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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
68
ChIP-seq
9
ATAC-seq
9
total RNA-seq
4
STARR-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Hi-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
68
DNA binding
11
Transcription
9
DNA accessibility
2
3D chromatin structure
1
DNA sequencing
Target of assay
62
control
5
transcription factor
2
RNA binding protein
1
broad histone mark
1
histone
1
histone modification
1
recombinant protein
Date released
47
November, 2017
19
August, 2021
13
February, 2021
7
October, 2019
6
February, 2023
4
November, 2018
3
January, 2019
2
March, 2020
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
520
bam
bigWig
427
fastq
383
bed narrowPeak
355
bigBed narrowPeak
80
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
102
Homo sapiens
Biosample type
917
tissue
459
primary cell
113
in vitro differentiated cells
106
cell line
6
stem cell
Organ
69
liver
10
artery
10
blood vessel
10
heart
10
vasculature
8
pancreas
6
blood
6
bodily fluid
2
kidney
1
epithelium
1
mammary gland
Project
99
AMP
5
T1D
2
community
Genome assembly (visualization)
11
hg19
9
GRCh38
Lab
80
AMP-T2D consortium
19
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
files.file_type!
bigWig
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
106 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
52
1
9
2
2
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
EndoC_BH1
3
2
1
GM12878
6
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