BioNetVisA 2016 workshop
From biological network reconstruction to data
visualization and analysis in molecular biology and medicine
4 September 2016
Room: Oceania Foyer
Churchillplein 10
2517 JW The Hague
The Netherlands
Downloads
Program and abstracts booklet 2016 Presentation slides 2016
This year BioNetVisA
and LogicBio workshops have been
fused. The speakers of the Session 3 entitled ŌModelling of
biological networksÕ were selected from the abstracts submitted to the LogicBio workshop.
Organizers and program co-chairs
of LogicBio workshop:
Laurence Calzone (Institut Curie, Paris, Fance)
Pedro T. Monteiro (INESC-ID, Lisbon, Portugal)
Visit https://logicbio.sciencesconf.org for full list of the organizing committee members and details on the LogicBio workshop.
BioNetVisA Motivation
BioNetVisA
workshop brings together different actors of network biology from database
providers, networks creators, computational biologists, biotech companies
involved in data analysis and modeling to experimental biologists, clinicians
that use systems biology approaches. The participants are exposed to the
different paradigms of network biology and the latest achievements in the
field.
The goal of BioNetVisA
workshop is to build a discussion around various approaches for biological
knowledge formalisation, data integration and analysis; compatibility between
different methods and biological networks resources available the field;
applicability for concrete research and clinical projects depending on scientific
question and type of high-throughput data.
The BioNetVisA workshop aims at identifying bottlenecks and proposing
short- and long-term objectives for the community as discussing questions about
accessibility of available tools for wide range of user in every-day standalone
application in biological and clinical labs. In addition, the possibilities for
collective efforts by academic researchers, clinicians, biotech companies and
future development directions in the field will be discussed during the round
table panel.
BioNetVisA Program
Session 1
Development of
biological network databases and platforms
Chair: Robin Haw
(Ontario Institute for Cancer Research, Toronto, Canada)
09.00-09.25
Comprehensive
representation of disease mechanisms
Alexander Mazein (European Institute
for Systems Biology and Medicine, Lyon, France)
09.25-09.40
Reactome: a curated knowledgebase of
biomolecular pathways
Antonio Fabregat (EMBL_EBI, Germany)
09.40-09.55
Computational
reconstruction of NFkB pathway interaction mechanisms during prostate cancer
Daniela Brnigen (Harvard University, Boston, USA)
09.55-10.10
LitPathExplorer:
A visual tool for exploring literature-enriched pathway models
Axel J. Soto (University
of Manchester, Manchester, UK)
10.10-10.30
Posters
flash presentations
Nicolas Alcaraz (University of Southern Denmark, Odense,
Denmark)
Markus List (University
of Southern Denmark, Odense, Denmark)
Anna Zhukova (Institut Pasteur CNRS – Paris, France)
smund Flobak
(Norwegian University of Science
and Technology, Trondheim, Norway)
Martina Kutmon (BiGCaT, NUTRIM, Maastricht University, The
Netherlands)
Martin Schaefer (The Barcelona Institute of Science and
Technology, Barcelona, Spain)
Adrien
Faur (Yamaguchi University, Yamaguchi City, Yamaguchi, Japan)
10.30-11.00 Posters and Coffee break (Foyer, ground floor)
11.00-11.40
Keynote lecture
A
systems approach to immune inter-cellular communication: from a cell-centric
view to the complexity of the tumor microenvironment
Vassili Soumelis (Institut Curie, Paris, France)
Session 2
Data
visualisation and analysis in the context of biological networks in research
and medicine
Chair: Lodewyk Wessels (Netherlands Cancer
Institute, Amsterdam, Netherlands)
11.40-12.05
Network-based approaches to defeat cancer: quantifying module activity
Emmanuel Barillot (Institut Curie, Paris, France)
12.05-12.30
A refreshing look at Reactome Functional
interation Network
Robin Haw
(Ontario Institute for Cancer Research, Toronto, Canada)
12.30-13.30 Lunch (Foyer, ground floor)
13.30-13.55
Metabolic Networks: Visual Analysis of Elementary Flux
Modes
Marie Beurton-Aimar (Universit Bordeaux 1, Bordeaux, France)
13.55-14.35
Keynote lecture
Integrative
network-based analysis for subtyping and cancer driver identification
Kathleen
Marchal (Ghent University, Ghent,
Belgium)
14.35-15.30 Posters and Coffee break (Foyer, ground floor)
Session3
Modelling of
biological networks
Chair: Marie Beurton-Aimar (Universit Bordeaux 1, Bordeaux,
France)
15.30-15.45
In silico
knockout experiments based on Petri net models
Jennifer Scheidel (Johann Wolfgang Goethe-University Frankfurt
am Main, Frankfurt am Main, Germany)
15.45-16.00
Modelling of T cell co-inhibitory pathways to predict
anti-tumour responses to checkpoint inhibitors
Cline Hernandez (IBENS, Paris, France)
16.00-16.15
Constructing
and analyzing disease-specific or developmental stage-specific transcription factor
and miRNA co-regulatory networks
Maryam Nazarieh (Saarland University, CBI, Saarbrucken,
Germany)
16.15-16.30
Predictive
logical modelling of TLR5 and TCR cooperation for CD4 T cell activation
Otoniel Rodrguez-Jorge (CIDC,
Mexico and IBENS, Paris, France)
16.30-16.55
Logic models to predict continuous outputs based on
binary inputs with an application to personalized cancer therapy
Theo Knijnenburg (Institute
for Systems Biology, Seattle, USA)
BioNetVisA Registration
The registration has to be performed via ECCB website
BioNetVisA Organising Committee
Inna Kuperstein (Institut Curie, France)
Emmanuel
Barillot
(Institut Curie, France)
Andrei Zinovyev (Institut Curie, France)
Hiroaki Kitano (Okinawa Institute of Science and Technology
Graduate University, RIKEN Center for Integrative Medical Sciences, Japan)
Minoru
Kanehisa (Institute for Chemical Research, Kyoto
University, Japan)
Samik Ghosh (Systems Biology Institute, Tokyo, Japan)
Nicolas Le Novre (Babraham Institute, UK)
Robin Haw (Ontario Institute for Cancer Research, Canada)
Alfonso Valencia (Spanish National
Bioinformatics Institute, Madrid, Stain)
Lodewyk Wessels
(Netherlands Cancer Institute, Amsterdam, Netherlands)
Downloads
Program and abstracts
booklet 2014 Presentations 2014
Program and abstracts booklet 2015 Presentations 2015
Contact us
BioNetVisA Sponsors
