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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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Related Experiment Video

Updated: Sep 26, 2025

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

Cilo-seq: highly sensitive cell-in-library-out single-cell transcriptome sequencing with digital microfluidics.

Qianqian Zhang¹, Xing Xu¹, Li Lin¹

¹The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, the Key Laboratory of Chemical Biology of Fujian Province, State Key Laboratory of Physical Chemistry of Solid Surfaces, Collaborative Innovation Center of Chemistry for Energy Materials, Department of Chemical Biology, Department of Chemical Engineering, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China. cyyang@xmu.edu.cn.

|April 19, 2022

Summary

Cilo-seq is a novel platform for single-cell RNA sequencing library construction. This integrated device simplifies the process, offering high sensitivity, accuracy, and cost-efficiency for single-cell RNA biology studies.

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Last Updated: Sep 26, 2025

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

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

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

Area of Science:

Molecular Biology
Genomics
Bioengineering

Background:

Single-cell RNA sequencing (scRNA-seq) is crucial for understanding cellular heterogeneity and gene expression.
Current scRNA-seq methods are often complex, costly, and lack integrated library construction platforms.
There is a need for streamlined, high-performance solutions for scRNA-seq library preparation.

Purpose of the Study:

To introduce Cilo-seq, an integrated platform for high-performance single-cell RNA sequencing library construction.
To demonstrate the capabilities of Cilo-seq in simplifying and improving scRNA-seq workflows.
To provide a cost-effective and efficient solution for single-cell RNA biology research.

Main Methods:

Development of Cilo-seq, a single-device platform utilizing digital microfluidics for programmed droplet handling.
Integration of single-cell isolation, nucleic acid amplification, purification, and library preparation.
Implementation of a closed hydrophobic interface, magnetic field control, and precise droplet manipulation.

Main Results:

Cilo-seq achieves high-performance scRNA-seq library construction in a single device.
The platform demonstrates a 1.4-fold improvement in detection sensitivity compared to tube-based methods.
Cilo-seq offers high accuracy (R = 0.98) and a 10-fold cost reduction.

Conclusions:

Cilo-seq offers a simplified, cost-effective, and high-performance solution for scRNA-seq library preparation.
The integrated platform addresses limitations of existing scRNA-seq technologies.
Cilo-seq shows significant promise for advancing single-cell RNA biology research.