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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
61
total RNA-seq
21
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
63
Transcription
23
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
3
control
3
nucleotide modification
Date released
28
February, 2021
26
August, 2021
20
May, 2021
10
March, 2020
7
October, 2019
6
February, 2023
6
November, 2020
5
January, 2019
3
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
November, 2018
1
October, 2022
Available data
67
tsv
59
bigWig
57
bam
7
fastq
4
bed narrowPeak
3
bed bed3+
2
bedpe bed3+
2
bigBed narrowPeak
2
hic
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
114
Homo sapiens
Biosample type
1809
tissue
798
primary cell
196
in vitro differentiated cells
118
cell line
7
stem cell
Organ
64
epithelium
64
pancreas
60
artery
blood vessel
60
heart
60
vasculature
23
liver
9
kidney
8
embryo
1
blood
1
bodily fluid
1
mammary gland
Project
109
AMP
7
T1D
2
community
Genome assembly (visualization)
63
hg19
58
GRCh38
Lab
89
AMP-T2D consortium
16
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
67
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
organ_slims!
blood vessel
skin of body
BIOSAMPLE
ASSAY
118 results
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total RNA-seq
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
33
19
6
1
3
2
2
1
HepG2
14
1
2
2
2
1
1
H1-hESC
8
EndoC-BH1
1
1
HEK293T
2
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