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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
DNA binding
31
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
1
DNA sequencing
Target of assay
3
control
3
nucleotide modification
Date released
16
May, 2021
10
February, 2021
9
August, 2021
6
February, 2023
6
March, 2020
6
November, 2020
3
October, 2019
2
March, 2023
2
November, 2019
1
December, 2018
1
January, 2018
1
May, 2020
1
November, 2018
1
October, 2022
Available data
13
bam
12
bed narrowPeak
7
bigWig
6
tsv
3
bed bed3+
2
bedpe bed3+
2
bigBed narrowPeak
2
fastq
2
hic
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
61
Homo sapiens
Biosample type
833
tissue
562
primary cell
65
cell line
60
in vitro differentiated cells
7
stem cell
Organ
31
pancreas
30
epithelium
9
liver
8
artery
8
blood vessel
8
heart
8
vasculature
5
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
58
AMP
5
T1D
2
community
Genome assembly (visualization)
19
hg19
14
GRCh38
Lab
45
AMP-T2D consortium
7
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
31
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
assay_title!
total RNA-seq
BIOSAMPLE
ASSAY
65 results
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Clear Filters
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
19
6
1
3
2
2
1
HepG2
1
2
2
2
1
1
smooth muscle cell of the coronary artery
8
EndoC-BH1
1
1
HEK293T
2
Panc1
1
1
GM12878
1
MCF-7
1
MIN6
1
RCC 7860 VHL
1
RCC 7860 vector
1
Synthesized DNA
1
fibroblast cell line
1
glomerular visceral epithelial cell
1
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