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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
75
ATAC-seq
64
single cell RNA-seq
56
total RNA-seq
42
ChIP-seq
6
snATAC-seq
4
RRBS
3
snDrop-seq
2
DNase-seq
2
RNA microarray
1
FAIRE-seq
1
Hi-C
1
small RNA-seq
Assay category
121
Transcription
84
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
128
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
3
June, 2019
Available data
175
bed narrowPeak
129
bam
119
bigWig
103
bigBed narrowPeak
78
bed bed3+
78
bed broadPeak
bigBed broadPeak
64
xls
62
txt
18
tsv
5
csv
4
bed bedMethyl
4
bigBed bedMethyl
1
hic
Organism
257
Homo sapiens
Biosample type
231
tissue
26
primary cell
cell line
Organ
848
pancreas
675
connective tissue
489
adipose tissue
423
epithelium
385
liver
297
heart
257
kidney
248
brain
159
bone element
153
vasculature
151
blood vessel
86
limb
71
artery
63
musculature of body
57
eye
41
nerve
29
embryo
24
spleen
20
lung
18
vein
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
stomach
1
urinary bladder
0
mammary gland
Project
210
AMP
47
KPMP
Genome assembly (visualization)
115
GRCh38
46
hg19
Lab
142
Katalin Susztak, Upenn
68
AMP-T2D consortium
47
KPMP
Audit category:
7
audit script error
7
inconsistent ontology term
biosample_type!
cell line
files.file_type!
bigBed broadPeak
organ_slims!
stomach
BIOSAMPLE
ASSAY
257 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
snATAC-seq
RRBS
snDrop-seq
DNase-seq
RNA microarray
FAIRE-seq
Hi-C
small RNA-seq
tissue
kidney
75
64
49
27
6
1
1
1
metanephros
1
1
kidney (Cortex-Medulla)
1
kidney (cortex)
1
kidney (medulla)
1
+ See 2 more…
primary cell
epithelial cell of proximal tubule
1
10
1
kidney epithelial cell
1
5
1
kidney glomerular epithelial cell
1
1
kidney tubule cell
1
1
renal cortical epithelial cell
1
1
+ See 1 more…
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