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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
67
ATAC-seq
47
WGBS
9
ChIP-seq
8
Hi-C
6
RRBS
3
MeRIP-seq
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
1
pCHi-C
Assay category
Transcription
69
DNA accessibility
53
DNA methylation
9
DNA binding
8
3D chromatin structure
Target of assay
control
9
histone
9
histone modification
5
narrow histone mark
4
broad histone mark
3
nucleotide modification
Date released
80
May, 2022
16
May, 2021
12
October, 2019
8
July, 2019
7
August, 2020
6
February, 2021
4
March, 2020
3
November, 2020
3
October, 2022
3
September, 2020
2
August, 2021
1
December, 2019
1
February, 2023
1
November, 2019
Available data
153
bigWig
bed narrowPeak
144
bam
93
fastq
80
zippedFastqFolder
76
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
9
tsv
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
5
tagAlign
3
cool
2
hdf5
1
tar
Organism
146
Homo sapiens
Biosample type
116
primary cell
25
cell line
6
tissue
Organ
200
pancreas
142
epithelium
93
connective tissue
89
bone element
53
adipose tissue
49
liver
34
kidney
31
brain
21
musculature of body
16
heart
14
vasculature
13
blood vessel
11
lung
9
blood
9
bodily fluid
8
eye
7
vein
6
limb
5
gonad
5
ovary
4
skeleton
3
spleen
2
embryo
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
99
HPAP
48
AMP
Genome assembly (visualization)
18
hg19
10
GRCh38
Lab
99
Klaus Kaestner, Upenn
45
AMP-T2D consortium
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
25
inconsistent ontology term
5
audit script error
assay_slims!
Transcription
files.file_type!
bed narrowPeak
target.investigated_as!
control
BIOSAMPLE
ASSAY
147 results
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ATAC-seq
WGBS
ChIP-seq
Hi-C
RRBS
MeRIP-seq
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
pCHi-C
primary cell
pancreatic alpha cell
29
31
1
pancreatic beta cell
16
16
1
endothelial cell of umbilical vein
5
2
pancreatic acinar cell
4
1
brain microvascular endothelial cell
1
+ See 9 more…
cell line
EndoC_BH1
18
1
3
2
1
tissue
islet of Langerhans
4
ovary
1
renal glomerulus
1
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