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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
ChIP-seq
113
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
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
115
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
3
control
3
nucleotide modification
Date released
88
February, 2021
26
August, 2021
20
May, 2021
10
March, 2020
6
February, 2023
6
November, 2020
6
October, 2019
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
119
tsv
117
bam
111
bigWig
12
bed narrowPeak
7
fastq
3
bed bed3+
2
bedpe bed3+
2
bigBed narrowPeak
2
hic
1
bed bed3
1
bed bedMethyl
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
173
Homo sapiens
Biosample type
1692
tissue
781
primary cell
195
in vitro differentiated cells
177
cell line
6
stem cell
Organ
64
epithelium
63
pancreas
60
artery
60
blood vessel
60
heart
60
vasculature
23
liver
9
kidney
8
embryo
1
blood
1
bodily fluid
1
mammary gland
Project
168
AMP
7
T1D
2
community
Genome assembly (visualization)
122
hg19
117
GRCh38
Lab
148
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_title!
CRISPRi RNA-seq
ChIP-seq
files.file_type!
bed broadPeak
target.investigated_as!
recombinant protein
BIOSAMPLE
ASSAY
177 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
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
52
8
HepG2
14
1
2
2
2
1
1
H1-hESC
8
EndoC-BH1
1
1
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