Fri June 17, 2011 ad hoc sem. J.Rougemont

Tools and interfaces for UHTS processing at the BBCF

I will present the general architecture of our recent developments, some of which have a wider interest for genomics-related bioinformatics.
This includes a genome mirroring tool (genrep), a workflow manager (bein), a genome data viewer (GDV) and various analysis pipelines that are accessible as python scripts or via web interfaces.
I’ll show how the pipelines are designed, and how you can create your own script to make use of our libraries and reproduce locally the behaviour of the web interface.

Jacques Rougemont
Bioinformatics & Biostatistics Core Facility EPFL School of Life Sciences

Friday, 17 June 2011, 12:15
University of Lausanne
Genopode Building, Auditorium A

Ioannis Xenarios

April 11-14, 2011; Conf. “Enabling Systems Biology”, London UK

April 11-14th, 2011, University College, London, UK

The conference “Enabling Systems Biology” is a one-off conference focusing on the interface between computational approaches in systems biology with experimental techniques. A world-leading set of invited speakers will be talking, and there will be a number of talks drawn from the set of submitted abstracts. Registration deadline is March 1st 2011.

More information

Confirmed Speakers are:

Ewan Birney          (EBI, Cambridge, UK)
Christine Orengo     (UCL, London)
James Adjaye         (MPI, Berlin)
Giulio Superti-Furga (CMM, Vienna)
Geoff Barton         (U. Dundee, Dundee)
Michael Boutros      (DKFZ, Heidelberg)
Martha Bulyk         (Harvard Medical School, Cambridge, US)
Gianni Cesareni      (U. Tor Vergata, Rome)
Bertie Goettgens     (CIMR, Cambridge, UK)
John Hancock         (MRC Harwell, UK)
Jean-Karim Heriche   (EMBL, Heidelberg)
Jaap Heringa         (VU, Netherlands)
Henning Hermjakob    (EBI, Cambridge, UK)
Edda Klipp           (Humboldt University, Berlin)
Xuedong Liu          (U Colorado, Boulder)
Tomi Makela          (U Helsinki, Finland)
Aristidis Moustakas  (Ludwig Institute, Uppsala)
Stuart Newfeld       (Tempe, Arizon)
Erich Nigg           (BioZentrum, Zurich)
Christos Ouzounis    (Institute of Agrobiotechnology, Thessaloniki)
Bernhard Palsson     (UCSD, San Diego)
Dietmar Schomburg    (Technical University Braunschweig)
Eran Segal           (Weizmann Institute, Jerusalem)
Peter Sorger         (Harvard, Cambridge, US)
Alfonso Valencia     (CNIO, Madrid)
Jaak Vilo            (Quretec, Tartu)
Hans Westerhoff      (University of Manchester, Manchester)
Ioannis Xenarios     (SIB, Geneva)

Database (Oxford); auth.: CV.Jongeneel, I.Xenarios & B.Thorens

Database (Oxford). 2010 Oct 12;2010:baq024. Print 2010.

EuroDia: a beta-cell gene expression resource.

Liechti R, Csárdi G, Bergmann S, Schütz F, Sengstag T, Boj SF, Servitja JM, Ferrer J, Van Lommel L, Schuit F, Klinger S, Thorens B, Naamane N, Eizirik DL, Marselli L, Bugliani M, Marchetti P, Lucas S, Holm C, Jongeneel CV, Xenarios I.

Vital-IT, SIB Swiss Institute of Bioinformatics, Genopode Building.

Continue reading