Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Off-the-shelf proximity labeling

ABSTRACT: Off-the-shelf proximity labeling

PROVIDER: PRJNA716256 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR14029737_1.fastq.gz	Fastqsanger.gz
	SRR14029737_2.fastq.gz	Fastqsanger.gz
	SRR14029738_1.fastq.gz	Fastqsanger.gz
	SRR14029738_2.fastq.gz	Fastqsanger.gz
	SRR14029739_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 16

Similar Datasets

Off-the-shelf proximity labeling

Project description:In this study we developed a new assay to perform proximity biotinylation in cells without the requirement for genetic manipulation or transfection to fuse a biotin ligase to a protein of interest. We show the specificity by targeting H3K9me3 and performing ChIP-seq for the biotin modification. Targeting IgG was used as a control. By doing so, we identified flywch1 as a new protein binding to H3K9me3 regions, which we validated using ChIP-seq (IgG ChIP was used as a control)

2021-07-09 | GSE169317 | GEO

BAP-seq proximity labeling of subcellular compartments

Project description:BAP-seq proximity labeling of subcellular compartments

| PRJNA954517 | ENA

Profiling stress-triggered RNA condensation with photocatalytic proximity labeling

Project description:Profiling stress-triggered RNA condensation with photocatalytic proximity labeling

| PRJNA925537 | ENA

In vivo proximity labeling and sequencing (IPL-seq) for SNRPN70 in 293T-Rex

Project description:This proof-of-principle experiment was designed to demonstrate the feasibility of proximity labeling for RNA–protein interactions

2014-10-24 | GSE55370 | GEO

Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq

Project description:We have developed Halo-seq, an RNA proximity labeling method that allows the quantification of subcellular transcriptomes. We have demonstrated the efficacy of Halo-seq here by using it to quantify chromatin-proximal, nucleolar, and cytoplasmic transcriptomes. In Halo-seq, RNA molecules in close proximity to a spatially restricted protein are specifically marked and biotinylated, facilitating their separation from bulk cellular RNA and their quantification.

2021-04-19 | GSE172281 | GEO

In vivo proximity labeling and sequencing (IPL-seq) for SNRPN70 in 293T-Rex

Project description:This proof-of-principle experiment was designed to demonstrate the feasibility of proximity labeling for RNAM-bM-^@M-^Sprotein interactions IPL-seq on 293T-Rex expressing MSA-SNRPN70 (sample) or NFH-SNRPN70 (control)

2014-10-24 | E-GEOD-55370 | biostudies-arrayexpress

Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq

Project description:Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq

| PRJNA722745 | ENA

‘Off the shelf’ proximity biotinylation for interaction proteomics

Project description:Proximity biotinylation workflows typically require CRISPR-based genetic manipulation of target cells. To overcome this bottleneck, we fused the TurboID proximity biotinylation enzyme to Protein A. Upon target cell permeabilization, the ProtA-Turbo enzyme can be targeted to proteins of interest using an endogenous antibody against the bait protein. Addition of biotin then triggers bait-proximal protein biotinylation. Biotinylated proteins can subsequently be enriched from crude lysates and identified by mass spectrometry. We demonstrate this workflow by targeting Emerin, the histone modification H3K9me3 and the chromatin remodeler BRG1. Amongst the main findings, our experiments revealed Flywch1 as an essential protein that interacts with H3K9me3-marked centromeric heterochromatin. The ProtA-Turbo enzyme represents an ‘off the shelf’ proximity biotinylation enzyme that facilitates proximity biotinylation experiments in primary cells and can be used to understand how proteins cooperate in vivo and how this contributes to cellular homeostasis and disease.

2021-07-12 | PXD025012 | Pride

Extracellular proximity labeling reveals an expanded interactome for the matrisome protein TIMP2

Project description:Extracellular proximity labeling reveals an expanded interactome for the matrisome protein TIMP2

| PRJNA1061234 | ENA

Enzyme-mediated proximity labeling identifies small RNAs in the endoplasmic reticulum lumen

Project description:Enzyme-mediated proximity labeling identifies small RNAs in the endoplasmic reticulum lumen

| PRJNA944259 | ENA