Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

RNA-seq

RNA-seq

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 microarray-based...

Next-generation Sequencing

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.

Maxam-Gilbert Sequencing

Maxam-Gilbert Sequencing

In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
Challenges of the Maxam-Gilbert Method
The...

You might also read

Related Articles

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

Sort by

Same author

Predictors of suicidality among Polish university students during COVID-19 pandemic.

Current opinion in psychiatry·2023

Same author

Unique Device Identification-Based Linkage of Hierarchically Accessible Data Domains in Prospective Surgical Hospital Data Ecosystems: User-Centered Design Approach.

JMIR medical informatics·2023

Same author

A Holistic Approach for the Identification of Success Factors in Secondary Cleft Osteoplasty.

Journal of personalized medicine·2022

Same author

The use of modern telemedicine technologies in an innovative optimal cardiac rehabilitation program for patients after myocardial revascularization: Concept and design of RESTORE, a randomized clinical trial.

Cardiology journal·2018

Same author

Study protocol for a randomized controlled pilot-trial on the semiocclusive treatment of fingertip amputation injuries using a novel finger cap.

Medicine·2017

Same author

New nano-hydroxyapatite in bone defect regeneration: A histological study in rats.

Annals of anatomy = Anatomischer Anzeiger : official organ of the Anatomische Gesellschaft·2017

Search research articles

Related Experiment Video

Updated: May 15, 2026

A Universal Protocol for Large-scale gRNA Library Production from any DNA Source

A Universal Protocol for Large-scale gRNA Library Production from any DNA Source

Published on: December 6, 2017

SiRNA sequence model: redesign algorithm based on available genome-wide libraries.

¹a LMSC, ETH Zurich , Schafmattstr, 18 CH-8093 , Zurich , Switzerland .

Journal of Biomolecular Structure & Dynamics

|December 21, 2012

Summary

This study analyzes siRNA design algorithms, finding that current methods miss key parameters for effective gene silencing. We propose an improved siRNA sequence pattern to enhance both potency and specificity in RNA interference applications.

More Related Videos

Novel Sequence Discovery by Subtractive Genomics

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries

Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries

Published on: December 1, 2023

Related Experiment Videos

Last Updated: May 15, 2026

A Universal Protocol for Large-scale gRNA Library Production from any DNA Source

A Universal Protocol for Large-scale gRNA Library Production from any DNA Source

Published on: December 6, 2017

Novel Sequence Discovery by Subtractive Genomics

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries

Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries

Published on: December 1, 2023

Area of Science:

Molecular Biology
Genomics
Bioinformatics

Background:

RNA interference (RNAi) enables rapid gene product depletion studies.
Small interfering RNAs (siRNAs) are crucial tools for RNAi, but their effectiveness varies.
Existing siRNA design algorithms aim to maximize knockdown efficiency and specificity.

Purpose of the Study:

To analyze current siRNA design algorithms and evaluate the importance of various design parameters.
To identify essential parameters not consistently applied by commercial siRNA vendors.
To propose an improved siRNA sequence pattern for enhanced RNAi construct design.

Main Methods:

Analysis of existing siRNA design algorithms and their parameters.
Evaluation of design parameter weights for siRNA libraries developed over the last decade.
Identification of inconsistencies in commercial siRNA design protocols.

Main Results:

Not all essential parameters are currently utilized by commercial siRNA vendors.
Significant variation exists in the effectiveness of siRNAs designed with current algorithms.
An optimized siRNA sequence pattern was identified based on evaluation results.

Conclusions:

Current siRNA design algorithms can be improved by incorporating additional parameters.
The proposed siRNA sequence pattern can enhance both the potency and specificity of RNAi constructs.
Findings will aid commercial vendors in developing more effective siRNA libraries for research.