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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
28
ATAC-seq
6
MeRIP-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
DNA binding
29
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
7
August, 2021
6
February, 2023
6
November, 2020
2
March, 2023
2
November, 2019
2
October, 2019
1
December, 2018
1
January, 2018
1
March, 2020
1
November, 2018
1
October, 2022
Available data
tsv
112
bam
106
bigWig
11
bed narrowPeak
7
fastq
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
bigBed narrowPeak
1
hdf5
1
txt
1
vcf
Organism
52
Homo sapiens
Biosample type
534
tissue
524
primary cell
65
in vitro differentiated cells
56
cell line
3
stem cell
Organ
30
pancreas
29
epithelium
8
artery
8
blood vessel
8
heart
8
liver
8
vasculature
kidney
1
blood
1
bodily fluid
Project
49
AMP
5
T1D
2
community
Genome assembly (visualization)
17
hg19
13
GRCh38
Lab
38
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
28
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
files.file_type!
tsv
organ_slims!
kidney
assay_slims!
DNA binding
BIOSAMPLE
ASSAY
56 results
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Clear Filters
ATAC-seq
MeRIP-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
18
6
1
3
2
2
1
HepG2
1
2
2
1
1
1
smooth muscle cell of the coronary artery
8
EndoC-BH1
1
1
Panc1
1
1
GM12878
1
MIN6
1
Synthesized DNA
1
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