Course content
These materials were part of the live ‘SymbNET: from metagenomics to metabolic interactions’ course which happened in January 2022. Please refer to the course page and programme to check details about this live event and the original programme.
The content table below outlines the different sessions that were included in the course, as well as the format of the materials (slides/videos/practicals) and each session’s trainer. Either proceed through the materials using the arrows at the end of each page or pick your topic of interest from the table below to skip straight to it.
Presentation slides – View or download the slides
Recorded lectures – Watch the lecture videos
Practicals – View or download the slides, exercises, datasets, analysis scripts and results
| Format | Subject | Trainer |
| Introduction to Metagenomics | ||
| Introduction to Metagenomics analyses | Rob Finn |
| Experimental considerations | Vladimir Benes |
| Metagenomic assembly and MAG generation | ||
| Tools for metagenomic assembly | Juan Caballero |
| Tools for MAG generation | Tatiana Gurbich |
| Classification and annotation of viral MAGs | ||
| Classification and annotation of viral MAGs | Sarah Kashaf |
| MGnify MAG catalogues | Sandy Rogers |
| Tools for plasmid detection | Alejandra Escobar |
| Metabolomics analyses | ||
| Introduction into metabolomics analyses with a focus on microbes | Michael Zimmermann |
| Experimental considerations of metabolomics pipelines | Julijana Ivanisevic |
| Analysis of metabolomics data (molecular networking) | Denise Selegato |
| Analysis of metabolomics data (pathway mapping, chemical and pathway enrichment analysis) | Michael Zimmermann, Maria Zimmermann |
| From MAGs to community-scale metabolic modelling | ||
| Introduction into genome-scale metabolic modelling/FBA | Maria Zimmermann |
| metaGEM from MAGs to predicting metabolic interactions in microbial communities with metabolic modelling | Maria Zimmermann, Eva Geissen, Francisco Zorrilla |