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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...

Sanger Sequencing

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DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...

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Related Experiment Video

Updated: Sep 4, 2025

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Published on: August 17, 2014

RNA Sequencing Data Analysis on the Maser Platform and the Tag-Count Comparison Graphical User Interface.

Kenta Ujifuku¹, Yoichi Morofuji², Hiroshi Masumoto³

¹Department of Neurosurgery, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki, Japan. kujifuku-nag@umin.ac.jp.

Methods in Molecular Biology (Clifton, N.J.)

|July 22, 2022

Summary

RNA sequencing (RNA-seq) analysis is now accessible to wet-lab specialists using the Maser platform and TCC-GUI. This simplifies transcriptome analysis, making complex bioinformatics pipelines readily available for research.

Keywords:

Maser RNA-seq Spreadsheet software TCC-GUI

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Related Experiment Videos

Last Updated: Sep 4, 2025

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Published on: August 17, 2014

Targeted DNA Methylation Analysis by Next-generation Sequencing

Targeted DNA Methylation Analysis by Next-generation Sequencing

Published on: February 24, 2015

MS2-Affinity Purification Coupled with RNA Sequencing in Gram-Positive Bacteria

MS2-Affinity Purification Coupled with RNA Sequencing in Gram-Positive Bacteria

Published on: February 23, 2021

Area of Science:

Molecular Biology
Bioinformatics
Genomics

Background:

Comprehensive transcriptome analysis via RNA sequencing (RNA-seq) is crucial for biological research.
The interpretation of RNA-seq data often requires specialized bioinformatics expertise, posing a barrier for many researchers.
Accessibility to user-friendly tools is needed to democratize RNA-seq data analysis.

Purpose of the Study:

To present a simplified pipeline for RNA sequencing data analysis.
To enable wet-lab specialists to perform RNA-seq analysis independently.
To introduce the Maser platform and TCC-GUI as accessible solutions for RNA-seq interpretation.

Main Methods:

Utilizing the Maser platform for RNA sequencing data processing.
Employing the Tag-Count Comparison Graphical User Interface (TCC-GUI) for data analysis.
Implementing a streamlined bioinformatics pipeline suitable for non-experts.

Main Results:

Demonstration of a functional RNA-seq analysis pipeline manageable by wet-lab specialists.
Successful application of Maser and TCC-GUI for transcriptome data interpretation.
Confirmation that the described methods are freely available for scientific use.

Conclusions:

The Maser platform and TCC-GUI significantly lower the barrier for RNA-seq data analysis.
Wet-lab specialists can now perform comprehensive transcriptome analysis without relying on dedicated bioinformatics support.
Accessible tools like Maser and TCC-GUI empower broader scientific communities to leverage RNA-seq data effectively.