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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...

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Updated: Oct 29, 2025

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Published on: January 7, 2020

Multiplexing Methods for Simultaneous Large-Scale Transcriptomic Profiling of Samples at Single-Cell Resolution.

Junyun Cheng¹, Jie Liao¹, Xin Shao¹

¹Pharmaceutical Informatics Institute, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, 310058, China.

Advanced Science (Weinheim, Baden-Wurttemberg, Germany)

|July 9, 2021

Summary

This summary is machine-generated.

DNA barcoding enhances single-cell RNA sequencing (scRNA-seq) by enabling sample multiplexing. This review compares major barcoding strategies for improved throughput and cost-efficiency in scRNA-seq applications.

Keywords:

DNA-based barcoding sample multiplexing single-cell RNA sequencing

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Last Updated: Oct 29, 2025

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

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Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq

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A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations

A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations

Published on: October 25, 2018

Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Single-cell RNA sequencing (scRNA-seq) is crucial for understanding cellular heterogeneity.
Traditional scRNA-seq methods face limitations in sample throughput and cost.
Barcoding technology offers a solution to increase sample processing efficiency.

Purpose of the Study:

To review DNA-based barcoding methods for sample multiplexing in scRNA-seq.
To compare major barcoding strategies based on throughput and gene detection.
To provide guidelines for selecting appropriate barcoding techniques.

Main Methods:

Focus on four major DNA-based barcoding strategies for sample multiplexing.
Comparative analysis of barcoding methods regarding sample/cell throughput and gene detection.
Discussion of critical applications and technical challenges.

Main Results:

Barcoding significantly reduces processing time, batch effects, and costs in scRNA-seq.
Identified key aspects for comparing barcoding methods: throughput and gene detection.
Developed guidelines for choosing optimal barcoding techniques based on specific needs.

Conclusions:

Sample multiplexing via DNA barcoding revolutionizes scRNA-seq efficiency and scalability.
Addresses challenges in combinatorial labeling, in vivo barcoding, and multimodal tagging.
Highlights future prospects, including predicting disease severity like COVID-19.