Next Generation Sequencing Technologies : Data Analysis and Applications

ABOUT THE COURSE:Next Generation Sequencing (NGS) technologies have revolutionized Bioscience, Biotechnology and Medicine through generating unprecedented amount of data in the fields of genomics, transcriptomics and epigenomics. However, the data generated by NGS technologies has to be analyzed systematically to gain any meaningful information and to draw useful inferences. This course will describe the step-by-step process to analyze the data generated by NGS platforms along with relevant hands-on experience. The course will cover the analysis single nucleotide polymorphisms (SNPs) and indels. Further, the course will describe the complexities involved in the analysis of transcriptomic data in details. Finally, the course will end with an overview of other applications of the NGS technologies e.g., in genome assembly and epigenomics.INTENDED AUDIENCE: Students, Faculty and Industry professionalsPREREQUISITES: Basic knowledge of programming and statisticsINDUSTRY SUPPORT: Genomics companies

Week 1: Next Generation Sequencing (NGS) TechnologiesWeek 2:NGS data formats and data quality check (QC)Week 3:Hands-on tutorial 1 - NGS data and quality checkWeek 4:Read Mapping and Mapping AlgorithmsWeek 5:Targeted resequencing and SNP, INDEL identificationWeek 6:Hands-on tutorial 2 - Mapping and SNP identificationWeek 7:RNA sequencing and data normalizationWeek 8:Differential expression analysis and multiple hypothesis testing correctionsWeek 9:Gene Ontology (GO) and Gene set enrichment analysisWeek 10:Hands-on tutorial 3 - RNA-seq data normalization and differential expression analysisWeek 11:Genome assembly algorithmsWeek 12:Application of NGS in epigenomic studies