Koen Van den Berge
Koen Van den Berge
Postdoctoral researcher, University of California, Berkeley and Ghent University
Verified email at berkeley.edu
Cited by
Cited by
Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia
DH Brann, T Tsukahara, C Weinreb, M Lipovsek, K Van den Berge, ...
Science Advances, eabc5801, 2020
Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications
K Van den Berge, F Perraudeau, C Soneson, MI Love, D Risso, JP Vert, ...
Genome Biology 19 (24), 250126, 2018
Trajectory-based differential expression analysis for single-cell sequencing data
K Van den Berge, HR De Bezieux, K Street, W Saelens, R Cannoodt, ...
Nature communications 11 (1), 1-13, 2020
RNA sequencing data: hitchhiker's guide to expression analysis
K Van Den Berge, KM Hembach, C Soneson, S Tiberi, L Clement, ...
Annual Review of Biomedical Data Science 2, 2019
A sex-inducing pheromone triggers cell cycle arrest and mate attraction in the diatom Seminavis robusta
S Moeys, J Frenkel, C Lembke, JTF Gillard, V Devos, K Van den Berge, ...
Scientific reports 6 (1), 1-13, 2016
stageR: a general stage-wise method for controlling the gene-level false discovery rate in differential expression and differential transcript usage
K Van den Berge, C Soneson, MD Robinson, L Clement
Genome biology 18 (1), 151, 2017
An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types
Z Yao, H Liu, F Xie, S Fischer, AS Booeshaghi, RS Adkins, AI Aldridge, ...
Biorxiv, 2020
Hierarchical community detection by recursive partitioning
T Li, L Lei, S Bhattacharyya, K Van den Berge, P Sarkar, PJ Bickel, ...
Journal of the American Statistical Association, 1-18, 2020
Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia. bioRxiv. 2020
DH Brann, T Tsukahara, C Weinreb, M Lipovsek, K Van den Berge, ...
Preprint, 2020
A multimodal cell census and atlas of the mammalian primary motor cortex
RS Adkins, AI Aldridge, S Allen, SA Ament, X An, E Armand, GA Ascoli, ...
BioRxiv, 2020
zingeR: unlocking RNA-seq tools for zero-inflation and single cell applications
K Van den Berge, C Soneson, MI Love, MD Robinson, L Clement
bioRxiv, 157982, 2017
Mating type specific transcriptomic response to sex inducing pheromone in the pennate diatom Seminavis robusta
G Bilcke, K Van den Berge, S De Decker, E Bonneure, N Poulsen, ...
The ISME journal 15 (2), 562-576, 2021
Distinctive growth and transcriptional changes of the diatom Seminavis robusta in response to quorum sensing related compounds
F Stock, G Bilcke, S De Decker, CM Osuna-Cruz, K Van den Berge, ...
Frontiers in Microbiology 11, 1240, 2020
Neurogenomic profiling reveals distinct gene expression profiles between brain parts that are consistent in Ophthalmotilapia cichlids
S Derycke, L Kéver, K Herten, K Van den Berge, M Van Steenberge, ...
Frontiers in neuroscience 12, 136, 2018
Effect of management and age of ploughed out grass–clover on forage maize yield and residual soil nitrogen
M Cougnon, K Van den Berge, T D'Hose, L Clement, D Reheul
The Journal of Agricultural Science 156 (6), 748-757, 2018
Altering the Sex Pheromone Cyclo (l-Pro-l-Pro) of the Diatom Seminavis robusta towards a Chemical Probe
E Bonneure, A De Baets, S De Decker, K Van den Berge, L Clement, ...
International journal of molecular sciences 22 (3), 1037, 2021
Improving replicability in single-cell RNA-Seq cell type discovery with Dune
HR de Bézieux, K Street, S Fischer, K Van den Berge, R Chance, D Risso, ...
BioRxiv, 2020
Biogeography and macroevolution in the Arctic and Antarctic lacustrine microbiomes
S Maxime, B Tytgat, E Verleyen, K Van den Berge, S D’hondt, D Obbels, ...
Book of Abstracts, 193, 2017
Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression.
HR de Bézieux, K Van den Berge, KN Street, S Dudoit
bioRxiv, 2021
Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects
K Van den Berge, HJ Chou, HR de Bézieux, K Street, D Risso, J Ngai, ...
bioRxiv, 2021
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