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Onderzoeker

Bart Cuypers

  • Onderzoeksdoeleinden:Dr. Bart Cuypers (Msc. 2013, PhD 2018) is FWO post-doc and a bioinformatics scientist who uses multi 'omic and machine learning methods to unravel the molecular biology and drug-resistance mechanisms of pathogens, as well as their host responses. Currently, his post-doctoral at the interface the Adrem Data Lab (University of Antwerp, Antwerp, Belgium).Bart Cuypers has a background in biology (BSc) and cell- and systems biology (MSc). During his PhD, he studied the functional impact and adaptive role of aneuploidy and gene copy number variation in the protozoan parasite Leishmania, a pathogen of which the molecular biology is still elusive. As such, he worked on the collection, analysis, integration and interpretation of (epi-) genomics, transcriptomics, proteomics and metabolomics data over a wide array of genetic backgrounds, life stages and resistance profiles. As such, he has both wet-lab and computational experience. His post-doc focussed on unravelling the (poorly characterised) post-transcriptional regulatory chain of Leishmania by integration of third generation sequencing data (PacBio) with ribosome profiling and proteomics. Bart Cuypers has obtained several competitive grants and fellowships. Firstly, he has started his career with an FWO Aspirant fellowship (2013) and later continued with and FWO post-doc fellowship (2018). To strengthen his post-doc project, he has obtained additional BOF funding (BOF KP, 2019) as well as an FWO credit for post-docs (2020) and a credit for a long research stay abroad at the Notredame Lab (7 months, 2019-2020). He is co-promotor the SB fellowship of Katlijn de Meulenaere (2019) that investigates Plasmodium vivax reticulocyte invasion pathways and ligand candidates using a multi-omic approach. Finally, he obtained an award from the UA research council for promising young researchers (2015). In total this accounts to more than 660 000 euro in acquired funding.As a bioinformatics enthusiast and strong supporter of interdisciplinary research Bart Cuypers has a leading role in the International Society for Computational Biology Student Council (Executive team, treasurer) a global network of more than 2000 master students, PhD students and young post-docs that are passionate about computational biology. He is one of the main organisers of the International Society for Computational Biology Student Council webinar programme (ISCB Academy). Further, Bart is involved in several research consortia, such as BIOMINA (Biomedical Informatics Research Network, Antwerp, steering committee member) and the Tuberculosis ‘Omics Research Consortium (TORCH). He also represents the Institute of Tropical Medicine (ITM) in the CalcUA Supercomputer User Board, is member of the academic council at ITM and Faculty of Science Faculty Board at UA.Keywords: Systems Biology, Multi 'omics, Data Mining, Molecular Biology, Molecular Parasitology.
  • Trefwoorden:GENOMICA, IMMUNOLOGIE, DATA MINING, MACHINAAL LEREN, INFECTIEZIEKTEN, TRANSCRIPTOMICS, PROTEOMICA, METABOLOMICS, Informatica
  • Disciplines:Artificiële intelligentie, Andere informatie- en computerwetenschappen, Scientific computing, Analyse van next-generation sequence data, Bio-informatica data-integratie en netwerkbiologie, Bio-informatica van ziekten, Computationele biomodellering en machine learning, Computationele evolutionaire biologie, comparatieve genomics en populatiegenomics, Computationele transcriptomics en epigenomics, Ontwikkeling van bio-informatica software, tools en databases, Bio-informatica en computationele biologie niet elders geclassificeerd, Infectieziekten, Parasitologie, Posttranslationele modificaties, Transcriptie en translatie, Epigenomics, Genomics, Metabolomics, Proteomics, Transcriptomics, Systeembiologie niet elders geclassificeerd
  • Onderzoekstechnieken:Van sample prep tot data analyse voor genomics, transcriptomics, proteomics en metabolomics, alsook integrated multi-omics oplossingen, met name in de context van infectieziekten. Computationele immunologie (inc. epitope prioritisatie) van infectieziekten.
  • Gebruikers van onderzoeksexpertise:Academische en Industriële onderzoekers geïnteresseerd in: (1) (integrated) multi-omics, genomics, transcriptomics, proteomics of metabolomics van infectieziekten, (2) de moleculaire interacties van pathogenen met het humaan immuunsysteem.