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Algorithms in Bioinformatics

Program

All lectures will take place in the conference room (4th floor) except for Wednesday afternoon when lectures will be held in room 306

October 7, Tuesday


9:30

Registration

9:45-10:00

Opening


10:00-11:00б 

Alternative splicing as a playground of evolution

Mikhail Gelfand, Institute for information transmission problemsб  RAS, Moscow


11:00-11:30 discussion+break


11:30-12:30

Phageomics: a systematic way to study the process of phage infection

Konstantin Severinov, Institutes of Gene Biology and Molecular Genetics, Moscow, Russia and Waksman Institute, Rutgers University, Piscataway, USA


12:30-13:00 discussion+break


13:00-13:30

Gene position scoring within transcription regulation networks

Ivan Junier, Programme d'Epigenomique, Evry

(slides)


13:30-14:00

Mining the semantics of genome super-blocks to infer ancestral architectures

Macha Nikolski, LaBRI, Universitц© de Bordeaux, Talence, France

(slides)


14:00-15:30 discussion+lunch


15:30-16:30

Global Sequencing: new high-throughput sequencing technologies, hudge bioinformatic challenges

Richard Christen. Universitц© de Nice & CNRS UMR 6543. Centre de biochimie. Parc Valrose, Nice, France

(slides)


16:30-17:00 discussion+break


17:00-18:00

Next-generation sequencing technology: new sequencing platforms, new frontiers, new algorithms

Valentina Boeva, Institut Curie, Paris


18:00 discussion+coffee


October 8, Wednesday


10:00-11:00

Virtual cell: methods and approaches (talk cancelled)

Fedor Kolpakov, Institute of System Biology, Design Technological Institute of Digital Techniques SB RAS Novosibirsk, Russia


10:00-11:00

Genomic Exploration of the Hemiascomycetous Yeasts

David Sherman, LaBRI and INRIA, Bordeaux, France

(slides)


11:00-11:25 discussion+break


11:25-11:55

Computing efficiently the evolution distance from minisatellites

Jean-Marc Steyaert, Ecole Polytechnique, Palaiseau

(slides)


11:55-12:55

How to model and to study the dynamics of the RNA secondary structure

Eugene Asarin, LIAFA Paris

(slides)


12:55-13:10 discussion+break


13:10-13:45

Statistical sampling and rational design of RNA

Yann Ponty, LRI Orsay

(slides)


13:45-14:00 discussion


13:00-15:30 Lunch


15:30-16:30

Blood as a new type of an active media. Space dynamic of clot formation and coagulation disorders

Fazly Ataullakhanov, Mikhail Panteleev

Center for theoretical problems of physico-chemical pharmacology RAS, Lomonosov Moscow State University, Physics Dept., National Center for Hematology, RAMSб 

(slides)


16:30-17:30

Mathematical models of erythrocyte. What they give us for understanding the disorders and ageing of this cell

Fazly Ataullakhanov, Center for theoretical problems of physico-chemical pharmacology RAS,

Lomonosov Moscow State University, Physics Dept., National Center for Hematology, RAMSб 

(slides)


17:30-18:00 discussion+coffee


19:00 BANQUET


October 9, Thursday


10:00-11:00

Protein repeats: from sequence to structure and functions

Andrey V. Kajava, б CRBM, б CNRS, Montpellier

(slides)


11:00-11:25 discussion+break


11:25-12:25

Recognition of protein function using local similarity

Dmitry A. Filimonov (Joint work with Boris N. Sobolev, Kirill E. Alexandrov, Vladimir V. Poroikov)

Institute of Biomedical Chemistry, Russian Academy of Medical Sciences, Pogodinskaya Str., 10, Moscow, 119121, Russia

(slides)


12:25-12:50 discussion+break


12:50-13:20

Common intervals of chromosomes with paraloguous genes

Mathieu Raffinot, LIAFA Paris

(slides)


13:20-13:50

An Optimized Counting Graph

Mireille Rц©gnier, INRIA Rocquencourt

(slides)


13:50-14:00 discussion


14:00-15:30 Lunch


15:30-16:00

A Data-Mining Approach To Time-Series Microarray Alignment for Crossing Large-Scale Biomolecular and Literature Information

Nicolas Turenne, INRA Jouy-en-Josas, France

(slides)


16:00-17:00

Some questions of interpretation of results for DNA-protein binding on tiling arrays

Vsevolod Makeev, GosNIIGenetika Moscow

(slides)


17:00-17:30 discussion+closure