Martijn Cordes

PhD student


An effective immune system is characterized by a diverse immune repertoire. There is a strong demand for accurate and quantitative methods to assess the diversity of the immune repertoire for various (pre-)clinical applications, including the diagnosis and prognosis of primary immune deficiencies, or to assess the response to therapy. As a bioinformatician I am involved in analyzing various types of data (Spectratype, Exome-seq, RNA-seq, scRNA-seq) to understand T-cell development and to develop new methods to help gaining new insights.


Curriculum Vitae

I studied Bioinformatics at the Hanze University in Groningen, where I finished my research internship in 2011 at the department of Molecular Genetics at the RUG. From 2012 to 2015 I worked as a Bioinformatician in the group of prof. Bauke Ylstra at the VUmc in Amsteram analyzing NGS data to find markers to predict response to chemotherapy combined with monoclonal antibodies of patients with metastatic colorectal cancer. In 2016 I started working at the LUMC in the group of prof. Frank Staal, first as a Bioinformatician until 2019 when I started my PhD.


  • Functional definition of a transcription factor hierarchy regulating T cell lineage commitment.

    Garcia-Perez L, Famili F, Cordes M, Brugman M, van Eggermond M, Wu H, Chouaref J, Granado DSL, Tiemessen MM, Pike-Overzet K, Daxinger L, Staal FJT.

    Sci Adv. 2020 Jul 31;6(31):eaaw7313. doi: 10.1126/sciadv.aaw7313.

  • Successful Preclinical Development of Gene Therapy for Recombinase-Activating Gene-1-Deficient SCID.

    Garcia-Perez L, van Eggermond M, van Roon L, Vloemans SA, Cordes M, Schambach A, et al.

    Mol Ther Methods Clin Dev. 2020 Mar 31;17:666-682. doi: 10.1016/j.omtm.2020.03.016.

  • De novo generation of a functional human thymus from induced pluripotent stem cells.

    Chhatta AR, Cordes M, Hanegraaf MAJ, Vloemans S, Cupedo T, Cornelissen JJ, Carlotti F, Salvatori D, Pike-Overzet K, Fibbe WE, Hoeben RC, Mikkers HMM, Staal FJT.

    J Allergy Clin Immunol. 2019 Nov;144(5):1416-1419.e7. doi: 10.1016/j.jaci.2019.05.042.

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