During this training session, participants will acquire the skills to sequence using the MinION technology from Oxford Nanopore Technologies. The program will include theoretical lectures and hands-on sessions. Attendees will have the opportunity to prepare a library, conduct sequencing, and analyze the results using Galaxy. An incredible opportunity to grasp the art of genome sequencing with this cutting-edge technology!
This course will be instructed by a team of four, including a representative from Oxford Nanopore Technologies and three researchers from the field of Biotechnology at the College of Biological and Environmental Sciences - USFQ, who rely on this technology in their daily research projects.
Agenda
| TIME | ACTIVITY | |
|---|---|---|
| Tuesday, July 4th | 9:00 AM - 10:00 AM | Registration |
| 10:00 AM - 11:15 AM | Welcome | |
| Introduction to Oxford Nanopore Technologies: technology, products | ||
| 11:15 AM - 11:30 AM | Coffee Break | |
| 11:30 AM - 1:00 PM | Introduction to Oxford Nanopore Technologies: technology, products (continued) | |
| 1:00 PM - 2:30 PM | Lunch – at each participant's own expense | |
| 2:30 PM - 3:45 PM | Sequencing with Oxford Nanopore Technologies: starting molecules (amplicons, genomic DNA, RNA, methylation) | |
| 3:45 PM - 4:00 PM | Coffee Break | |
| 4:00 PM - 5:00 PM | Theory on library preparation for genomic DNA sequencing: various kits for genomic DNA sequencing | |
| Wednesday, July 5th | 9:00 AM - 11:15 AM | Practical Session: Genomic DNA library preparation |
| 11:15 AM - 11:30 AM | Coffee Break | |
| 11:30 AM - 1:00 PM | Practical Session: Flow cell preparation Practical Session: Loading library onto the flow cell |
|
| 1:00 PM - 2:30 PM | Lunch – at each participant's own expense | |
| 2:30 PM - 3:45 PM | Theory: Real-time sequencing. What's happening in the MinION? Information on MinKNOW software and base calling. | |
| Theory: Results to be obtained, file formats, and types. Files provided for analysis. Theory: Basic analysis with results and programs (Porechop, Nanoplot, SMARTdenovo, Flye, Minimap2, Medaka, Quast, BUSCO) |
||
| 3:45 PM - 4:00 PM | Coffee Break | |
| 4:00 PM - 5:00 PM | Theory: Basic analysis with results and programs (Porechop, Nanoplot, SMARTdenovo, Flye, Minimap2, Medaka, Quast, BUSCO) (continued) | |
| Thursday, July 6th | 9:00 AM - 11:15 AM | Exercise: Learning to use Galaxy (tutorial) Basic bioinformatics pipeline using Galaxy |
| 11:15 AM - 11:30 AM | Coffee Break | |
| 11:30 AM - 1:00 PM | Basic bioinformatics pipeline using Galaxy (continued) | |
| 1:00 PM - 2:30 PM | Lunch – at each participant's own expense | |
| 2:30 PM - 3:30 PM | Conclusions and closing remarks | |
Instructors
Natalia Cortes
Nanopore Account Executive, Oxford Nanopore Technologies
