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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
112
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
DNA binding
114
Transcription
28
DNA accessibility
3
3D chromatin structure
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
5
January, 2019
5
October, 2019
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
118
tsv
115
bam
110
bigWig
11
bed narrowPeak
7
fastq
3
bed bed3+
bigBed narrowPeak
1
bed bed3
bed bedMethyl
1
bed broadPeak
1
bedpe bed3+
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
1
vcf
Organism
168
Homo sapiens
Biosample type
1621
tissue
747
primary cell
188
in vitro differentiated cells
172
cell line
7
stem cell
Organ
60
artery
60
blood vessel
60
epithelium
60
heart
60
pancreas
60
vasculature
22
liver
8
embryo
8
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
163
AMP
7
T1D
2
community
Genome assembly (visualization)
118
hg19
113
GRCh38
Lab
143
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:
64
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
files.file_type!
bed bedMethyl
bigBed narrowPeak
month_released!
November, 2019
BIOSAMPLE
ASSAY
172 results
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total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
32
18
6
3
2
2
1
smooth muscle cell of the coronary artery
52
8
HepG2
14
1
2
2
2
1
H1-hESC
8
EndoC-BH1
1
1
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