Anke van den Berg
prof. dr.
I work as a clinical molecular biologist in the department of Pathology. In this function I supervise and implement advanced molecular diagnostic techniques. Within my research line, I focus on the molecular pathogenesis of B-cell Hodgkin and non-Hodgkin lymphoma. The specific fields of interest are genomic aberrations, genetic susceptibility, and the role of small and long noncoding RNAs. I have several international collaborations and am PI and co-PI in various projects.
Supplementary Material for: MicroRNA High Throughput Loss-of-Function Screening Reveals an Oncogenic Role for miR-21-5p in Hodgkin Lymphoma
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10.6084/m9.figshare.7047695
Background/Aims: Classical Hodgkin lymphoma (cHL) is among the most frequent lymphoma subtypes. The tumor cells originate from crippled germinal center (GC)-B cells that escaped from apoptosis. MicroRNAs (miRNAs) play important roles in B-cell maturation and aberrant expression of miRNAs contributes to the pathogenesis of cHL. Our aim was to identify oncogenic miRNAs relevant for growth of cHL using a high-throughput screening approach. Methods: A lentiviral pool of 63 miRNA inhibition constructs was used to identify miRNAs essential to cell growth in three cHL cell lines in duplicate. As...
Ye Yuan (Creator)Fubiao Niu (Creator)Ilja Nolte (Creator)Jasper Koerts (Creator)Bea Rutgers (Creator)Jan Osinga (Creator)Maria Sarkis Azkanaz (Creator)Martijn Terpstra (Creator)Leo Bystrykh (Creator)Arjan Diepstra (Creator)Lydia Visser (Creator)Agnieszka Dzikiewicz-Krawczyk (Polish Academy of Sciences) (Creator)Klaas Kok (Creator)Joost Kluiver (Creator)Anke van den Berg (Creator)
Supplementary Material for: MicroRNA High Throughput Loss-of-Function Screening Reveals an Oncogenic Role for miR-21-5p in Hodgkin Lymphoma
Access to document
10.6084/m9.figshare.7047695.v1
Background/Aims: Classical Hodgkin lymphoma (cHL) is among the most frequent lymphoma subtypes. The tumor cells originate from crippled germinal center (GC)-B cells that escaped from apoptosis. MicroRNAs (miRNAs) play important roles in B-cell maturation and aberrant expression of miRNAs contributes to the pathogenesis of cHL. Our aim was to identify oncogenic miRNAs relevant for growth of cHL using a high-throughput screening approach. Methods: A lentiviral pool of 63 miRNA inhibition constructs was used to identify miRNAs essential to cell growth in three cHL cell lines in duplicate. As...
Fubiao Niu (Contributor)Ye Yuan (Second Affiliated Hospital of Harbin Medical University) (Contributor)Maria Sarkis Azkanaz (Contributor)Arjan Diepstra (Contributor)Leo Bystrykh (Contributor)Lydia Visser (Contributor)Agnieszka Dzikiewicz-Krawczyk (Polish Academy of Sciences) (Contributor)Jan Osinga (Contributor)Bea Rutgers (Contributor)Klaas Kok (Contributor)Jasper Koerts (Contributor)Martijn Terpstra (Contributor)Joost Kluiver (Contributor)Anke van den Berg (Contributor)Ilja Nolte (Contributor)Debora de Jong (Contributor)
Additional file 6: Table S2. of Single-cell sequencing reveals karyotype heterogeneity in murine and human malignancies
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10.6084/m9.figshare.c.3601100_d2.v1
Simulating the effects of different aneuploidies on the aneuploidy and heterogeneity score. Table showing the effect of modelling various aneuploidies on the aneuploidy and heterogeneity scores. (XLSX 42 kb)
Bjorn Bakker (Contributor)Aaron Taudt (Contributor)Mirjam E. Belderbos (Contributor)David Porubský (Contributor)Diana C.J. Spierings (Contributor)Tristan de Jong (Contributor)Nancy Halsema (Contributor)Inge de Groote-Kazemier (Contributor)Karina Hoekstra-Wakker (Contributor)Allan Bradley (Contributor)Eveline de Bont (Contributor)Anke van den Berg (Contributor)Victor Guryev (Contributor)Peter M. Lansdorp (Terry Fox Laboratory, BC Cancer Agency, University of British Columbia) (Contributor)Maria Colomé-Tatché (Institute of Computational Biology) (Contributor)Floris Foijer (Contributor)
Additional file 4: Table S1. of Single-cell sequencing reveals karyotype heterogeneity in murine and human malignancies
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10.6084/m9.figshare.c.3601100_d7.v1
Overview of single-cell sequencing samples and sequencing statistics. An overview of general sequencing and analysis statistics of the single-cell sequencing data. The number of analysed reads corresponds to the number of uniquely mappable reads used in the copy number annotation pipeline. (XLSX 38 kb)
Bjorn Bakker (Contributor)Aaron Taudt (Contributor)Mirjam E. Belderbos (Contributor)David Porubský (Contributor)Diana C.J. Spierings (Contributor)Tristan de Jong (Contributor)Nancy Halsema (Contributor)Inge de Groote-Kazemier (Contributor)Karina Hoekstra-Wakker (Contributor)Allan Bradley (Contributor)Eveline de Bont (Contributor)Anke van den Berg (Contributor)Victor Guryev (Contributor)Peter M. Lansdorp (Contributor)Maria Colomé-Tatché (Institute of Computational Biology) (Contributor)Floris Foijer (Contributor)
Additional file 6: Table S2. of Single-cell sequencing reveals karyotype heterogeneity in murine and human malignancies
Access to document
10.6084/m9.figshare.c.3601100_d2
Simulating the effects of different aneuploidies on the aneuploidy and heterogeneity score. Table showing the effect of modelling various aneuploidies on the aneuploidy and heterogeneity scores. (XLSX 42 kb)
Bjorn Bakker (Creator)Aaron Taudt (Creator)Mirjam E. Belderbos (Creator)David Porubský (Creator)Diana Spierings (Creator)Tristan de Jong (Contributor)Nancy Halsema (Creator)Inge de Groote-Kazemier (Creator)Karina Hoekstra-Wakker (Creator)Allan Bradley (Creator)Eveline de Bont (Contributor)Anke van den Berg (Contributor)Victor Guryev (Creator)Peter M. Lansdorp (British Columbia Cancer Agency, University of British Columbia) (Creator)Maria Colomé-Tatché (Institute of Epidemiology 2) (Contributor)Floris Foijer (Creator)