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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
71
ChIP-seq
9
ATAC-seq
9
total RNA-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
71
DNA binding
11
Transcription
9
DNA accessibility
2
3D chromatin structure
1
DNA sequencing
Target of assay
65
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
20
August, 2021
13
February, 2021
10
October, 2019
5
February, 2023
4
March, 2020
4
November, 2018
3
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
531
bam
bigWig
427
fastq
389
bed narrowPeak
354
bigBed narrowPeak
84
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
108
Homo sapiens
Biosample type
990
tissue
300
primary cell
131
in vitro differentiated cells
111
cell line
7
stem cell
Organ
69
liver
36
pancreas
epithelium
10
artery
10
blood vessel
10
heart
10
vasculature
7
kidney
6
blood
6
bodily fluid
1
mammary gland
Project
104
AMP
5
T1D
2
community
Genome assembly (visualization)
11
hg19
9
GRCh38
Lab
84
AMP-T2D consortium
20
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
6
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
files.file_type!
bigWig
organ_slims!
epithelium
BIOSAMPLE
ASSAY
111 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
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
GM12878
6
EndoC_BH1
3
2
EndoC-BH1
1
1
HEK293T
2
RCC 7860 vector
1
1
MCF-7
1
MIN6
1
RCC 7860 HIF1a re-expression
1
RCC 7860 HIF2a over-expression
1
RCC 7860 VHL
1
Synthesized DNA
1
fibroblast cell line
1
iPSC derived cell line
1
See all biosamples
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