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

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....

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...

You might also read

Related Articles

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

Sort by

Same author

Accelerated Biological Aging Increases the Risk of Head and Neck Cancer: Insights From Genetic Instruments of Epigenetic Clocks.

Molecular carcinogenesis·2026

Same author

Real-Time navigation calibration for pedicle screw placement in neurofibromatosis Type 1-associated scoliosis: An anatomical variability-stratified accuracy study.

International orthopaedics·2026

Same author

Smoking Status and Recurrence in Oral Tongue Squamous Cell Carcinoma: Evidence for Convergent Clinical Behavior.

Laryngoscope investigative otolaryngology·2026

Same author

Dual-Mode Gated Thermal Switch with Branched Interface for Self-Adaptive Thermoregulation.

ACS applied materials & interfaces·2026

Same author

Decoding Occult Cervical Lymph Node Metastasis in Head and Neck Squamous Cell Carcinoma: From AI-Driven Multimodal Fusion to Clinical Translation.

Current oncology reports·2026

Same author

Benchmarking deep learning methods for Cα atom prediction in cryo-EM density maps.

Bioinformatics (Oxford, England)·2026

Same journal

The heterogeneous treatment effects and joint effects of high-speed rail construction and low-carbon city pilot policy on urban economic resilience.

Fundamental research·2026

Same journal

Multiple waves of westward dry-land agriculture expansions along the East Silk Road during the Neolithic age.

Fundamental research·2026

Same journal

Biomedical imaging.

Fundamental research·2026

Same journal

Artificial intelligence in echocardiography: Applications and future directions.

Fundamental research·2026

Same journal

Performance of lunar shell structure for moonbase subjected to low gravity coupled with changing temperature.

Fundamental research·2026

Same journal

KREEP materials recorded in impact glasses of Chang'e-6 regolith returned from the South Pole-Aitken Basin.

Fundamental research·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Jun 5, 2025

Sequencing of mRNA from Whole Blood using Nanopore Sequencing

Sequencing of mRNA from Whole Blood using Nanopore Sequencing

Published on: June 3, 2019

Generating barcodes for nanopore sequencing data with PRO.

Ting Yu¹, Zitong Ren¹, Xin Gao²

¹Research Center for Mathematics and Interdisciplinary Sciences, Frontiers Science Center for Nonlinear Expectations (Ministry of Education), Shandong University, Shandong 266000, China.

Fundamental Research

|December 11, 2024

Summary

This summary is machine-generated.

We developed PRO, a novel tool for designing DNA barcodes and improving sample identification accuracy in high-throughput sequencing. PRO enhances barcode kit capacity and demultiplexing performance, even with low-quality long-read data.

Keywords:

DNA barcode Farthest point sampling algorithm High throughput Nanopore sequencing Third-generation sequencing

More Related Videos

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Published on: December 14, 2017

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

Published on: May 23, 2018

Related Experiment Videos

Last Updated: Jun 5, 2025

Sequencing of mRNA from Whole Blood using Nanopore Sequencing

Sequencing of mRNA from Whole Blood using Nanopore Sequencing

Published on: June 3, 2019

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Published on: December 14, 2017

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

Published on: May 23, 2018

Area of Science:

Genomics
Bioinformatics
Molecular Biology

Background:

DNA barcodes are essential for high-throughput sample identification, reducing costs.
Low-quality long-read sequencing hinders accurate barcode identification, challenging large-scale multiplexing.
Existing methods face limitations in expanding barcode kit capacity while maintaining accuracy.

Purpose of the Study:

To develop a robust method for generating optimal DNA barcode sets for large-scale multiplexing.
To create a bioinformatics tool (PRO) for barcode selection and accurate demultiplexing.
To address the challenges posed by low-quality long-read sequencing data.

Main Methods:

Formulated barcode design as a theoretically NP-complete combinatorial problem.
Introduced probability divergence between DNA sequences to expand barcode kit capacity.
Developed the PRO tool for optimal barcode set selection and demultiplexing.

Main Results:

PRO can design barcode kits up to 2,292 sequences, matching Oxford Nanopore Technologies (ONT) barcode lengths.
PRO achieved 98.29% demultiplexing accuracy on simulated nanopore data with high error rates.
PRO's accuracy was 4.31% higher than ONT's Guppy tool for a kit size of 2,922.

Conclusions:

PRO offers a novel and effective solution for designing DNA barcodes for large-scale sequencing applications.
The PRO tool enhances demultiplexing accuracy and expands barcode kit capacity, overcoming limitations of current long-read sequencing technologies.
PRO demonstrates superior performance compared to existing tools, particularly in challenging, high-error sequencing environments.