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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
116
total RNA-seq
87
ATAC-seq
86
RNA microarray
69
DNase-seq
64
single cell RNA-seq
37
ChIP-seq
6
snATAC-seq
3
snDrop-seq
2
STARR-seq
2
pCHi-C
1
FAIRE-seq
1
Hi-C
1
RRBS
1
small RNA-seq
Assay category
181
Transcription
163
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
158
February, 2021
130
August, 2021
68
June, 2019
47
September, 2023
23
April, 2019
19
October, 2019
14
May, 2023
8
February, 2023
4
July, 2019
3
December, 2019
2
March, 2020
Available data
179
bam
169
bed narrowPeak
161
bigWig
150
txt
88
bigBed narrowPeak
76
tsv
68
bed bed3+
68
bed broadPeak
68
bigBed broadPeak
64
xls
5
csv
4
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hic
Organism
476
Homo sapiens
Biosample type
457
tissue
primary cell
19
cell line
Organ
777
liver
645
connective tissue
600
pancreas
489
adipose tissue
380
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
118
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
37
embryo
25
spleen
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
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
429
AMP
47
KPMP
Genome assembly (visualization)
243
GRCh38
174
hg19
Lab
285
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
2
Bing Ren, UCSD
Audit category:
99
inconsistent ontology term
7
audit script error
organ_slims!
adrenal gland
biosample_type!
primary cell
BIOSAMPLE
ASSAY
476 results
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total RNA-seq
ATAC-seq
RNA microarray
DNase-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
snDrop-seq
STARR-seq
pCHi-C
FAIRE-seq
Hi-C
RRBS
small RNA-seq
tissue
kidney
49
75
13
64
27
6
1
1
1
bone element
84
bone tissue
58
renal cortex interstitium
11
renal pelvis
10
+ See 24 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
glomerular visceral epithelial cell
1
1
+ See 1 more…
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