|
Monday, May 20, 2013
| Time | Event | |
| 14:00 - 18:45 | Arrival - Arrival | |
| 19:30 - 21:00 | Dinner |
Tuesday, May 21, 2013
| Time | Event | |
| 07:45 - 08:30 | Breakfast | |
| 08:30 - 08:45 | Introduction | |
| 08:45 - 10:15 | Lavery 1 - DNA fine structure and conformation flexibility | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Schiessel 1 - DNA as a wormlike chain (Euler elastica, Kirchhoff analogy, stretching DNA under an external force) | |
| 12:15 - 14:00 | Lunch | |
| 17:15 - 18:45 | Lavery 2 - All-atom molecular simulation techniques for nucleic acids | |
| 19:30 - 21:00 | Dinner |
Wednesday, May 22, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | Schiessel 2 - Nucleosome as a DNA spool (nucleosome breathing and force-induced unwrapping) | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Lavery 3 - Modeling DNA structure and dynamics | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 16:00 | Practical work | |
| 17:15 - 18:45 | de Pablo 1 - Coarse grain models of DNA, and the role of hydrodynamic interactions in dynamics | |
| 19:30 - 21:00 | Dinner |
Thursday, May 23, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | Lavery 4 - Modeling DNA-ligand and DNA-protein interactions | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | de Pablo 2 - Atomistic and mesoscale models of DNA, their advantages and limitations | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 16:00 | Practical work | |
| 17:15 - 18:45 | Schiessel 3 - Chromatin fiber as a problem in geometry (two-angle model, multi-ribbon model) | |
| 19:30 - 21:00 | Dinner |
Friday, May 24, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | de Pablo 3 - Coarse-grained models of DNA-histone interactions, and relevance for the study of chromatin | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Weigt 1 - Regulatory DNA motifs I: From the biophysics of protein-DNA interaction to the bioinformatics of transcription factor binding sites | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 16:00 | Practical work | |
| 17:15 - 18:45 | Seminar: Everaers - Universal Aspects of Chromosome Folding | |
| 19:30 - 21:00 | Dinner |
Saturday, May 25, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | Weigt 2 - How similar are two biological sequences: Algorithms for sequence alignment | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Arneodo 1 - Long-range correlations in eukaryotic DNA: a footprint of nucleosome packaging | |
| 12:15 - 14:00 | Lunch | |
| 19:30 - 21:00 | Dinner |
Sunday, May 26, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 12:15 - 14:00 | Lunch | |
| 19:30 - 21:00 | Dinner |
Monday, May 27, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | Schiessel 4 - Chromosome as a fractal globule (internal distances, contact probabilities, molten vs. fractal globule) | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Weigt 3 - Regulatory DNA motifs II: Using phylogeny for motif inference | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 16:00 | Practical work | |
| 17:15 - 18:45 | ten Wolde 1 - Overview of noise in biochemical networks | |
| 19:30 - 21:00 | Dinner |
Tuesday, May 28, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | ten Wolde 2 - Modeling biochemical networks | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Arneodo 2 - DNA sequence effect on the nucleosomal organization of the eukaryotic chromatin fiber | |
| 12:15 - 14:00 | Lunch | |
| 17:15 - 18:45 | Weigt 4 - Co-evolution in proteins: From maximum-entropy modeling of protein families to 3D protein structure prediction | |
| 19:30 - 21:00 | Dinner |
Wednesday, May 29, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | Arneodo 3 - Large-scale analysis of genomic sequences: from the detection of replication origins to the modeling of replication in higher eukaryotes | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | ten Wolde 3 - Simulating biochemical networks | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 16:00 | Practical work | |
| 17:15 - 18:45 | Seminar: Rivoire - | |
| 19:30 - 21:00 | Dinner |
Thursday, May 30, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | ten Wolde 4 - Quantifying information transmission in biochemical networks using measures from information theory | |
| 10:15 - 10:45 | Coffee break | |
| 10:45 - 12:15 | Arneodo 4 - Spatio-temporal organization of replication: On genome evolution and large-scale chromatin folding | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 16:00 | Practical work | |
| 17:15 - 18:45 | Presentations by participants | |
| 19:30 - 21:00 | Dinner |
Friday, May 31, 2013
| Time | Event | |
| 07:45 - 08:45 | Breakfast | |
| 08:45 - 10:15 | Presentations by participants | |
| 10:15 - 10:45 | Break | |
| 10:45 - 12:15 | Presentations by participants | |
| 12:15 - 14:00 | Lunch | |
| 14:00 - 18:45 | Departure - Departure |
|
|