Computational Cancer Genomics and Tumour Evolution

Van den Eynden lab

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Cancer is a disease of the genome. It is caused by the successive accumulation of DNA errors (somatic driver mutations). This carcinogenic process starts in normal cells and is an example of Darwinian evolution, where each driver event results in a fitness advantage, positive selection and clonal expansion of the affected cells.

The Computational Cancer Genomics and Tumor Evolution (CCGG) lab aims to better understand this tumor evolution using state-of-the-art as well as newly developed wet-lab and computational approaches. By gaining new insights in the key mechanisms underlying tumor evolution, our ultimate goals is to identify novel diagnostic and therapeutic strategies for cancer patients.

The lab's core expertise is in the analysis of somatic mutation patterns, spatial omics applications, machine learning and interactive data visualization. Analyses are mostly performed on next generation sequencing data. These data are obtained from public repositories or from newly sequenced tissues from cancer patients, whole-body donors (post-mortem tissues) or experimental model systems.

Article

  Jan 11, 2024

Preclinical exploration of the DNA damage response pathway using the interactive neuroblastoma cell line explorer CLEAN

Jonatan L Gabre, Peter Merseburger, Arne Claeys, Joachim Siaw, Sarah-Lee Bekaert, Frank Speleman, Bengt Hallberg, Ruth H Palmer and Jimmy Van den Eynden

Article

  May 09, 2023

Benchmark of tools for in silico prediction of MHC class I and class II genotypes from NGS data

Arne Claeys, Peter Merseburger, Jasper Staut, Kathleen Marchal and Jimmy Van den Eynden

Letter

  Mar 15, 2023

Quantification of Neoantigen-Mediated Immunoediting in Cancer Evolution

Arne Claeys, Jimmy Van den Eynden

Article

  Feb 15, 2023

ALK fusion NSCLC oncogenes promote survival and inhibit NK cell responses via SERPINB4 expression

Tzu-Po Chuang, Wei-Yun Lai, Jonatan Gabre, Dan E. Lind, Ganesh Umapathy, Abdulmalik A. Bokhari, Bengt Bergman, Linnea Kristenson, Fredrik B. Thorén, Anh Le, Robert C. Doebele, Jimmy Van den Eynden, Ruth H. Palmer and Bengt Hallberg