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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
55
total RNA-seq
51
ATAC-seq
47
WGBS
22
ChIP-seq
5
Hi-C
5
RRBS
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
55
Transcription
53
DNA accessibility
52
DNA methylation
22
DNA binding
5
3D chromatin structure
Target of assay
19
control
3
histone
3
histone modification
2
broad histone mark
1
narrow histone mark
Date released
80
May, 2022
52
February, 2023
16
September, 2020
12
August, 2017
9
October, 2019
6
February, 2021
5
July, 2019
3
October, 2022
1
August, 2021
1
December, 2017
1
December, 2019
1
June, 2019
1
March, 2020
1
May, 2021
Available data
254
bam
252
fastq
bigWig
129
bed narrowPeak
120
tsv
80
zippedFastqFolder
71
bigBed narrowPeak
21
bed broadPeak
21
bigBed broadPeak
20
bed bed3+
7
tagAlign
5
bed bedMethyl
5
bigBed bedMethyl
5
hic
4
bedpe bed3+
3
cool
2
hdf5
1
tar
Organism
188
Homo sapiens
Biosample type
171
primary cell
15
tissue
2
in vitro differentiated cells
1
cell line
Organ
295
pancreas
215
kidney
189
epithelium
168
liver
167
heart
105
connective tissue
81
vasculature
80
blood vessel
65
adipose tissue
63
brain
56
artery
55
eye
31
limb
27
musculature of body
20
lung
17
bone element
16
skeleton
14
blood
14
bodily fluid
12
nerve
9
spleen
7
vein
6
embryo
5
gonad
5
ovary
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
spinal cord
Project
142
HPAP
47
AMP
Genome assembly (visualization)
22
hg19
Lab
142
Klaus Kaestner, Upenn
47
AMP-T2D consortium
Audit category:
inconsistent ontology term
5
audit script error
assay_title!
CRISPR genome editing followed by DNA sequencing
files.file_type!
bigWig
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
189 results
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total RNA-seq
ATAC-seq
WGBS
ChIP-seq
Hi-C
RRBS
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
primary cell
pancreatic alpha cell
42
22
31
6
1
pancreatic beta cell
11
13
16
6
1
endothelial cell of umbilical vein
5
2
pancreatic acinar cell
4
1
hepatocyte
1
1
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tissue
pigmented layer of retina
2
12
renal glomerulus
1
in vitro differentiated cells
hepatocyte
1
pancreatic PP cell
1
cell line
EndoC_BH1
1
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