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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
73
ChIP-seq
10
ATAC-seq
9
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
Hi-C
1
MPRA
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
73
DNA binding
10
DNA accessibility
10
Transcription
1
3D chromatin structure
1
DNA sequencing
Target of assay
70
control
5
transcription factor
3
nucleotide modification
2
RNA binding protein
1
broad histone mark
1
histone
1
histone modification
1
recombinant protein
Date released
47
November, 2017
21
August, 2021
May, 2021
13
February, 2021
10
October, 2019
6
February, 2023
6
November, 2020
4
March, 2020
4
November, 2018
3
January, 2019
3
November, 2019
1
December, 2018
1
March, 2023
1
May, 2020
1
October, 2022
Available data
577
bam
bigWig
427
fastq
403
bed narrowPeak
355
bigBed narrowPeak
115
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
118
Homo sapiens
Biosample type
992
tissue
434
primary cell
121
cell line
88
in vitro differentiated cells
7
stem cell
Organ
68
liver
19
pancreas
12
epithelium
10
artery
10
blood vessel
10
heart
10
vasculature
7
kidney
6
blood
6
bodily fluid
1
mammary gland
Project
115
AMP
5
T1D
1
community
Genome assembly (visualization)
11
hg19
10
GRCh38
Lab
90
AMP-T2D consortium
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
1
Anna Gloyn, Oxford
Audit category:
17
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
assay_title!
shRNA RNA-seq
files.file_type!
bigWig
hic
month_released!
May, 2021
BIOSAMPLE
ASSAY
121 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
Hi-C
MPRA
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
52
1
9
2
2
1
1
EndoC_BH1
2
1
6
3
2
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
GM12878
6
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