Milan Malfait

Milan Malfait

Biography

Hi, my name is Milan and I am a Bioinformatician with a broad interest in Data Science and Software Engineering. My main passions include programming (mainly in R), Open Source Software development, and reproducible science. In my free time I like to go climbing, hiking and scuba diving.

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Interests
  • Software Engineering
  • Bioinformatics
  • Data Science
  • Climbing
  • Scuba diving
Education

  • MSc in Bioinformatics, 2018

    Université Libre de Bruxelles

  • MSc in Bioengineering Sciences (Medical Biotechnology), 2017

    Vrije Universiteit Brussel

Skills

R

100%

Statistics

90%

python

80%

Experience

 
 
 
 
 
Research Software Engineer
University College London
Apr 2023 – Present London, United Kingdom

I am part of the Research Software Development group, within the Advance Research Computing Centre at UCL. We provide the tools and support for academics to reach better research through better software development.

Responsibilities include:

  • Software development and maintenance in various languages and frameworks
  • Fast learning and adoption of new techniques on a per-project basis
  • Teaching and providing workshops in software engineering for non-technical audiences
 
 
 
 
 
Research & Teaching Assistant in Statistical Data Analysis
Ghent University
Dec 2019 – Feb 2023 Ghent, Belgium

Developing robust and scalable methods for analyzing single-cell ‘omics data and implementing them as open- source software packages. Assisting with the teaching of various courses in statistics.

Responsibilities included:

 
 
 
 
 
Bioinformatician
Université Libre de Bruxelles
Sep 2018 – Nov 2019 Brussels, Belgium
Analysis of (single-cell) transcriptomics, micro-array, and epigenomics data: clustering, differential expression analysis, inference of gene regulatory networks, etc. Close collaboration with experimental biologists in the lab. Contributed to various high-impact research papers.

Recent Posts

Recent Publications

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Elke Debrie, Milan Malfait, Ralf Gabriels, Arthur Declerq, Adriaan Sticker, Lennart Martens, Lieven Clement (2023). Quality Control for the Target Decoy Approach for Peptide Identification. Journal of Proteome Research, 22(2).

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P. De Bruyn, M. Prolič-Kalinšek, A. Vandervelde, M. Malfait, Y. G.-J. Sterckx, F. Sobott, S. Hadzˇi, E. Pardon, J. Steyaert, R. Loris (2021). Nanobody-Aided Crystallization of the Transcription Regulator PaaR2 from Escherichia Coli O157:H7. Acta Crystallographica Section F: Structural Biology Communications.

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Alessia Centonze, Shuheng Lin, Elisavet Tika, Alejandro Sifrim, Marco Fioramonti, Milan Malfait, Yura Song, Aline Wuidart, Jens Van Herck, Anne Dannau, Gaelle Bouvencourt, Christine Dubois, Nina Dedoncker, Amar Sahay, Viviane de Maertelaer, Christian W Siebel, Alexandra Van Keymeulen, Thierry Voet, Cédric Blanpain (2020). Heterotypic Cell– Cell Communication Regulates Glandular Stem Cell Multipotency. Nature.

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Mariaceleste Aragona, Alejandro Sifrim, Milan Malfait, Yura Song, Jens Van Herck, Sophie Dekoninck, Souhir Gargouri, Gaëlle Lapouge, Benjamin Swedlund, Christine Dubois, Pieter Baatsen, Katlijn Vints, Seungmin Han, Fadel Tissir, Thierry Voet, Benjamin D Simons, Cédric Blanpain (2020). Mechanisms of Stretch-Mediated Skin Expansion at Single-Cell Resolution. Nature.

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Sophie Dekoninck, Edouard Hannezo, Alejandro Sifrim, Yekaterina A Miroshnikova, Mariaceleste Aragona, Milan Malfait, Souhir Gargouri, Charlotte de Neunheuser, Christine Dubois, Thierry Voet, Sara A. Wickström, Benjamin D Simons, Cédric Blanpain (2020). Defining the Design Principles of Skin Epidermis Postnatal Growth. Cell.

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