Module 3 [1 ECTS] - Bioinformatics and Metagenomics

Start date: Week 37 (10th September 2024)

Note: This module contains two lectures held on two different dates: September 10th Tuesday at 9:00-10:00 CEST and September 11th Wednesday at 10:00-11:00 CEST.

Speaker 1: Nima Rafati (Data Scientist at NBIS, SciLifeLab, Uppsala University; Tuesday 10th September 9:00-10:00 CEST)

Nima Rafati is a passionate bioinformatician focused on uncovering patterns in biological data through the analysis of sequencing data across various living systems.

Title: Decoding Cell-Level Biology with scRNA-Seq Data

In this lecture, you will gain insights into RNA sequencing (RNA-Seq) methods, with a particular focus on single-cell RNA sequencing (scRNA-Seq). We will briefly introduce sequencing techniques and highlight the differences between bulk and single-cell RNA-Seq.

The lecture will cover the scRNA-Seq workflow, including sample preparation, sequencing, data preprocessing, and result interpretation. Key topics such as cell clustering and trajectory inference will be discussed. An example of scRNA-Seq data analysis will be demonstrated to illustrate these concepts.

By the end of this lecture, attendees will have a solid understanding of scRNA-Seq techniques and their application in genomics research.

Speaker 2: Laura Carroll (DDLS Fellow; Wednesday 11th September 10:00-11:00 CEST)

This session will discuss the impact of (meta)genomic sequencing in microbiology. It will cover bioinformatic approaches for pathogen surveillance and outbreak detection, and the development of phylodynamic models and machine learning techniques for microbial analysis.

Computer Lab: The lab will cover tools in bioinformatics and metagenomics data analysis with practical exercises, providing hands-on experience in applying these techniques to real-world datasets.