Researcher
Koen Van den Berge
- Disciplines:Biostatistics, Development of bioinformatics software, tools and databases, Single-cell data analysis, Analysis of next-generation sequence data
Affiliations
- Department of Applied Mathematics, Computer Science and Statistics (Department)
Member
From8 Oct 2014 → 15 Jul 2023
Projects
1 - 2 of 2
- High-resolution differential expression analysis for single-cell RNA-seq dataFrom1 Nov 2019 → 15 Jul 2023Funding: FWO junior postdoctoral fellowship
- Wavelet-based functional models for the analysis of next generation sequencing dataFrom1 Jan 2016 → 31 Oct 2019Funding: FWO Strategic Basic Research Grant
Publications
1 - 10 of 19
- Trajectory inference across multiple conditions with condiments(2024)
Authors: Hector Roux de Bézieux, Koen Van den Berge, Kelly Street, Sandrine Dudoit
- Polar lake microbiomes have distinct evolutionary histories(2023)
Authors: Bjorn Tytgat, Elie Verleyen, Maxime Sweetlove, Koen Van den Berge, Eveline Pinseel, Dominic A. Hodgson, Steven L. Chown, Koen Sabbe, Annick Wilmotte, Anne Willems, et al.
- Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects(2022)
Authors: Koen Van den Berge, Hsin-Jung Chou, Hector Roux de Bézieux, Kelly Street, Davide Risso, John Ngai, Sandrine Dudoit
- A multimodal cell census and atlas of the mammalian primary motor cortex(2021)
Authors: Edward M. Callaway, Hong-Wei Dong, Joseph R. Ecker, Michael J. Hawrylycz, Z. Josh Huang, Ed S. Lein, John Ngai, Pavel Osten, Bing Ren, Andreas Savas Tolias, et al.
Pages: 86 - 102 - satuRn: Scalable analysis of differential transcript usage for bulk and single-cell RNA-sequencing applications(2021)
Authors: Jeroen Gilis, Kristoffer Vitting-Seerup, Koen Van den Berge, Lieven Clement
- Altering the sex pheromone cyclo(L-Pro-L-Pro) of the diatom Seminavis robusta towards a chemical probe(2021)
Authors: Eli Bonneure, Amber De Baets, Sam De Decker, Koen Van den Berge, Lieven Clement, Wim Vyverman, Sven Mangelinckx
- Mating type specific transcriptomic response to sex inducing pheromone in the pennate diatom Seminavis robusta(2021)
Authors: Gust Bilcke, Koen Van den Berge, Sam De Decker, Nicole Poulsen, Petra Bulánková, Cristina Maria Osuna Cruz, Jack Dickenson, Koen Sabbe, Georg Pohnert, Klaas Vandepoele, et al.
Pages: 562 - 576 - A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex(2021)
Authors: Zizhen Yao, Hanqing Liu, Fangming Xie, Stephan Fischer, Ricky S. Adkins, Andrew I. Aldridge, Seth A. Ament, Anna Bartlett, M. Margarita Behrens, Koen Van den Berge, et al.
Pages: 103 - 110 - Trajectory-based differential expression analysis for single-cell sequencing data(2020)
Authors: Koen Van den Berge, Hector Roux de Bézieux, Kelly Street, Wouter Saelens, Robrecht Cannoodt, Yvan Saeys, Sandrine Dudoit, Lieven Clement
- Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia(2020)
Authors: David H. Brann, Tatsuya Tsukahara, Caleb Weinreb, Marcela Lipovsek, Koen Van den Berge, Boying Gong, Rebecca Chance, Iain C. Macaulay, Hsin-Jung Chou, Russell B. Fletcher, et al.