Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

RNA-seq03:21

RNA-seq

10.5K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
10.5K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Reversibly-sealable microfluidic platform for multi-molecule gradient delivery to large adherent cell cultures.

Biomedical microdevices·2026
Same author

Cavity acidification limits ferritin iron biomineralization.

Journal of inorganic biochemistry·2026
Same author

A Nomadic Infrastructure with Hierarchical Block Tracking and Surveillance Resolution in Satellite Networks.

Sensors (Basel, Switzerland)·2026
Same author

Synthesis of stable isotope labeled analogs of phytanic acid for separate and combined tracing of alpha-, beta- and omega-oxidation.

bioRxiv : the preprint server for biology·2025
Same author

Endothelial ADAR1 Deficit Induces the NOCT-IRF7 Axis in Pulmonary Hypertension.

Circulation research·2025
Same author

Deficiency of Smooth Muscle Adar1 Exacerbates Vascular Remodeling and Pulmonary Hypertension.

Circulation research·2025

Related Experiment Video

Updated: Sep 26, 2025

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation
09:26

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation

Published on: December 29, 2021

4.4K

Photoactivatable Circular Caged Oligonucleotides for Transcriptome In Vivo Analysis (TIVA).

Linlin Yang1, Dora von Trentini1, HyunBum Kim2

  • 1Department of Chemistry, University of Pennsylvania, 231 South 34 Street, Philadelphia, PA 19104-6323 (USA).

Chemphotochem
|April 18, 2022
PubMed
Summary
This summary is machine-generated.

We developed a simpler method for creating light-activated oligonucleotide probes. These probes offer precise control for studying gene expression and biological targets, with potential for in vivo transcriptome analysis.

Keywords:
caged oligonucleotideslight-activationoligonucleotide cyclization

More Related Videos

Transcriptome Analysis of Single Cells
07:27

Transcriptome Analysis of Single Cells

Published on: April 25, 2011

30.1K
An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics
09:52

An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics

Published on: September 15, 2020

3.2K

Related Experiment Videos

Last Updated: Sep 26, 2025

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation
09:26

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation

Published on: December 29, 2021

4.4K
Transcriptome Analysis of Single Cells
07:27

Transcriptome Analysis of Single Cells

Published on: April 25, 2011

30.1K
An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics
09:52

An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics

Published on: September 15, 2020

3.2K

Area of Science:

  • Oligonucleotide chemistry
  • Molecular biology
  • Bioconjugation

Background:

  • Light-activated oligonucleotide probes offer spatiotemporal control for gene expression studies.
  • Cyclization with photocleavable linkers is an efficient and stable caging strategy.

Purpose of the Study:

  • To introduce an improved protocol for circular oligonucleotide synthesis.
  • To evaluate the stability and binding affinity of photocleavable caging strategies.
  • To identify a suitable probe for transcriptome in vivo analysis (TIVA).

Main Methods:

  • Circular oligonucleotide synthesis with a single HPLC purification step.
  • Denaturing gel electrophoresis to assess pre-photolysis caging stability.
  • Melting temperature measurements to determine post-photolysis target binding affinity.

Main Results:

  • An optimized protocol for circular oligonucleotide synthesis was established.
  • The stability and binding affinity of various oligonucleotide probes were characterized.
  • A 14U 2'-OMe RNA probe demonstrated significant potential for TIVA applications.

Conclusions:

  • The improved synthesis protocol simplifies the preparation of light-activated oligonucleotide probes.
  • Photocleavable caging strategies can be fine-tuned for stability and target binding.
  • The developed 14U 2'-OMe RNA probe is promising for mRNA isolation in transcriptome in vivo analysis.