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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
ATAC-seq
9
total RNA-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
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
DNA binding
11
Transcription
4
3D chromatin structure
1
DNA sequencing
Target of assay
3
control
3
nucleotide modification
Date released
18
August, 2021
6
February, 2023
6
November, 2020
4
March, 2020
2
March, 2023
1
December, 2018
1
February, 2021
1
May, 2020
1
November, 2019
1
October, 2019
1
October, 2022
Available data
118
tsv
108
bigWig
bam
7
fastq
3
bed bed3+
2
bed narrowPeak
2
bedpe bed3+
2
bigBed narrowPeak
2
hic
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
38
Homo sapiens
Biosample type
488
tissue
326
primary cell
42
cell line
26
in vitro differentiated cells
7
stem cell
Organ
16
liver
11
pancreas
10
epithelium
4
kidney
1
mammary gland
Project
35
AMP
5
T1D
2
community
Genome assembly (visualization)
4
hg19
1
GRCh38
Lab
16
Bing Ren, UCSD
13
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
12
inconsistent ontology term
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
assay_title!
ATAC-seq
files.file_type!
bam
bedpe
BIOSAMPLE
ASSAY
42 results
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Clear Filters
total RNA-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
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
9
2
2
2
1
EndoC_BH1
6
1
3
2
2
1
EndoC-BH1
1
1
HEK293T
2
MCF-7
1
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