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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
ATAC-seq
9
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
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
73
DNA binding
11
Transcription
3
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
22
August, 2021
10
October, 2019
6
February, 2023
6
November, 2020
4
February, 2021
4
March, 2020
4
November, 2018
3
January, 2019
3
November, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
572
bam
bigWig
427
fastq
394
bed narrowPeak
355
bigBed narrowPeak
118
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
110
Homo sapiens
Biosample type
777
tissue
343
primary cell
114
cell line
105
in vitro differentiated cells
7
stem cell
Organ
68
liver
19
pancreas
12
epithelium
7
kidney
6
blood
6
bodily fluid
2
artery
2
blood vessel
2
heart
2
vasculature
1
mammary gland
Project
107
AMP
5
T1D
2
community
Genome assembly (visualization)
3
hg19
Lab
81
AMP-T2D consortium
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
17
inconsistent ontology term
Audit category:
1
missing controlled_by
assay_title!
RRBS
ATAC-seq
files.file_type!
bigWig
BIOSAMPLE
ASSAY
114 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
52
9
2
2
2
1
EndoC_BH1
2
6
3
1
2
2
1
Panc1
7
GM12878
6
EndoC-BH1
1
1
HEK293T
2
RCC 7860 vector
1
1
smooth muscle cell of the coronary artery
2
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
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