Biomina Research Day 2014

The rapid accumulation of data is making many life science disciplines increasingly data-driven and thus reliant on computational approaches for extracting relevant insights. Two years ago, the University of Antwerp (UA) and the Antwerp University Hospital (UZA) joined forces with the establishment of biomina, the biomedical informatics research center Antwerpen. This interdisciplinary research center unites researchers over faculties and bridges institutional borders to jointly tackle the enormous life science data mining challenges ahead. During the last two years, many exciting research developments have taken place. 

The 2014 biomina research day, was held february 20, 2014, in Hof Van Liere (located in Antwerp city center). 


9:00 coffee
9:30 welcome by prof. dr. Alain Verschoren, rector University of Antwerp
9:45 introduction to biomina

session 1: genomics

10:15 Peter De Rijk - Genomecomb: a flexible genome analysis toolbox
10:45 Pieter Meysman - The evolutionary history of transcriptional regulatory networks 

11:00 coffee

session 2: imaging and bioinformatics applications

11:15 Anouk Van de Vel - Accelerometry-triggered video recording for offline screening of convulsive epileptic seizures
11:30 Kasper Claes - Brain regions with different rsfmri between groups
11:45 Lynn Meurs - Cytokine Responses to Schistosoma mansoni and Schistosoma haematobium in Relation to Infection in a Co-Endemic Focus in Northern Senegal
12:00 Stefan Naulaerts - Using frequent itemsets in life sciences

12:15 lunch + poster session 

session 3: proteomics, transcriptomics and metabolomics

13:30 Kristof Engelen – Gene expression compendia for biological discovery
14:00 Wout Bittremieux - Mining mass spectrometry quality control data
14:15 Dirk Valkenborg - MIND:  a soft-sensor to improve mass accuracy in high-resolution top-down proteomics.
14:30 Mateusz Łącki - MassTodon: An automated method to quantify the extent of ETD, ETnoD, and PTR reactions in native top-down proteomics
14:45 Piotr Dittwald - Lipid centrifuge: towards automated discrimination of lipids versus peptides on full mass spectra

15:00 coffee

session 4: medical informatics and applications

15:15 Elke SmitsBiobanking @ CRC Antwerp: advancing translational research and data science
15:30 Kim Luyckx - PASTEL: A Semantic Platform for Assisted Clinical Trial Patient Recruitment
15:45 Bert Leysen - Pro-spinoza: an innovative health research data collection system 

session 5: keynote

16:00 Joris Veltman - Large scale diagnostic sequencing in genetic disease: Unprecedented possibilities and challenges

16:40 closing words by Dhr. Johnny Van der Straeten (gedelegeerd bestuurder UZA)

16:50 farewell drink


The biomina research day has following goals:

  • To present, to a broad audience, a snapshot of ongoing bio- and medical informatics research in Antwerp and beyond.  
  • To show how these fields offer novel research opportunities for a wide range of life science domains. 
  • To promote interactions among clinicians and researchers in data mining, bioinformatics, medical informatics and life sciences.
  • To stimulate and foster novel research and valorisation initiatives for this rapidly growing field. 


  • Bayesian regression approach towards gene prioritization (Ajay Anand Kumar)
  • Understanding leishmania development and adaptation by using a systems biology approach (Bart Cuypers)
  • Automated clinical coding: a problem analysis (Elyne Scheurwegs)
  • Comparing VarScan and MuTect for the analysis of whole exome sequencing data of matched resistant and sensitive tumor cell lines (Timon Vandamme)
  • The use of the isotopic distribution as a complementary quality metric to assess tandem mass spectra results (Fatemeh Zamanzad Ghavidel)
  • Towards Streamlined Handling of Whole Exome  Sequencing Data (Geert Vandeweyer)
  • Mining protein molecular structures for cohesive itemsets (Cheng Zhou)
  • Pattern detection in associated artifact peaks in mass spectra with frequent itemset mining (Trung Nghia Vu)
  • An Automated Software platform to support and Improve the Quality of Clinical Coding (Tim Van den Bulcke)
  • Efficient reduction of candidate matches in peptide spectrum library searching using the top-k most intense peaks (Trung Nghia Vu)
  • iCAREDATA - improving care and research electronic data trust Antwerp (Samuel Coenen
  • Interactome of living cells in contact with nanoparticles: a comprehensive -omics and bio-informatics approach (Inge Nelissen)
  • Monte Carlo Molecular Dynamics case study User support at CalcUA (Engelbert Tijskens)
  • Integration of next generation DNA sequencing data analysis into VSC infrastructure (Kris Laukens)
  • Electron transfer dissociation of native and denatured intact proteins on a quadrupole/ion mobility/time-of-flight instrument (Frederik Lermyte) 
  • Integrating biological databases (Stefan Naulaerts)

Time and place:

  • When? Thursday, February 20, 9:30 - 17:00
  • Where?  Hof Van Liere (city center)