Bioinformatics

The Bioinformatics group focuses on fundamental and applied bioinformatics research in the green life sciences. We develop and apply novel computational methods for the analysis and integration of –omics data. We teach bioinformatics and data analysis to students at the bachelor, master and PhD levels.

Courses & Thesis Projects

The Bioinformatics Group offers several courses and thesis projects.

Courses Thesis projects

News

New paper on PLETHORA regulatory network

Luca Santuari, along with Dick de Ridder and colleagues from the Plant Developmental Biology group, published a paper in The Plant Cell on the PLETHORA gene regulatory network, which guides growth and cell differentiation in Arabidopsis roots.

Crossover patterns in tomato unraveled

Sevgin published a paper in The Plant Journal on genomic distributions and characteristics of crossovers in tomato, through comparison with a wild relative

Indexing the Pseudomonas metabolome

In collaboration with the Dorrestein lab at UCSD, Xiaowen & Marnix contributed to a paper in Nature Microbiology on indexing the Pseudomonas metabolome. Combined metabolomic and genomic analysis lead to the identification of novel lipopeptides.

PanTools: new software for pan-genome analysis

Siavash, Mehmet, Dick and Sandra published their new PanTools software for pan-genome analysis in the journal Bioinformatics. Siavash presented the work at the ECCB conference in The Hague.

New minor Bioinformatics

Starting in the academic year 2016-2017, the Bioinformatics group will coordinate a new minor 'Bioinformatics', for BSc students throughout Wageningen University, as well as from other universities. More information will be available soon.

Events

New PhD student: Vittorio

On June 15th, Vittorio Tracanna started his PhD project on metagenomic analysis of biosynthetic pathways in plant microbiomes. Welcome, Vittorio!

New PhD student: Mehmet Akdel

On May 15th, Mehmet Akdel started on his PhD project on algorithms for optical mapping. Welcome, Mehmet!

MSc thesis Mirna

Mirna Baak successfully defended her thesis, entitled “Host pathogen interaction of Solanum lycopersicum and Botrytis cinerea through small RNAs”, on March 21, 2016. Good work!

MSc Thesis Jonas

On March 17, 2016, Jonas Niemann successfully defended his thesis project entitled: “Prioritization of QTL candidate genes using functional enrichment”. Well done!

MSc Thesis Oleguer

On March 15, 2016 Oleguer Plantalech Casals successfully defended his thesis project "Relative performance of normalization methods in comparative transcriptomics between species”. Congratulations!

MSc thesis Jordy

On March 10, 2016, Jordy Coolen finished his thesis project “GruS: A novel scaffolding and gap filling tool for Oxford Nanopore Technologies reads” with a successful defense. Well done!