Below you find the complete list of Tier-1-projects since the start of the regular project application programme.

15 Projects found Life sciences

Optimization of long-read sequencing mapping to discover biomarkers for cancer immunotherapy

Date: 01.12.2017
  • Promotor(s): Diether Lambrechts
  • Institution(s): KU Leuven , VIB
  • Domain(s): Life sciences

In silico study of lymphoma-related MyD88 mutations and their effect on protein actions and mechanism

Date: 01.07.2017
  • Promotor(s): Frank Peelman
  • Institution(s): UGent , VIB
  • Domain(s): Life sciences
The protein MyD88 provides a crucial signaling function for several receptors that are essential for human immunity against invading pathogens. In various cancer types, it has been found that part of this protein has undergone mutation. In this project, we examine several mutations in this protein that lead to various types of white blood cell cancers. Via biochemical experiments, we analyze the effects of these mutations on the protein function. With the aid of microsecond molecular dynamics, we link this experimental data to molecular mechanisms. This helps us understand how these mutations affect the actions and mechanism of MyD88, and how they are connected to disease development processes.

Metagenomic data analysis to unravel food fermentation processes

Date: 01.03.2017
  • Promotor(s): Stefan Weckx
  • Institution(s): VUB
  • Domain(s): Life sciences
Traditionally fermented food products comprise a rich diversity of species of lactic acid bacteria, acetic acid bacteria, coagulase-negative staphylococci, and/or yeasts with interesting functional properties, such as the production of bacteriocins, exopolysaccharides, flavor compounds, and/or health- promoting compounds. Recent advances in high-throughput parallel sequencing techniques provide great opportunities to more precisely investigate the microbial species composition as well as the genetic potential of these fermented food ecosystems by means of DNA-based metagenomic analyses. As these analyses rely on algorithms that are computationally very intensive, the Tier-1 VSC HPC cluster provides the indispensable resources to perform the analyses envisaged.

Mechanistic modeling and in silico evolution of gene regulatory networks

Date: 01.11.2016
  • Promotor(s): Steven Maere
  • Institution(s): UGent , VIB
  • Domain(s): Life sciences
Gene and genome duplications are thought to have been important in establishing the complexity of the gene regulatory systems observed in present-day organisms, and they have been linked to the establishment of many adaptations and evolutionary innovations. However, most of the hypotheses on the evolutionary importance of gen(om)e duplications thus far have been obtained by studying genome sequences and highly abstracted molecular system representations. In this project, we use a mechanistic modelling approach, inspired on the engineering-type approaches used in molecular systems biology, to get more insight into the evolutionary impact of gen(om)e duplications on molecular systems. To this end, we use a fine-grained, sequence-based genotype-phenotype mapping model in combination with population-based evolutionary algorithms.

Atomistic picture of fluorescent probes into lipid bilayer membranes: probing lipid rafts through (non-) linear absorption spectroscopy

Date: 01.07.2016
  • Promotor(s): Stefan Knippenberg
  • Institution(s): UHasselt
  • Domain(s): Life sciences
Cells and their membranes are known to be fundamental building blocks of living organisms and human beings. It is therefore of primordial importance to trace and early detect malfunctions or defects. One of the ideas to gain information about the condition of the cellmembrane is the embedding of a suited fluorescent probe. Dependent on its environment – and on e.g. the orientation of the surrounding lipids – the UV/VIS and non-linear absorption spectra of the compound are expected to change. With the foreseen calculations, we investigate the shape of the bilipid membranes and quantize the influence on the probing species.