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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
69
ChIP-seq
26
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
69
DNA binding
26
DNA accessibility
2
3D chromatin structure
2
Transcription
Target of assay
66
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
16
May, 2021
13
February, 2021
10
October, 2019
6
February, 2023
6
November, 2020
4
March, 2020
4
November, 2018
4
November, 2019
3
January, 2019
2
August, 2021
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
582
bam
bigWig
427
fastq
390
bed narrowPeak
355
bigBed narrowPeak
110
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
Organism
116
Homo sapiens
Biosample type
1001
tissue
475
primary cell
135
in vitro differentiated cells
120
cell line
7
stem cell
Organ
52
liver
36
pancreas
29
epithelium
10
artery
10
blood vessel
10
heart
10
vasculature
6
blood
6
bodily fluid
5
kidney
1
mammary gland
Project
113
AMP
5
T1D
2
community
Genome assembly (visualization)
12
hg19
10
GRCh38
Lab
107
AMP-T2D consortium
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
33
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
files.file_type!
bigWig
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
120 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
48
1
2
1
EndoC_BH1
2
17
6
3
2
1
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
GM12878
6
EndoC-BH1
1
1
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
fibroblast cell line
1
iPSC derived cell line
1
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