An open repository of community-contributed protocols sponsored by Nature Research.
Learn more about Protocol Exchange
Method Article
Daniel Benhalevy
Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis and Musculoskeletal and Skin Disease, Bethesda, Maryland, USA.
Corresponding Author
Markus Hafner
Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis and Musculoskeletal and Skin Disease, Bethesda, Maryland, USA.
Corresponding Author
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Proximity-CLIP combines APEX2-mediated proximity biotinylation of proteins with photoactivatable ribonucleoside-enhanced crosslinking (PAR-CLIP) to simultaneously profile the proteome, as well as the transcriptome bound by RNA-binding proteins in any given subcellular compartment. The approach is fractionation-independent and enables to also study localized RNA processing intermediates, as well as the identification of regulatory RNA cis-acting elements occupied by proteins in a cellular compartment-specific manner. The sections focusing on in cellulo Biotinylation and proteomic analysis rely on the 2016 Nature Protocols paper from Alice Ting lab1.
Keywords
RNA, RNA Binding Proteins, RNA-Protein interaction, localization, subcellular, localized regulation, RNA intermediates, Proximity-CLIP, Proximity Biotinylation, RNA populations, Post Transcriptional Gene Regulation (PTGR), Cis regulatory element, RNA recognition element, 4-thiouridine (4SU), PAR-CLIP, UV crosslinking
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
The authors declare no competing financial interests.
Loading...
Version History
CURRENT STATUS: Posted
Version 1
Posted 25 Sep, 2018
No community comments so far
Metrics
Comments: 0
HTML Views: ...
An open repository of community-contributed protocols sponsored by Nature Research.
Learn more about Protocol Exchange
Method Article
Daniel Benhalevy
Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis and Musculoskeletal and Skin Disease, Bethesda, Maryland, USA.
Corresponding Author
Markus Hafner
Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis and Musculoskeletal and Skin Disease, Bethesda, Maryland, USA.
Corresponding Author
Version History
CURRENT STATUS: Posted
Version 1
Posted 25 Sep, 2018
No community comments so far
Metrics
Comments: 0
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Proximity-CLIP combines APEX2-mediated proximity biotinylation of proteins with photoactivatable ribonucleoside-enhanced crosslinking (PAR-CLIP) to simultaneously profile the proteome, as well as the transcriptome bound by RNA-binding proteins in any given subcellular compartment. The approach is fractionation-independent and enables to also study localized RNA processing intermediates, as well as the identification of regulatory RNA cis-acting elements occupied by proteins in a cellular compartment-specific manner. The sections focusing on in cellulo Biotinylation and proteomic analysis rely on the 2016 Nature Protocols paper from Alice Ting lab1.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
The authors declare no competing financial interests.
Loading...