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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
104
total RNA-seq
29
ATAC-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
3
MeRIP-seq
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
Assay category
DNA binding
106
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
3
control
nucleotide modification
Date released
88
February, 2021
20
May, 2021
10
August, 2021
10
March, 2020
7
October, 2019
6
February, 2023
5
January, 2019
3
November, 2019
3
November, 2020
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
November, 2018
1
October, 2022
Available data
117
bam
111
bigWig
110
tsv
12
bed narrowPeak
7
fastq
3
bed bed3+
2
bigBed narrowPeak
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bedpe bed3+
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
Organism
155
Homo sapiens
Biosample type
1863
tissue
809
primary cell
196
in vitro differentiated cells
159
cell line
7
stem cell
Organ
61
epithelium
61
pancreas
60
artery
60
blood vessel
60
heart
60
vasculature
10
liver
8
embryo
7
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
150
AMP
7
T1D
2
community
Genome assembly (visualization)
122
hg19
118
GRCh38
Lab
149
AMP-T2D consortium
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
63
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
lab.title!
Bing Ren, UCSD
organ_slims!
large intestine
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
159 results
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total RNA-seq
ATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
MeRIP-seq
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
EndoC_BH1
33
19
3
1
3
2
2
1
smooth muscle cell of the coronary artery
52
8
HepG2
5
1
2
1
1
H1-hESC
8
EndoC-BH1
1
1
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