EPD meeting, September 2016

Scientific Program

Preliminary program schedule, still subject to slight changes

Wed Sep 28
18:00 - 19:00 Registration
Thu Sep 29
08:30 - 09:30 Registration
09:30 - 09:35 Welcome - Introduction
09:35 - 11:20 Session 1:
  • Artemis Hatzigeorgiou (University of Thessaly, Greece)
    Promoter prediction evolution through the decades
  • Sridhar Hannenhalli (University of Maryland, USA)
    Remote control of gene expression (Abstract)
  • Denis Thieffry (Ecole Normale Supérieure, France)
    Qualitative dynamical modelling of promoter epigenetic regulation
11:20 - 11:40 Coffee break + posters
11:40 - 12:50 Session 2:
  • Gary Stormo (Washington University, St. Louis, USA)
    Modelling the Specificity of Transcription Factors
  • Bart Deplancke (EPFL, Lausanne, Switzerland)
    De novo, quantitative DNA binding analysis of single and dimeric transcription factors using SMiLE-seq
12:50 - 14:00 Lunch + posters
14:00 - 15:30 Selected short talks by young scientists (Abstracts):
  • Tugce Bilgin Sonay, UZH: Tandem repeats in promoters confer gene expression divergence
  • Paul Gagniuc, UPB - Romania: A pattern approach for promoter research
  • Jake Yeung, EPFL: Tissue‐wide analysis reveals distinct roles of promoters underlying rhythmic gene expression
  • Mahmoud Ibrahim, MDC-Berlin - Germany: Promoter Dynamics during Directed Differentiation of Motor Neurons
  • Dominik Hartl, FMI: Dissecting sequence determinants of CpG island promoter activity
  • Sarah Natalia Mapelli, IOR: Promoter-proximal transcripts: a genome-wide prediction and functional validation study
  • Maroun Bou Sleiman, EPFL: The alternative splicing landscape of the Drosophila gut upon enteric infection
15:30 - 15:50 Coffee break + posters
15:50 - 17:30 EPD session:
  • Philipp Bucher (EPFL, Lausanne, Switzerland)
    The Eukaryotic Promoter Database EPD: Why I created it and how I have been using it
  • René Dreos (EPFL, Lausanne, Switzerland)
    EPD today: a resource to study promoter motifs and chromatin features from yeast to human
  • Giovanna Ambrosini (EPFL, Lausanne, Switzerland)
    ChIP-Seq and SSA: web-based tools for the analysis of gene regulatory elements
17:45 - 19:00 Apéro
19:00 - 22:00 Banquet
Fri Sep 30
08:30 - 10:15 Session 4:
  • Alexander Kel (geneXplain, Wolfenbuettel, Germany)
    TRANSFAC and beyond.
  • Martin Vingron (Max Planck Institute, Berlin, Germany)
    Co-localization networks on promoters
  • Uwe Ohler (Max Delbrück Center, Berlin, Germany)
    Pervasive transcription and the diversity of eukaroytic promoters
10:15 - 11:35 Coffee break + posters
10:35 - 12:20 Session 5:
  • Boris Lenhard (Imperial College London, UK)
    Promoter classes and promoter codes: looking beyond motifs
  • Tammy Juven-Gershon (Bar-Ilan University, Israel)
    The Core Promoter: At the Heart of Gene Expression
  • Roberto Mantovani (University of Milan, Italy)
    The CCAAT/NF-Y duo: partnerships in promoters and beyond (Abstract)
12:20 - 13:30 Lunch + posters
13:30 - 14:40 Session 6:
  • Erik van Nimwegen (University of Basel, Switzerland)
    The role of expression noise in the evolution of gene regulation: lessons from evolved synthetic promoters
  • Martin Kuiper (NTNU, Trondheim, Norway)
    Taking Care of Transcription Factors - Building a Knowledge Commons for Gene Regulatory Network Analysis
14:40 - 15:00 Coffee break + posters
15:00 - 16:10 Session 7:
  • Valentina Boeva
    Discovery of core regulatory circuitries in neuroblastoma and identification of distinct neuroblastoma identity types (Abstract)
  • Nicolas Mermod (University of Lausanne, Switzerland)
    Bioinformatics modeling and experimental characterization of epigenetic regulatory elements
16:10 - 16:15 Concluding remarks