ENV-621 / 3 crédits

Enseignant(s): Altshuler Ianina, Bell Emma, Bernier-Latmani Rizlan, Carratala Ripolles Anna

Langue: Anglais

Remark: You will need to install software on your laptop to be able to participate in this course. The second half of the course will take place Jan 29th - Feb 2nd 2024.


Frequency

Every 3 years

Summary

This course will train doctoral students to use bioinformatic tools to analyse amplicon and metagenomic sequences. In addition, we will also touch upon meta-transcriptomics and meta-proteomics.

Content

Theory:
Introduction to Omics and DNA sequencing technologies
DNA sequencing and uncultured microorganisms
Reproducible research and community standards
Metagenome sequence assembly overview
Intro to read mapping and mapping tools
Reconstructing genomes from metagenomes
Intro to Annotation, databases, HMMs

 

Practical:
Intro to command line / computing resources
QC reads, Adaptor Removal
Assembly
Assembly stats
Gene prediction
Mapping
Binning
Bin refinement
Bin QC
Dereplication
Abundance
GTDB
Phylogenomics
Functional Annotation

Note

Dr. Emma Bell

Resources

Moodle Link

Dans les plans d'études

  • Nombre de places: 20
  • Forme de l'examen: Exposé (session libre)
  • Matière examinée: Hands-on bioinformatics for microbial meta-omics
  • Cours: 40 Heure(s)
  • TP: 40 Heure(s)
  • Type: optionnel

Semaine de référence

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