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| SUMMER SCHOOL - Module 4 |
| Module 4 / Microbial Genomics & Metagenomics Workshop Dates: June 28th – July 2nd 2021 Organizer: M. Pilar Francino (francino_pil@gva.es) The workshop is addressed to students and professionals of biology, biomedical research, the health sciences and related fields who are interested in learning and sharing concepts, tools and research results in genomics, metagenomics and the human microbiome. The workshop will train participants in state-of-the-art analytical methods in this area, by means of theoretical lectures and seminars as well as practical hands-on exercises, all held via online live sessions in constant interaction with the instructors. Several sessions will be devoted to training in the use of the Integrated Microbial Genomes system (IMG), a database and analysis platform developed at the U.S. DOE Joint Genome Institute (Berkeley, California) for comprehensive studies of genomes and metagenomes. The IMG system will be presented by Dr. Natalia Ivanova and Dr. Rekha Seshadri from the JGI's Microbiome Data Science Group, the group responsible for IMG development.
Module costs: 262'5 euros
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| Instructors:
Module program: Monday June 28th: 14:30 - 15:30 Features and Diversity of Microbial Genomes by Dr. M. Pilar Francino. 15:30 - 16:45 Introduction to the Analysis of Bacterial Communities by Dr. María José Gosalbes. Break 17:00 - 18:00 Uncovering Earth's virome by David Páez-Espino. 18:00 - 20:00 Unix commands and moving around the system by David Pérez-Villarroya.
Tuesday June 29th: 14:00 - 15:00 Informatic Processing and Quality Control of Sequencing Reads by Mariana Reyes. 15:00 - 16:45 Sequence Assembly by Dr. Giuseppe D'Auria. Break 17:00 - 17:30 IMG UI Intro: Live Demonstration by Dr. Natalia Ivanova 17:30 - 18:00 Functional Annotation in IMG by Dr. Rekha Seshadri 18:00 - 18:30 Isolate Comparative Genomics Case Study: Live Demo by Dr. Rekha Seshadri CLASSWORK or HOMEWORK 18:30 - 19:30 Hands-on Exercise (student work) 19:30 - 20:00 Review/Discuss solutions
Wednesday June 30th: 14:00 - 16:45 Microbial Diversity Analyses with 16S rRNA by Dr. Giuseppe D'Auria. Break 17:00 - 18:00 IMG/M Metagenome Analysis: Live Demonstration by Dr. Natalia Ivanova 18:00 - 18:30 Metagenome Comparisons Case Study: Live Demo by Dr. Natalia Ivanova CLASSWORK or HOMEWORK 18:30 - 19:30 Hands-on Exercise (student work) 19:30 - 20:00 Review/Discuss solutions
Thursday July 1st: 14:00 - 15:00 Microbial communities, the human microbiome and its relationship to health by Dr. M. Pilar Francino 15:00 - 16:45 CRISPR analyses in IMG by Dr. David Páez-Espino Break 17:00 - 17:30 Preparation of student analysis projects - students form groups and carry out genome or metagenome analysis project 17:30 - 20:00 Instructors circulate in Breakout rooms or ON CALL to answer questions or help troubleshoot
Friday July 2nd: 14:00 - 15:30 Introduction to Metatranscriptomics by Dr. María José Gosalbes. 15:30 - 16:45 Metagenome Analysis Research Talk by Dr. M. Pilar Francino. Break 17:00 - 19:00 Presentations of projects by student groups 19:00 - 20:00 IMG Tutorial Summary, Discussion and Questions | ||||||||
