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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
80
DNase-seq
64
single cell RNA-seq
56
total RNA-seq
42
ChIP-seq
11
ATAC-seq
6
snATAC-seq
4
RRBS
3
snDrop-seq
2
RNA microarray
1
FAIRE-seq
1
Hi-C
1
small RNA-seq
Assay category
121
Transcription
98
DNA accessibility
42
DNA binding
4
DNA methylation
1
3D chromatin structure
Target of assay
30
histone
30
histone modification
15
broad histone mark
15
narrow histone mark
9
control
3
RNA binding protein
3
transcription factor
Date released
81
June, 2019
64
August, 2021
47
September, 2023
23
April, 2019
15
October, 2019
14
May, 2023
11
July, 2019
8
February, 2021
5
May, 2019
3
December, 2019
Available data
175
bed narrowPeak
129
bam
119
bigWig
103
bigBed narrowPeak
78
bed bed3+
78
bed broadPeak
78
bigBed broadPeak
xls
62
txt
18
tsv
5
csv
4
bed bedMethyl
4
bigBed bedMethyl
1
hic
Organism
271
Homo sapiens
Biosample type
235
tissue
36
primary cell
cell line
Organ
846
pancreas
684
connective tissue
491
adipose tissue
438
epithelium
390
liver
327
heart
286
brain
271
kidney
170
vasculature
164
blood vessel
159
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
29
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
224
AMP
47
KPMP
Genome assembly (visualization)
129
GRCh38
117
hg19
Lab
146
AMP-T2D consortium
78
Katalin Susztak, Upenn
47
KPMP
Audit category:
8
inconsistent ontology term
7
audit script error
biosample_type!
cell line
files.file_type!
xls
lab.title!
Maike Sander, UCSD
month_released!
August, 2020
BIOSAMPLE
ASSAY
271 results
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DNase-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
RRBS
snDrop-seq
RNA microarray
FAIRE-seq
Hi-C
small RNA-seq
tissue
kidney
13
64
49
27
11
6
1
1
1
renal cortex interstitium
11
renal pelvis
10
right kidney
10
left kidney
9
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primary cell
epithelial cell of proximal tubule
1
1
10
1
kidney epithelial cell
1
1
5
1
kidney tubule cell
3
1
kidney glomerular epithelial cell
2
1
renal cortical epithelial cell
1
1
1
+ See 3 more…
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