Objectives
Explain expert annotation of a microbial genome using the MicroScope platform:
• master the use of the MicroScope platform,
• interpret the results of multiple functional annotation tools,
• master expert annotation of a microbial genome,
• perform comparative genomics analyses,
• perform gene annotation of the genome of interest in an autonomous way.
Public
Engineers, researchers, experienced technicians from biological or medical research laboratories.
Pre-requisite: basic level in biology and computer skills.
Course content
Introduction to annotation
- Sequencing and annotation of microbial genomes.
- Introduction to the MicroScope platform.
- Exercises.
Syntactic and functional annotation
- Gene prediction.
- Similarity analyses using various public databases.
- Prediction of enzymatic functions.
- Exercises.
Expert annotation
- Using the results of the different methods to improve annotation.
- Annotating pseudogenes and fragments.
- Exercises.
Comparative genomics
- Synteny and phylogenetic profiles.
- Region of genomic plasticity analysis.
- Comparative metabolic analysis.
- Exercises.
Method
Lectures (15h) and hands-on (14h).
Each lecture is followed by computer-based exercises using the MicroScope bioinformatic platform.
Evaluation of the trainees is done during the hands-on.
Maximum number of trainees: 12
Co-ordination
Programme manager: Vivienne Fardeau
Scientific advisors:
Claudine Medigue, head of the Laboratory of Bioinformatic Analysis for Genomic and Metabolism (LABGeM)
Alexandra Calteau, researcher (LABGeM)
For more information on the LABGeM:
https://www.genoscope.cns.fr/agc/
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Presentation
