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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
38
total RNA-seq
37
ChIP-seq
31
ATAC-seq
6
MeRIP-seq
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
1
Hi-C
1
RNA microarray
Assay category
38
Transcription
37
DNA binding
31
DNA accessibility
1
3D chromatin structure
Target of assay
27
histone
27
histone modification
14
narrow histone mark
13
broad histone mark
9
control
4
transcription factor
3
RNA binding protein
3
nucleotide modification
1
chromatin remodeller
Date released
26
February, 2021
26
May, 2021
19
December, 2017
16
November, 2019
15
February, 2023
6
November, 2020
5
March, 2020
2
August, 2021
1
December, 2019
1
October, 2019
Available data
74
bam
69
bigWig
44
bed narrowPeak
40
tsv
19
fastq
14
bigBed narrowPeak
3
tagAlign
1
bedpe bed3+
1
hic
Organism
116
Homo sapiens
Biosample type
primary cell
78
cell line
24
in vitro differentiated cells
15
tissue
Organ
772
liver
642
connective tissue
592
pancreas
487
adipose tissue
353
heart
249
kidney
238
brain
194
blood vessel
194
vasculature
158
bone element
135
artery
117
epithelium
86
limb
61
blood
61
bodily fluid
53
eye
50
musculature of body
41
nerve
37
embryo
24
spleen
20
lung
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
113
AMP
4
T1D
Genome assembly (visualization)
83
hg19
68
GRCh38
Lab
111
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
81
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent control read length
assay_slims!
DNA sequencing
biosample_type!
primary cell
assay_title!
DNase-seq
BIOSAMPLE
ASSAY
117 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
Hi-C
RNA microarray
cell line
EndoC_BH1
33
15
19
6
2
1
1
glomerular visceral epithelial cell
1
in vitro differentiated cells
hepatocyte
15
Hepatic endoderm
4
pancreatic PP cell
3
endothelial cell
1
intermediate endothelial cell
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
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