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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
69
DNase-seq
64
ATAC-seq
61
single cell RNA-seq
54
total RNA-seq
17
ChIP-seq
6
snATAC-seq
3
snDrop-seq
2
RNA microarray
2
STARR-seq
2
pCHi-C
1
FAIRE-seq
1
Hi-C
1
RRBS
1
small RNA-seq
Assay category
140
DNA accessibility
116
Transcription
17
DNA binding
1
3D chromatin structure
1
DNA methylation
Target of assay
histone
20
histone modification
10
broad histone mark
10
narrow histone mark
9
control
8
transcription factor
7
recombinant protein
1
RNA binding protein
Date released
130
August, 2021
68
June, 2019
47
September, 2023
17
October, 2019
May, 2023
8
February, 2021
5
April, 2019
4
July, 2019
3
December, 2019
2
March, 2020
Available data
141
bed narrowPeak
93
bam
83
bigWig
70
bigBed narrowPeak
68
bed bed3+
68
bed broadPeak
68
bigBed broadPeak
64
xls
62
txt
18
tsv
5
csv
1
bed bedMethyl
1
bigBed bedMethyl
1
hic
Organism
284
Homo sapiens
Biosample type
265
tissue
primary cell
19
cell line
Organ
678
liver
573
connective tissue
502
pancreas
455
adipose tissue
285
heart
284
kidney
158
bone element
145
blood vessel
145
vasculature
119
artery
91
epithelium
77
brain
73
limb
60
blood
60
bodily fluid
57
musculature of body
54
eye
25
embryo
20
lung
19
nerve
18
spleen
18
ureter
16
skeleton
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
237
AMP
47
KPMP
Genome assembly (visualization)
146
GRCh38
84
hg19
Lab
128
Katalin Susztak, Upenn
107
AMP-T2D consortium
47
KPMP
2
Bing Ren, UCSD
Audit category:
15
inconsistent ontology term
7
audit script error
biosample_type!
primary cell
month_released!
May, 2023
October, 2017
target.investigated_as!
histone
BIOSAMPLE
ASSAY
284 results
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DNase-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
snDrop-seq
RNA microarray
STARR-seq
pCHi-C
FAIRE-seq
Hi-C
RRBS
small RNA-seq
tissue
kidney
13
64
61
49
7
6
1
1
1
renal cortex interstitium
11
renal pelvis
10
right kidney
10
left kidney
9
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cell line
RCC 7860 HIF1a re-expression
1
4
RCC 7860 vector
1
3
1
RCC 7860 HIF2a over-expression
1
3
HEK293T
2
glomerular visceral epithelial cell
1
1
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