PhD Theses

PhD students at the Bioinformatics Laboratory

In Progress 

  • Lashgari, D. Kinetic maturation in the Germinal Center. University of Amsterdam, Amsterdam. Supported by AMC. Van Kampen, A.H.C. (promotor), Van Gils, M. (co-promotor), Hoefsloot, H. C. (co-promotor).
  • Mahamune, U. Single Cell RNAseq and computational modelling.  University of Amsterdam, Amsterdam. ARCAID. Marie Curie COFUND, Horizon 2020. Van Kampen, A.H.C. (promotor), Moerland, P.D. (co-promotor), E.G.M. van Baarsen (co-promotor).
  • Valiente, R. G. Development of multiscale mathematical models of the germinal center (GC) to study its role in B-cell lymphoma (BCL) and/or rheumatoid arthritis (RA). (PhD thesis). University of Amsterdam, Amsterdam. COSMIC. Marie Curie ITN, Horizon 2020. Van Kampen, A.H.C. (promotor), De Vries, N. (promotor), Hoefsloot, H. C. (co-promotor), Guikema, J. E. (co-promotor).

Finished

  • Stobbe, M. (2012). 18 October 2012. The road to knowledge: from biology to databases and back again. University of Amsterdam, Amsterdam. NBIC BioRange. Van Kampen,  A.H.C. (promotor),  Moerland, P. D. (co-promotor). [UvA-DARE]
  • Shahand, S. (2015). 29 October 2015. Science gateways for biomedical big data analysis. University of Amsterdam, Amsterdam. COMMIT. Van Kampen,  A. (promotor), Olabarriaga, S. (co-promotor). [UvA-DARE]
  • Reshetova, P. (2017). 2 March 2017. Use of Prior Knowledge in Biological Systems Modelling. University of Amsterdam, Amsterdam. NBIC Biorange. Van Kampen,  A.H.C (promotor), Smilde, A.  (promotor), Westerhuis, J.  (co-promotor). [UvA-DARE]
  • Tejero Merino, E. (2022). 7 November 2022 Multiscale modelling of plasma cell differentiation in the Germinal Center. University of Amsterdam, Amsterdam. Supported by AMC. Van Kampen, A.H.C. (promotor), Guikema, J.E.J. (co-promotor), Hoefsloot, H. C. (co-promotor). [PhD thesis] [UvA-DARE]
  • Nandal, U. (2023). Computational approaches for biological data integration. University of Amsterdam, Amsterdam. NBIC BioRange. Van Kampen, A.H.C. (promotor), Moerland, P.D. (co-promotor). [UvA-DARE]
  • Balashova, D. Repertoire sequencing. University of Amsterdam, Amsterdam. ARCAID. Marie Curie COFUND, Horizon 2020. Van Kampen, A.H.C. (promotor), De Vries N. (promotor), Greiff V. (co-promotor). – Terminated

Co-supervised PhD students from other research groups

In Progress

  • Balzaretti, G. Repertoire Sequencing. University of Amsterdam, Amsterdam. De Vries, N. (promotor), Van Kampen, A.H.C. (promotor).
  • Lermo Jimenez, M. Epigenetics and breast cancer drug resistance. University of Amsterdam, Amsterdam. Verschure P. J. (promotor), Moerland, P.D. (co-promotor).
  • Olivieri, A. Repertoire Sequencing. University of Amsterdam, Amsterdam. ARCAID, Marie Curie COFUND, Horizon 2020. De Vries, N. (promotor), Van Kampen, A.H.C. (promotor).
  • Stratigopoulou, M. Germinal Center and B-cell Lymphoma. University of Amsterdam, Amsterdam. COSMIC. Marie Curie ITN, Horizon 2020. Van Kampen, A.H.C. (promotor), Van Noesel, C. J. (promotor), De Vries, N. (co- promotor), Guikema, J. E. (co-promotor).

Finished

  • Sontrop, H. (2015). 15 January 2015. A critical perspective on microarray breast cancer gene expression profiling. TU Delft, Delft. NBIC BioRange. Reinders, M. (promotor), Moerland, P. D. (co-promotor). [Link]
  • Beckman, W. (2021). 17 August 2021. The Role of Epigenetics in Transcriptional Stochasticity and the Implications for Breast Cancer Drug Resistance. University of Amsterdam, Amsterdam. EpiPredict. Marie Curie ITN, Horizon 2016. Verschure P.J. (promotor), Van Kampen, A.H.C. (promotor). [UvA-DARE]
  • Barros, R. S. (2022). 1 November 2022 High performance computing for clinical medical imaging. University of Amsterdam, Amsterdam. Henk Marquering (promotor), Van Kampen, A.H.C. (promotor), Olabarriaga, S. (co-promotor). [UvA-DARE]
  • Anang, D. (2023) 6 November 2023. B and T Cell Immune Responses in Rheumatoid Arthritis and Myositis. In Search for the Immunological Drummers and Dancers. University of Amsterdam, Amsterdam. COSMIC. Marie Curie ITN, Horizon 2020. De Vries, N. (promotor), Van Kampen, A.H.C. (promotor), van Baarsen, E.G.M. (co-promotor). [UvA-DARE]
  • Wegdam, W. (2024). In search of protein biomarkers in ovarian cancer and Gaucher disease. University of Amsterdam, Amsterdam. Aerts J.M.F.G. (promotor), Kenter, G.G.  (promotor), Moerland, P.D. (co-promotor). [UvA-DARE]
  • Pollastro, S (2024) 17 May 2024. Understanding Response to Rituximab Treatment in Rheumatoid Arthritis Through Immune Fingerprinting of T and B Cells. University of Amsterdam, Amsterdam. De Vries, N. (promotor), Van Kampen, A.H.C. (co-promotor). [UvA-DARE].