Single Nucleotide Polymorphism (SNP) Detection and Analysis using NGS Course

About

Single Nucleotide Polymorphisms (SNPs) are critical genetic variations that play significant roles in disease research, personalized medicine, and population genetics. This program offers an in-depth exploration of SNP detection and analysis using NGS technologies. Participants will learn the principles of SNP identification, the technical aspects of NGS platforms, and the bioinformatics tools required for data analysis.

Throughout the one-month program, learners will engage in both theoretical and practical sessions, gaining hands-on experience in preparing samples, running NGS workflows, and interpreting SNP data. The course also covers the applications of SNP analysis in various fields such as genomics, pharmacogenomics, and evolutionary biology. By the end of the program, participants will be proficient in using NGS technologies for SNP detection and equipped to apply these skills in research and industry settings.

Aim

The aim of the “Single Nucleotide Polymorphism (SNP) Detection and Analysis using NGS” program is to equip participants with the knowledge and skills to detect and analyze SNPs using next-generation sequencing (NGS) technologies. This program will provide a thorough understanding of the workflows, tools, and techniques essential for SNP analysis in various biological and medical research applications.

Program Objectives

• Understand the principles and techniques of SNP detection using NGS.
• Gain proficiency in NGS workflows and data analysis for SNP identification.
• Explore the applications of SNP analysis in various fields of research.
• Develop skills in bioinformatics tools and software for genetic data analysis.
• Learn to interpret and apply SNP data in real-world scenarios.

Program Structure

Module 1

• Introduction to NGS Technology
• Overview of NGS data formats
• Accessing NGS data using SRA tool kit

Module 2

• Checking sequence quality using FastQC
• Cleaning the sequences using cutadapt
• Aligning sequences using BWA
• Sorting the BAM alignment files

Module 3

• Mark PCR duplicates in BAM alignment files using Picard
• Use FreeBayes and Delly on the BAM files to identify variants (SNPs and indels)
• Visually inspect read mapping and variant calls with the Integrated Genomics Viewer (IGV)
  Note: Linux OS is required for running the tools

Participant’s Eligibility

• Undergraduate degree in Genetics, Bioinformatics, Biotechnology, or related fields.
• Professionals in the genomics, biotechnology, or pharmaceutical industries.
• Researchers and scientists with a keen interest in genetic variation and personalized medicine.

Program Outcomes

• Mastery of SNP detection and analysis using NGS technologies.
• Ability to run NGS workflows and interpret sequencing data.
• In-depth understanding of the applications of SNP analysis.
• Proficiency in using bioinformatics tools for genetic data analysis.
• Preparedness for careers in genomics, bioinformatics, and genetic research.

Program Deliverables

• Access to e-LMS
• Real Time Project for Dissertation
• Project Guidance
• Paper Publication Opportunity
• Self Assessment
• Final Examination
• e-Certification
• e-Marksheet