European Student Council Symposium 2016

The ISCB Student Council and its European Regional Student Groups are organizing the fourth European Student Council Symposium to be held on Saturday, September 3rd during one of the Tutorials/Workshop Days of ECCB 2016 in The Hague, Netherlands.

The European Student Council Symposium is a forum for students and young researchers in the fields of Computational Biology and Bioinformatics. Participants will have the opportunity to present their work to an international audience, build a network within the computational biology community and develop important soft skills in an environment that fosters exchange of ideas and knowledge.

Key Dates

April 25, 2016

Abstract Call Opens

June 13, 2016

Travel Fellowship Call Opens

June 24, 2016

July 12, 2016

Abstract Call Closes

July 15, 2016

July 22, 2016

Abstract Acceptance

July 22, 2016

Late Poster Submission

July 22, 2016

Travel Fellowship Call Closes

Aug 5, 2016

Late Poster Acceptance

Aug 5, 2016

Travel Fellowship

September 3, 2016

European Student Council

ESCS 2016 - Programme of the Day

Time Activity
08:30-9:00        Registration + poster setup

Session 1 Session Chair: Annika Jacobsen
09:00-09:15        Welcome and ice breaking event
09:15-10:00        Keynote Speaker: Kris Laukens - Making sense of unexplained proteomics and metabolomics data with pattern mining
10:00-10:15        Lisanna Paladin – RepeatsDB 2.0: improved annotation, classification and visualization of repeat proteins.
10:15-10:30        Thies Gehrmann – Nucleus specific expression in the multi-nuclear mushroom Agaricus bisporus
10:30-11:00        Coffee Break

Session 2 Session Chair: Kevin Schwahn
11:00-11:15        Antonio Colaprico – TCGAbiolinks: An R/Bioconductor package for integrative analysis with TCGA data
11:15-11:30        Michał Burdukiewicz – AmyloGram: a novel predictor of amyloidogenicity
11:30-11:45        Konrad Zych – Improving potato breeding with computational and functional genomics
11:45-12:30        Keynote Speaker: Roeland Merks - Multiscale Modeling of the Gut Microbiota
12:30-13:00        Lunch
13:00-14:00        Poster Session

Session 3 Session Chair: Nanne Aben
14:00-14:15        Anne-Claire Martines – A vicious cycle in mammalian fatty-acid oxidation
14:15-14:30        Daniele Parisi – Data fusion in drug target interaction prediction and drug repositioning
14:30-14:45        Sivan Gershanov – Subgrouping of pediatric medulloblastoma using an integrated analysis of MicroRNA-mRNA expression profile
14:45-15:00        Andrian Yang – A quick and flexible transcriptomic feature quantification framework on the cloud
15:00-15:30        Coffee Break

Session 4 Session Chair: Susanne Hermans
15:30-15:45        Jonas Ibn-Salem – Three-dimensional chromatin looping predicted by CTCF motifs and ChIP-seq signals
15:45-16:00        Sascha Meiers – Functional impact of genomic rearrangements on chromatin organization and transcriptional regulation
16:00-16:15        Bart Cuypers – Whole genome sequencing of a dried blood spot reveals an atypical T. gambiense
16:15-17:00        Keynote Speaker: Núria Lopez Bigas - On the quest for Cancer Drivers
17:00-17:15        Symposium Final Words & Prize Ceremony

18:30-?        Student Social Event with drinks at Luden

Abstract decision is now available

We would like to thank all of the authors who submitted abstracts to present at the fourth European Student Council Symposium at the Hague. We are glad to inform you that after a thorough peer review, decisions are now available. Please visit the following link to check decision on your abstract.


The Abstract Call for ESCS 2016 has been extended to 12 July

The abstract call for oral presentation has been extended to 12 July 2016. We are pleased with the quality of all the abstracts submitted to the European Student Council Symposium so far, and look forward to receive even more. Your abstract will be considered for an oral presentation if submitted before 12 July 2016 and for a poster presentation if submitted before the late poster submission deadline on 22 July 2016.


Call for abstracts for ESCS 2016

Abstract submission for oral and poster presentations is open for the 4th European Student Council Symposium (ESCS) 2016.

You can submit your abstract here:

For registration details, please visit

We welcome students and young researchers from all areas of computational biology to join our community. Please help us spread the word by using the hashtag #ESCS16 on social media.

We look forward to welcome you in The Hague!

Annika Jacobsen and Kevin Schwahn,
chair and co-chair, ESCS 2016


Keynote : Prof. Dr. Roeland Merks

Prof. Dr. Roeland Merks is a senior researcher at Centrum Wiskunde & Informatica (CWI), the Dutch national researcher for mathematics and computer science in Amsterdam, The Netherlands and he is a part-time full professor in Multiscale Mathematical Biology at the University of Leiden, The Netherlands. Merks received his Master of Science degree in Biology from Utrecht University, The Netherlands in 1997. After a brief research stay at Tokyo University, Japan in 1998 he pursued PhD studies in Computational Science from 1999 to 2003 the University of Amsterdam, The Netherlands. He earned his PhD for his studies with Dr. Jaap Kaandorp, Dr. Alfons Hoekstra, and Prof. Peter Sloot on the simulation of branching morphogenesis of corals. He went on to study the mechanisms of collective cell behavior during angiogenesis with Prof. James Glazier from Indiana University, Bloomington, and then moved to the VIB Dept. Plant Systems Biology in Ghent, Belgium to work on cell-based modeling of leaf morphogenesis with Dr. Gerrit Beemster and to set up his own group on plant modeling. In 2008 he moved to CWI, the Dutch national research center of mathematics and computer science, where he set up the biomodeling group of the Netherlands Consortium for Systems Biology. Merks' current research focuses on modeling angiogenesis, plant development, and mechanobiology

More information can be found on Dr. Merks

Keynote title “Multiscale Modeling of the Gut Microbiota”

The human gut contains approximately 10^14 bacteria, belonging to hundreds of different species. Together, these microbial species form a complex food web that can break down food sources that our own digestive enzymes cannot handle, including complex polysaccharides, producing short chain fatty acids and additional metabolites, e.g., vitamin K. The diversity of microbial diversity is important for colonic health: Changes in the composition of the microbiota have been associated with inflammatory bowel disease, diabetes, obestity and Crohn's disease, and make the microbiota more vulnerable to infestation by harmful species, e.g., Clostridium difficile. To get a grip on the controlling factors of microbial diversity in the gut, we here propose a multi-scale, spatiotemporal dynamic flux-balance analysis model to study the emergence of metabolic diversity in a spatial gut-like, tubular environment. The model features genome-scale metabolic models of microbial populations, resource sharing via extracellular metabolites, and spatial population dynamics and evolution. In this model, cross-feeding interactions emerge readily, despite the species' ability to metabolize sugars autonomously. Interestingly, the community requires cross-feeding for producing a realistic set of short-chain fatty acids from an input of glucose, If we let the composition of the microbial subpopulations change during invasion of adjacent space, a complex and stratifed microbiota evolves, with subspecies specializing on cross-feeding interactions via a mechanism of compensated trait loss. The microbial diversity and stratification collapse if the flux through the gut is enhanced to mimic diarrhea. In conclusion, this in silico model is a helpful tool in systems biology to predict and explain the controlling factors of microbial diversity in the gut. It can be extended to include, e.g., complex food source, and host-microbiota interactions via the gut wall.