2
bed broadPeak
2
bigBed broadPeak
2
hdf5
2
tagAlign
1
bed narrowPeak
1
bigBed narrowPeak
1
tar
Organism
214
Homo sapiens
Biosample type
181
primary cell
30
cell line
tissue
4
in vitro differentiated cells
Organ
215
epithelium
192
pancreas
137
liver
51
connective tissue
17
vasculature
15
blood
15
blood vessel
15
bodily fluid
15
kidney
10
vein
8
embryo
7
brain
5
heart
3
musculature of body
2
artery
2
eye
1
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
Project
142
HPAP
73
AMP
Genome assembly (visualization)
238
hg19
GRCh38
Lab
142
Klaus Kaestner, Upenn
67
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
34
inconsistent ontology term
4
audit script error
biosample_type!
tissue
month_released!
September, 2018
assembly!
GRCh38
BIOSAMPLE
ASSAY
215 results
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ATAC-seq
total RNA-seq
WGBS
ChIP-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
primary cell
pancreatic alpha cell
22
42
31
6
1
pancreatic beta cell
13
11
16
6
1
endothelial cell of umbilical vein
7
2
1
pancreatic acinar cell
4
1
epithelial cell of proximal tubule
2
1
+ See 9 more…
cell line
EndoC_BH1
18
2
1
6
2
1
in vitro differentiated cells
Hepatic endoderm
2
hepatocyte
1
pancreatic PP cell
1
See all biosamples
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