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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
65
ATAC-seq
55
total RNA-seq
47
WGBS
25
ChIP-seq
8
DNase-seq
3
MeRIP-seq
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
73
DNA accessibility
55
Transcription
47
DNA methylation
25
DNA binding
Target of assay
25
control
3
histone
3
histone modification
nucleotide modification
2
broad histone mark
1
narrow histone mark
Date released
80
May, 2022
40
February, 2023
19
September, 2020
17
May, 2021
12
August, 2017
8
June, 2019
8
October, 2019
7
August, 2020
6
February, 2021
3
August, 2021
December, 2017
3
November, 2020
2
November, 2019
1
December, 2019
1
May, 2019
Available data
81
fastq
80
zippedFastqFolder
31
bam
16
bigWig
9
tsv
6
bed bed3+
6
bed broadPeak
6
bed narrowPeak
6
bigBed broadPeak
6
bigBed narrowPeak
2
tagAlign
Organism
206
Homo sapiens
Biosample type
179
primary cell
24
cell line
3
tissue
1
in vitro differentiated cells
Organ
283
pancreas
225
kidney
207
epithelium
205
heart
153
liver
122
brain
95
connective tissue
89
bone element
71
blood vessel
71
vasculature
65
adipose tissue
48
artery
27
eye
26
limb
23
musculature of body
20
lung
14
blood
14
bodily fluid
12
nerve
11
spleen
5
gonad
5
ovary
5
vein
4
embryo
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
149
HPAP
58
AMP
Genome assembly (visualization)
hg19
278
GRCh38
Lab
149
Klaus Kaestner, Upenn
55
AMP-T2D consortium
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
25
inconsistent ontology term
1
audit script error
assembly!
hg19
target.investigated_as!
nucleotide modification
month_released!
December, 2017
BIOSAMPLE
ASSAY
207 results
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ATAC-seq
total RNA-seq
WGBS
ChIP-seq
DNase-seq
MeRIP-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
primary cell
pancreatic alpha cell
29
42
31
6
pancreatic beta cell
16
11
16
6
endothelial cell of umbilical vein
5
pancreatic acinar cell
4
kidney tubule cell
3
+ See 7 more…
cell line
EndoC_BH1
16
2
3
2
1
tissue
pigmented layer of retina
2
renal glomerulus
1
in vitro differentiated cells
pancreatic PP cell
1
See all biosamples
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