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A Protocol for Teaching Basic Next Generation Sequencing (NGS) Analysis Skills to Undergraduate Students Using Bash
1Department of Biology, University of Florence, Sesto Fiorentino, Italy. marco.fondi@unifi.it.
Methods in Molecular Biology (Clifton, N.J.)
|May 7, 2021
Summary
This protocol addresses the shortage of researchers trained in next-generation sequencing (NGS) data analysis. It provides educators with a hands-on guide for teaching essential NGS computational pipeline skills to students.
Area of Science:
- Genomics and Bioinformatics
- Molecular Biology
Background:
- Next-generation sequencing (NGS) is vital for biological research, yet many labs lack trained personnel for data analysis.
- Academic curricula often omit fundamental NGS data management, analysis, and interpretation skills.
- Current training relies on fragmented tutorials, lacking conceptual depth.
Purpose of the Study:
- To bridge the educational gap in NGS data analysis.
- To equip teachers with a practical protocol for student training.
- To provide a structured approach to learning NGS computational pipelines.
Main Methods:
- Development of a hands-on protocol for teaching NGS data analysis.
- Focus on fundamental operations: quality checking and trimming of sequencing reads.
- Inclusion of advanced techniques like data normalization.
Main Results:
- A comprehensive protocol designed for educators.
- A structured learning pathway for students in NGS data analysis.
- Improved student understanding of basic and advanced NGS analysis concepts.
Conclusions:
- The protocol effectively addresses the need for trained NGS data analysts.
- It facilitates a deeper understanding of NGS analysis beyond superficial tutorials.
- Empowers educators to teach essential bioinformatics skills to students.