Detailed information about the course

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Title

Next Generation Comparative Phylogenomics

Dates

2-6 June 2014

Responsable de l'activité

Ioannis Xenarios

Organizer(s)

Dr. Grégoire Rossier
Dr. Diana Marek
Dr. Brigitte Boeckmann
Dr. Marie-Claude Blatter

Speakers

Brigitte Boeckmann, SIB-SwissProt Group
Evgeny Zdobnov, SIB et CMU Genève Group
Michel Milinkovitch, UNIGE Group
Marc Robinson-Rechavi, UNIL et SIB

Mini-symposium:
Ioannis Xenarios, SIB, Lausanne
Des Higgins, University College Dublin, Ireland
Eyal Privmann, Tel Aviv University, Israel
Maria Anisimova, ETH, Zurich
Vincent Daubin, CNRS Lyon 1, France
Shinichi Sunagawa, EMBL Heidelberg, Germany
Margarida Cardoso Moreira, CIG UNIL, Lausanne

Description

Next Generation Comparative Phylogenomics: The species classification is based on synapomorphies observed in comparative life science studies, including morphology, anatomy, cell biology, developmental biology. In this course, evolutionary concepts and biological findings will be linked to associated alterations at the molecular level.

This event will be composed of:

- a 4-day course (limited to 20 registered participants, priority to PhD students members of StarOmics doctoral program)
- a mini symposium opened to all (4th of June)

mini-symposium's program

Location

Centre Médical Universitaire (CMU), Geneva, Room S3 (Mini symposium: auditory C150)

Map

Map

Information

Programme

Monday, June 2: Evolution of life, genomes, proteomes, proteins
Theoretical: Evolution of life, model organisms, reference proteomes; Protein evolution, Protein architectures.
Practical: Prediction of protein family members (Similarity vs homology); comparison of domain architectures; domain orthology; concepts of phylogenomic databases.

Tuesday, June 3: Comparative genomics
Theoretical: Comparative genomics, Orthology, Handling Phylogenetic trees (introduction of Newick utilities), Metagenomics.

Practicals: OrthoDB, Newick utilities, Metagemonis tools.

Wednesday, June 4: mini-SYMPOSIUM (program)

Thursday, June 5: Comparative phylogenomics
Theoretical: Multi-species genome comparisons, phylogeny inference

Practicals: MANTiS, MetaPIGA, FigTree.
More ...

Friday, June 6: Gene and genome duplication
Duplication is responsible for a large part of the diversity of genes present in genomes. We will study how gene or genome duplications are detected and characterized bioinformatically; discuss examples of whole genome duplication; study the models of evolution for duplicate genes; examine methods and types of data to test these models; and finally discuss recent results from my lab concerning the evolution of orthologs and paralogs.

The day will be an alternance of lectures and practical use of web-based bioinformatics resources.

Expenses

PhD students of StarOmics are eligible for reimbursement of incurred travel expenses by train (half-fare card, and 2nd class). Please send the original tickets (no copies, except for the general abonnement) with the reimbursement form to Corinne Dentan.

Places

20

Deadline for registration 23.05.2014
Joint activity joint
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