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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
95
ATAC-seq
79
total RNA-seq
65
single cell RNA-seq
42
ChIP-seq
RRBS
6
snATAC-seq
5
Hi-C
5
pCHi-C
4
STARR-seq
4
WGBS
3
DNase-seq
3
snDrop-seq
2
RNA microarray
1
whole genome sequencing assay
Assay category
144
Transcription
104
DNA accessibility
42
DNA binding
5
3D chromatin structure
4
DNA methylation
1
DNA sequencing
Target of assay
23
histone
23
histone modification
13
broad histone mark
12
transcription factor
10
narrow histone mark
7
control
1
RNA binding protein
Date released
161
August, 2021
47
September, 2023
40
May, 2022
27
August, 2017
14
May, 2023
10
February, 2021
4
March, 2020
3
December, 2019
2
July, 2019
2
October, 2019
1
December, 2018
1
February, 2020
1
May, 2020
1
November, 2017
Available data
bam
753
bigWig
624
bed narrowPeak
464
fastq
462
bigBed narrowPeak
198
tsv
141
bed broadPeak
141
bigBed broadPeak
91
bed bed3+
86
tagAlign
64
xls
62
txt
6
csv
3
hic
3
tar
2
bedpe bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
314
Homo sapiens
Biosample type
272
tissue
39
cell line
3
primary cell
Organ
255
pancreas
206
kidney
201
epithelium
180
heart
108
liver
93
bone element
90
connective tissue
53
eye
50
blood vessel
50
vasculature
49
adipose tissue
41
brain
39
artery
34
musculature of body
20
lung
9
blood
9
bodily fluid
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
267
AMP
47
KPMP
Genome assembly (visualization)
75
GRCh38
39
hg19
Lab
142
Katalin Susztak, Upenn
52
AMP-T2D consortium
47
KPMP
40
Karen Mohlke, UNC
33
Bing Ren, UCSD
Audit category:
7
audit script error
2
inconsistent ontology term
files.file_type!
bam
assay_title!
RRBS
BIOSAMPLE
ASSAY
314 results
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ATAC-seq
total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
Hi-C
pCHi-C
STARR-seq
WGBS
DNase-seq
snDrop-seq
RNA microarray
whole genome sequencing assay
tissue
kidney
75
49
64
6
1
liver
20
20
1
23
1
1
3
right lobe of liver
1
1
1
kidney (Cortex-Medulla)
1
kidney (cortex)
1
+ See 3 more…
cell line
HepG2
9
19
2
2
2
1
HEK293T
2
RCC 7860 VHL
1
RCC 7860 vector
1
primary cell
endothelial cell of hepatic sinusoid
1
kidney glomerular epithelial cell
1
kidney tubule cell
1
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