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Related Experiment Video

Updated: Sep 28, 2025

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Published on: August 4, 2016

Prime-seq, efficient and powerful bulk RNA sequencing.

Aleksandar Janjic^1,2, Lucas E Wange¹, Johannes W Bagnoli¹

¹Anthropology & Human Genomics, Faculty of Biology, Ludwig-Maximilians University, Großhaderner Str. 2, 82152, Martinsried, Germany.

|April 1, 2022

Summary

This summary is machine-generated.

Prime-seq, an early barcoding bulk RNA sequencing (RNA-seq) method, offers equivalent performance to TruSeq at a fraction of the cost. This optimization makes bulk RNA-seq more accessible for research labs.

Keywords:

Genomics Power analysis RNA-seq Transcriptomics

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Last Updated: Sep 28, 2025

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Published on: August 4, 2016

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Published on: September 16, 2019

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Published on: February 2, 2024

Area of Science:

Molecular Biology
Genomics
Bioinformatics

Background:

Early barcoding is crucial for cost-effective library generation in single-cell RNA sequencing.
Bulk RNA sequencing (RNA-seq) methods require efficient and economical library preparation protocols.

Purpose of the Study:

To optimize and validate prime-seq, an early barcoding bulk RNA-seq method.
To assess the cost-efficiency and performance of prime-seq compared to standard methods.
To validate key steps within the prime-seq protocol, including direct RNA isolation.

Main Methods:

Optimization and validation of the prime-seq protocol for early barcoding in bulk RNA-seq.
Comparative performance analysis against the TruSeq bulk RNA-seq method.
Cost-efficiency assessment, focusing on library generation expenses.

Main Results:

Prime-seq demonstrates equivalent performance to the standard TruSeq bulk RNA-seq method.
Prime-seq is fourfold more cost-efficient, primarily due to significantly cheaper library costs (nearly 50-fold reduction).
Validation of a direct RNA isolation step and confirmation that intronic reads originate from RNA.

Conclusions:

Prime-seq represents a highly cost-efficient early barcoding bulk RNA-seq protocol.
The method is recommended for laboratories seeking to implement economical bulk RNA-seq.
Prime-seq offers a valuable alternative for researchers aiming to reduce library generation costs without compromising performance.