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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
90
ChIP-seq
79
total RNA-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
ATAC-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
90
DNA binding
81
Transcription
2
3D chromatin structure
1
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
78
control
9
transcription factor
3
histone
3
histone modification
2
RNA binding protein
2
broad histone mark
1
narrow histone mark
1
recombinant protein
Date released
66
November, 2017
55
February, 2021
28
August, 2021
13
October, 2019
8
January, 2019
6
March, 2020
5
February, 2023
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
531
bam
472
bigWig
427
fastq
bed narrowPeak
354
bigBed narrowPeak
84
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
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
189
Homo sapiens
Biosample type
1773
tissue
488
primary cell
245
in vitro differentiated cells
192
cell line
7
stem cell
Organ
92
liver
70
pancreas
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
11
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
185
AMP
5
T1D
2
community
Genome assembly (visualization)
91
hg19
71
GRCh38
Lab
165
AMP-T2D consortium
20
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
9
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
files.file_type!
bed bed3+
bed narrowPeak
organ_slims!
epithelium
BIOSAMPLE
ASSAY
192 results
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Clear Filters
ChIP-seq
total RNA-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
ATAC-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
71
14
2
1
2
1
1
smooth muscle cell of the coronary artery
2
52
H1-hESC
8
GM12878
6
1
Panc1
7
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