| Abbrev | Name |
|---|---|
| BCM | Bruno Contreras-Moreira, Invited professor |
| JCM | Jaime Castro Mondragon |
| DP | Denis Puthier |
| JvH | Jacques van Helden |
| Resource | Link |
|---|---|
| Glossary | concept definitions |
| Regulatory Sequence Analysis Tools (RSAT) | http://rsat.eu/ |
| RSAT teaching material | http://rsa-tools.github.io/teaching/ |
| RSAT course (slides) | http://rsa-tools.github.io/course/ |
| footprintDB | http://floresta.eead.csic.es/footprintdb/ |
| MEME suite | http://meme-suite.org/ |
| Date | From | To | Subject | Teacher | Links |
|---|---|---|---|---|---|
| Mon 19/10 | 09:00 | 11:00 | Characterizing and representing TF-DNA interactions (from sites to motifs) |
JvH | [RSAT] [tutorial from sites to motifs] |
| Mon 19/10 | Introduction to the footprintDB database | BCM | [footprintDB] | ||
| Mon 19/10 | 11:00 | 13:00 | Scanning sequences to predict binding sites (from motifs to sites) |
JvH | [RSAT] dna-pattern, matrix-scan, permute-matrix, random-seq [tutorial E.coli promoter scanning] |
| Mon 19/10 | 14:00 | 16:00 | Estimating the reliability of binding site predictions (score distributions) |
JvH | [RSAT] convert-background-model, matrix-distrib, matrix-quality |
| Mon 19/10 | 16:00 | 18:00 | Discovering motifs in regulatory sequences (from sequences to motifs) |
JvH | [RSAT] oligo-analysis, dyad-analysis, position-analysis, random-genes [MEME] |
| Tue 20/10 | 09:00 | 13:00 | Structure/sequence relationships (from structures to motifs) |
BCM | [footprintDB] [tutorial structures/motifs] |
| Tue 20/10 | 14:00 | 18:00 | ChIP-seq analysis | DP | [slides] [tutorial mapping] |
| Wed 21/10 | 09:00 | 13:00 | ChIP-seq analysis | DP | [tutorial peak annotation] [tutorial peak-motifs] |
| Fri 23/10 | 09:00 | 10:45 | Motif comparison and clustering | Jacques + JCM | [RSAT] matrix-clustering [slides] [tutorial matrix-clustering] |
| Fri 23/10 | 11:00 | 12:30 | Phylogenetic footprints | Jacques | [RSAT] footprint-disco [tutorial footprint-disco] |
| Fri 23/10 | 14:00 | 16:00 | Définition des travaux personnels | JvH + DP | Description des TP |
| Fri 23/10 | 14:00 | 16:00 | Réponses aux questions des étudiants, clarifications, recherche de cas d’étude pour le travail personnel | JvH + DP | |
| Tur 05/11 | 14:00 | 18:00 | Presentation des travaux personnels | DP + JvH | |