BENS7009 BIO2: Bioinformatics for Microbiome Research (JSS32) (1 cr)

Microbial community analysis and RNA-seq data analysis with Chipster. This course introduces the participants to microbiome analysis methods, tools, and file formats. It covers the whole workflow from quality control and filtering to quantification and statistical analysis using Mothur and Phyloseq tools integrated in the user-friendly Chipster platform. The first part of this course focuses on microbiome analysis of amplicon sequencing data (16S rRNA genes, as opposed to metagenomics where all the genes are sequenced). The second part introduces the participants to RNA-seq data analysis methods, tools and file formats. See detailed contents of the previous courses: https://ssl.eventilla.com/event/xaB07 and https://ssl.eventilla.com/bulkrnaseq202

You learn to use the Chipster software package provided by CSC (IT Center for Science).
After this course, you will be able to

• preprocess amplicon sequencing data for microbial community analysis
• compare the structure of microbial communities using ordinations and multivariate statistics
• make quantification and differential expression analysis of RNA-seq data

The content level of the course is intermediate (at least BSc in life sciences or medical sciences). The course is intended for students who are planning to use next-generation sequencing in their research. It is suitable also for those researchers who do not plan to analyze data themselves, but who need to understand the concepts in order to discuss with bioinformaticians. The user-friendly Chipster software is used in the exercises, so no previous knowledge of Unix or R is required.