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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
68
DNase-seq
64
single cell RNA-seq
53
total RNA-seq
37
ChIP-seq
11
ATAC-seq
6
snATAC-seq
3
snDrop-seq
2
STARR-seq
2
pCHi-C
1
FAIRE-seq
1
Hi-C
1
RNA microarray
1
RRBS
1
small RNA-seq
Assay category
118
Transcription
86
DNA accessibility
37
DNA binding
1
3D chromatin structure
1
DNA methylation
Target of assay
20
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
68
June, 2019
66
August, 2021
47
September, 2023
23
April, 2019
17
October, 2019
14
May, 2023
8
February, 2021
4
July, 2019
2
December, 2019
2
March, 2020
Available data
160
bed narrowPeak
111
bam
101
bigWig
87
bigBed narrowPeak
68
bed bed3+
68
bed broadPeak
68
bigBed broadPeak
xls
62
txt
16
tsv
5
csv
1
bed bedMethyl
1
bigBed bedMethyl
1
hic
Organism
251
Homo sapiens
Biosample type
234
tissue
17
cell line
Organ
946
pancreas
791
liver
684
connective tissue
epithelium
491
adipose tissue
353
heart
290
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
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
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
204
AMP
47
KPMP
Genome assembly (visualization)
111
GRCh38
102
hg19
Lab
124
AMP-T2D consortium
78
Katalin Susztak, Upenn
47
KPMP
2
Bing Ren, UCSD
Audit category:
15
inconsistent ontology term
6
audit script error
files.file_type!
xls
organ_slims!
epithelium
BIOSAMPLE
ASSAY
251 results
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DNase-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
snDrop-seq
STARR-seq
pCHi-C
FAIRE-seq
Hi-C
RNA microarray
RRBS
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
+ See 9 more…
cell line
RCC 7860 HIF1a re-expression
1
4
RCC 7860 vector
1
3
1
RCC 7860 HIF2a over-expression
1
3
HEK293T
2
RCC 7860 VHL
1
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