Single Nucleotide Polymorphism Detection and Analysis Workshop

Aim

Workshop Objectives

Workshop Structure

Day 1: Introduction to SNPs and Genomic Variation

• Introduction to SNPs and their biological significance
• SNP identification using NGS data
• Real-world applications and case studies
• Exploration of SNP databases: dbSNP, Ensembl, GWAS Catalog
• Hands-on: Interpreting VCF files and exploring public SNP databases

Day 2: NGS Data Processing and SNP Calling

• Fetching and preprocessing NGS datasets from public repositories
• Basics of sequencing data quality control and error correction
• Read alignment and SNP detection workflow
• Hands-on: FastQC, MultiQC, trimming with fastp/Trimmomatic, alignment using BWA, SNP calling using SAMtools/bcftools

Day 3: Reproducible Variant Analysis and Visualization

• Using Galaxy tools for SNP detection
• Visualizing variants in IGV
• Understanding and implementing the GATK pipeline
• Variant filtering and annotation overview
• Hands-on: Galaxy-based workflow execution, IGV inspection, and GATK HaplotypeCaller demonstration

Who Should Enrol?

Important Dates

Workshop Outcomes

Meet Your Mentor(s)

Garima Singh, PhD

Scientific Technical Officer

Biotechnology| Nanotechnology| Biopolymer|

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Fee Structure

What You’ll Gain