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Updated: Jun 23, 2026

Protocol for the Solid-phase Synthesis of Oligomers of RNA Containing a 2'-O-thiophenylmethyl Modification and Characterization via Circular Dichroism

Protocol for the Solid-phase Synthesis of Oligomers of RNA Containing a 2'-O-thiophenylmethyl Modification and Characterization via Circular Dichroism

Published on: July 28, 2017

The method developer's guide to oligonucleotide design.

Leonie Wenson¹, Mattias Leino¹, Malin Jarvius¹

¹Department of Pharmaceutical Biosciences, Uppsala University, Biomedical center, Uppsala, Sweden.

Expert Review of Proteomics

|February 16, 2024

Summary

This summary is machine-generated.

This paper details the design and function of novel oligonucleotide-based methods, including in situ PLA, proxHCR, and MolBoolean, for visualizing protein-protein interactions. It aims to guide researchers in selecting appropriate techniques and inspire future method development.

Keywords:

Method development Protein-protein interactions antibodies microscopy oligonucleotide design proximity ligation

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Area of Science:

Biochemistry
Molecular Biology
Biotechnology

Background:

Method development is crucial for scientific advancement but often lacks detailed descriptions.
Oligonucleotide-based methods offer powerful tools for visualizing molecular interactions.

Purpose of the Study:

To elucidate the design rationale behind oligonucleotide systems for protein-protein interaction visualization.
To provide a comprehensive guide on the working principles and result interpretation of novel methods.

Main Methods:

Development of in situ PLA (proximity ligation assay)
Development of proxHCR (proximity hybridization chain reaction)
Development of MolBoolean logic gates

Main Results:

Detailed description of the oligonucleotide systems underpinning the developed methods.
Explanation of the mechanisms by which these methods visualize protein-protein interactions.
Guidance on experimental design and data interpretation for researchers.

Conclusions:

Understanding the methodology is key to selecting appropriate techniques for specific research questions.
This work aims to inspire young researchers to engage in the field of scientific method development.