Biozentrum-the new building- University of Basel
Spitalstrasse 41
4056 Basel, Switzerland


Important Dates

Abstract Submission


Previous Editions


BioNetVisA 2019 workshop

From biological network reconstruction to data visualization and analysis in molecular biology and medicine

The workshop presentations are available here

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.


The workshop targets computational systems biologists, molecular and cell biologists, clinicians and a wide audience interested in update and discussion around current status of network biology, pathway databases, and related analysis tools, including visualization, statistical analysis and dynamic modelling. No computational background is required to attend the workshop.

Key themes

Graphical representation of biological knowledge
Molecular interaction and pathway databases
Comprehensive signalling networks
Networks annotation and curation
High-throughput data visualization, analysis and interpretation in the context of networks
Multi-scale networks (genome, epigenome, transcriptome, proteome, metabolome...)
Network modelling
Machine learning/Artificial Intelligence approaches in network biology
Basic research and clinical application of networks
Microbiome and networks
Single-cell data and network inference
Metabolomics and networks
Human microbiome
Networks for drug repositioning

Important dates

October 24 Abstract submission deadline Submit now!
OCtober 25 Abstract acceptance notification
October 28 Workshop's final program announcement
October 30 Workshop's registration deadline (no fee) Register here
October 31 BioNetVisA 2019


Session 1: Pathway resources and maps construction in the AI era
08:50 - 09:00 Opening
09:00 - 09:30
Deriving structured representations from natural language to aid scientific discovery: Case studies from reconstructing large pathway maps
Sucheendra Kumar Palaniappan
The Systems Biology Institute, Tokyo, Japan
Session 2: AI for network-based drug discovery and repositioning
09:30 - 10:00
Pharma Databases Integration coupled with human curation for Drug Development/Repurposing
Junhyung Park
3BIGS CO., LTD. Suwon, Republic of Korea
10:00 - 10:30
Network-based and data-driven drug discovery by machine learning
Yoshihiro Yamanishi
Kyushu Institute of Technology, Fukuoka, Japan
10:30 - 11:00
Network-based knowledge for drug discovery: Application in pharmaceutical industry
Tatsuya Ando
Takeda Pharmaceuticals, Tokyo, Japan
11:00 - 11:15 Break
Session 3: Cancer evolution and medical applications of systems biology
11:15 - 11:45
The Reconstruction of Cancer Phylogenies
David Wedge
Big Data Institute, University of Oxford, UK
11:45 - 12:15
Challenges to integrating systems biology and artificial intelligence in medical applications
Yoshiyuki Asai
Yamaguchi University, Yamaguchi, Japan
Session 4: Big data: integration, visualization interpretation
12:15 - 12:45
Multi-omics and medical data integration and visualization
Reinhard Schneider
Luxembourg Centre for Systems Biomedicine, Luxembourg
12:45 - 14:00 Lunch
14:00 - 15:00 Keynote
Joint analysis of large single-cell dataset collections
Peter Kharchenko
Harvard medical school, Boston, USA
15:00 - 15:30
Multiscale molecular exploration of medulloblastoma tumors
Emmanuel Barillot
Institut Curie, Paris, France
Session 5: Modelling of biological and disease networks
15:30 - 16:00
Towards Predictive Biology: Applications and challenges of mechanistic modeling and machine learning
Ayako Yachie
The Systems Biology Institute, Tokyo, Japan
16:00 - 16:15 Break
16:15 - 16:45
A universal network mechanism governing heterogenous ErbB signaling dynamics
Hiroaki Imoto
Institute for Protein Research, Osaka University, Osaka, Japan
16:45 - 17:05
Mapping Interactions at Genome Scale for a Specific Biological Context: A Case Study in Epithelial-Mesenchymal Transition
Ian Overton
Queen's University Belfast, Belfast, UK
17:05 - 17:25
Merging data-based and mechanistic modelling to study osteoarthritis (OA) development and predict potential intervention targets
Raphaelle Lesage/a>
Katholieke Universiteit Leuven, Leuven, Belgium
17:30 - 18:00
Round table discussion and closing remarks

Abstract submission instructions

We invite to submit your abstract for a talk in the topics described above.
The submission deadline is on August 1st 2019

Submitted abstracts will be reviewed by the scientific program committee and a notification of acceptance for a talk will be provided to the corresponding author by August 12th, 2018.

Number of poster abstracts will be also selected for flash poster presentations (3 minutes of topic advertisement).

Abstract format:
List of authors (the first author is the presenting author)
Abstract text in unstructured format (maximum 300 words)

Submission process
The link below will take you to the EasyChair submission page. Once logged, click on the 'Submission' tab to start the submission process. Enter authors, title without HTML elements, abstract up to 300 words, keywords, and select up to three relevant topic sessions.

To assist us with creating the abstract booklet, please upload the same abstract as a word document in the section called "Upload Paper" using this TEMPLATE

When the form is adequately filled out, press the 'Submit' button. You will receive an email from the conference "EasyChair". This email is solely a notification that EasyChair for BioNetVisA2019 has received the abstract.

Submit your abstract here


The free-of-charge registration is obligatory for all participants (speakers, poster presenters, audience).
The registration deadline is on October 20th 2019

Register here

Organising committee

Emmanuel Barillot (Institut Curie, France)
Hioraki Kitano (RIKEN Center for Integrative Medical Sciences, Japan)
Alfonso Valencia (Spanish National Bioinformatics Institute, Madrid, Spain)
Samik Ghosh (Systems Biology Institute, Tokyo, Japan)
Inna Kuperstein (Institut Curie, France)
Luis Cristobal Monraz Gomez (Institut Curie, France)
Robin Haw (Ontario Institute for Cancer Research, Canada)
Andrei Zinovyev (Institut Curie, France)
Patrick Kemmeren (Princess Maxima Center for Pediatric Oncology, Utrecht, Netherlands)


Okinawa Insitute of Science and Technology Graduate University, Okinawa, Japan
1919-1 Tancha, Onna-son, Kunigami-gun, Okinawa, Japan 904-0495
Room: B250