Lab News

Modelling standards and systems biology, you hear a lot of talk about both these topics. But what would it mean if modellers and software engineers actually started using them. In the latest special issue of ERCIM news dealing with “Big Data” Brett and Bas take a look at an idealized day in the life of

A new book on Systems Medicine has recently been published and includes a contribution on Modeling and Simulation Tools: From Systems Biology to Systems Medicine co-authored by ex-VU colleagues Martijn Mone, Maciej Swat and Brett Olivier. We explore how software and standards need to evolve when considering Systems Medicine as compared to Systems Biology and

Dan Fraenkel and Jens Nielsen recently undertook an in-depth review and extended analysis of our Science paper (van Heerden et al., 2014), and we are excited to see that their story has been published! Fraenkel and Nielsen, 2016. Trehalose-6-phosphate synthase and stabilization of yeast glycolysis

Constraint-based modelling is a popular methodology used in systems biology whose stock in trade is the genome-scale model. However an ongoing problem in this field is that no formal standard exists for encoding such models. Brett Olivier together with Frank Bergmann have led the development of an extension to the Systems Biology Markup Language (SBML),

As part of the BioSB Research School, which brings together bioinformaticians and systems biologists, we organised an introductory systems-biology course. In this course, we focussed on the basics of mathematical modelling of molecular circuits and the emergent properties of those circuits, such as their (in)stability, robustness and (in)sensitivity properties. We will organise a similar course next

Dr. Sam Seaver is bioinformatician at Argonne National Laboratory known from e.g. modelSEED and works on (automation of) metabolic reconstructions. He discussed with lab members and presented a seminar. Sam was on a tour through Europe  and we were privileged enough to be on his tour list!

Rick who started his PhD 1st of November got his diploma yesterday “with distinction“. Well done Rick!