The course is aimed towards students, post-docs and researchers novice and will provide training in: data generation, experimental design, statistical considerations, sampling methods, data generation for 16S, shotgun and transcriptome, data analysis for diversity and functional studies, metadata analysis, single cell genomics.
TC – by teleconference
1. Public data resources for metagenome analysis – IMG and SEED (Ramy Aziz, Gabriel Fernandes, Argonne (TBA-TC) - 2h
2. Data generation. NGS approaches, pros and cons of different technologies for 16S, shotgun and transcriptome sequencing - (Flávio Araújo and Anna Salim) - 2h
3. Metagenomics sampling methods - (Sara Cuadros) - 2h
4. Statistical considerations: replicate sampling, sequencing depth - (Bent Petersen) - 1h
5. 16S data production and analysis (QiimeVictor Pylro - TC, Gabriel Fernandes) - 4h
6. Shotgun sequencing data production and analysis - (Ramy Aziz, Bent Petersen, Argonne person - TC) - 8h
7. Transcriptome data analysis - (Jerônimo Ruiz) - 4h
8. Single cell genomics - (Guilherme Oliveira) - 2h
9. Bacteria genome assembly - (Jerônimo Ruiz) - 2h
10. Virus metagenomes and virus-bacteria co-evolution - (Martha Vives) - 3h
11. Paper discussions - Various 2h / day
