The CompOmics group, headed by Prof. Dr. Lennart Martens, is part of the Department of Biomolecular Medicine of the Faculty of Medicine and Health Sciences of Ghent University, and the VIB-UGent Center for Medical Biotechnology of VIB, both in Ghent, Belgium.

The group has its roots in Ghent, but has active members all over Europe, and specializes in the management, analysis and integration of high-throughput Omics data with an aim towards establishing solid data stores, processing methods and tools to enable downstream systems biology research.

The CompOmics team is always looking for talented people. Go to the jobs section on the VIB website to look for open positions.

Web applications

The following web applications are developed and hosted by the group.


Novel MS/MS search engine


MS² Peak Intensity Prediction


Functional Analysis of Metaproteome Data

Tabloid Proteome

Protein-protein interaction networks


A comprehensive compendium of human long non-coding RNAs


LNCASO is an ASO design tool specifically geared towards lncRNA


Sequence Conservation On Protein 3D structure


Phosphosites on protein 3D structure

Free and open source software

Here is a selection of our free and open-source tools. A full list can be found on GitHub.


Combines proteomics search engines in one user-friendly GUI


Advanced proteomics data analysis made easy


LIMS system for proteomics data management and analysis

Thermo Raw File Parser

Convert Thermo Raw files to mzML or MGF on all operating systems


Extract MS1 features from Thermo Raw files for quantification


Fast and user-friendly spectral library search engine


Data management system for cell migration / invasion data


Improve Percolator rescoring with MS²PIP-predicted peak intensities.

Latest Tweets

This was indeed a great collaboration! With hopefully a lot more to come!
Find out how #MS2PIP plays a central role in the #DIAmondDIAgram in our latest publication "Removing the Hidden Data Dependency of DIA with Predicted Spectral Libraries" http://bit.ly/2P6Jmzh https://twitter.com/BartVP/status/1230157335840141315

Bart Van Puyvelde@BartVP

Honoured to have my first publication on the front cover of the latest Proteomics issue. Thanks to @compomics and @VIB_PRC for the great collaboration. #Proteomics #DataIndependentAcquisition #MachineLearning


This week at #EuBIC2020 I happily presented my poster on the upcoming HUPO-PSI Spectral Library Format.
All input and contributions on the format are welcome at http://bit.ly/2syADxy!

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Do you want to learn about Proteomics and Proteomics data analysis? Have a look at our CompOmics tutorials:

Latest publications

Where to find us?

Mail address
Computational Omics and Systems Biology Group
Department of Biomolecular Medicine, Ghent University
VIB-UGent Center for Medical Biotechnology, VIB
Albert Baertsoenkaai 3
9000 Gent, Belgium

Apotheekstraat 5
9000 Gent, Belgium


lennart [dot] martens [AT] UGent.be

Drone picture of Rommelaere campus
Rommelaere campus - © UGent, foto Jonas Vandecasteele en Yentl Vandendriessche