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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
55
total RNA-seq
47
WGBS
8
Hi-C
6
MeRIP-seq
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
69
DNA accessibility
55
Transcription
47
DNA methylation
8
3D chromatin structure
Target of assay
3
control
3
nucleotide modification
Date released
80
May, 2022
40
February, 2023
19
September, 2020
16
May, 2021
7
August, 2020
6
February, 2021
6
November, 2020
3
March, 2020
3
October, 2019
3
October, 2022
2
August, 2021
2
July, 2019
1
December, 2019
1
November, 2019
Available data
bam
296
bigWig
252
fastq
156
tsv
bed narrowPeak
80
zippedFastqFolder
76
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
7
tagAlign
6
bed bedMethyl
bigBed bedMethyl
6
hic
5
bedpe bed3+
3
cool
2
hdf5
1
tar
Organism
188
Homo sapiens
Biosample type
158
primary cell
28
cell line
3
tissue
Organ
249
pancreas
189
epithelium
142
kidney
104
heart
93
bone element
86
connective tissue
74
liver
47
adipose tissue
40
brain
26
eye
23
musculature of body
20
lung
15
blood vessel
15
vasculature
9
blood
9
bodily fluid
8
limb
8
skeleton
5
gonad
5
ovary
4
artery
2
intestine
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
152
HPAP
37
AMP
Genome assembly (visualization)
10
GRCh38
10
hg19
Lab
152
Klaus Kaestner, Upenn
31
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
27
inconsistent ontology term
5
audit script error
audit.WARNING.category!
inconsistent control read length
files.file_type!
bam
bed narrowPeak
bigBed bedMethyl
BIOSAMPLE
ASSAY
189 results
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ATAC-seq
total RNA-seq
WGBS
Hi-C
MeRIP-seq
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
primary cell
pancreatic alpha cell
29
42
31
1
pancreatic beta cell
16
11
16
1
pancreatic acinar cell
4
1
endothelial cell of umbilical vein
2
brain microvascular endothelial cell
1
+ See 3 more…
cell line
EndoC_BH1
18
1
6
2
1
tissue
pigmented layer of retina
2
renal glomerulus
1
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