Wouter Saelens

发表

Computational methods for trajectory inference from single‐cell transcriptomics

Y. Saeys, Robrecht Cannoodt, Wouter Saelens, 2016, European journal of immunology.

Variational Inference compared to Markov Chain Monte Carlo for modelling gene expression

T. Goel, T. Bitsakis, Siddhartha Jain, 2020 .

SCORPIUS improves trajectory inference and identifies novel modules in dendritic cell development

Y. Saeys, B. Lambrecht, Robrecht Cannoodt, 2016, bioRxiv.

Trajectory-based differential expression analysis for single-cell sequencing data

Hector Roux de Bézieux, S. Dudoit, Y. Saeys, 2019, Nature Communications.

NicheNet: modeling intercellular communication by linking ligands to target genes

Y. Saeys, Wouter Saelens, Robin Browaeys, 2019, Nature Methods.

Deterministic scRNA-seq of individual intestinal organoids reveals new subtypes and coexisting distinct stem cell pools

Y. Saeys, B. Deplancke, M. Claassen, 2020 .

Yolk Sac Macrophages, Fetal Liver, and Adult Monocytes Can Colonize an Empty Niche and Develop into Functional Tissue-Resident Macrophages.

Y. Saeys, B. Lambrecht, Wouter Saelens, 2016, Immunity.

Live-seq enables temporal transcriptomic recording of single cells

B. Deplancke, J. Vorholt, V. Gardeux, 2022, Nature.

Br Ief Definitive Repor T the Transcription Factor Zeb2 Regulates Development of Conventional and Plasmacytoid Dcs by Repressing Id2 Unit of Molecular and Cellular Oncology, And

Y. Saeys, B. Lambrecht, G. Berx, 2022 .

Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-1 Seq of Drosophila testes 2 3

H. Krause, T. Przytycka, B. Oliver, 2022 .

Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes

H. Krause, T. Przytycka, B. Oliver, 2023, bioRxiv.

Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly

Daniel A. Sutton, Stephen L. Holtz, A. M. Allen, 2022, Science.

The Transcription Factor ZEB2 Is Required to Maintain the Tissue-Specific Identities of Macrophages

Y. Saeys, B. Lambrecht, P. Vandenabeele, 2018, Immunity.

Network Inference from Single-Cell Transcriptomic Data.

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2018, Methods in molecular biology.

A comparison of single-cell trajectory inference methods: towards more accurate and robust tools

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2018, bioRxiv.

A scalable SCENIC workflow for single-cell gene regulatory network analysis

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2020, Nature Protocols.

Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition

Y. Saeys, B. Deplancke, M. Claassen, 2022, Nature Methods.

A comparison of single-cell trajectory inference methods

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2019, Nature Biotechnology.

Essential guidelines for computational method benchmarking

A. Boulesteix, Y. Saeys, M. Robinson, 2018, Genome biology.

TinGa: fast and flexible trajectory inference with Growing Neural Gas

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2020, Bioinform..

Spearheading future omics analyses using dyngen, a multi-modal simulator of single cells

Y. Saeys, Robrecht Cannoodt, Wouter Saelens, 2021, Nature Communications.

Fly Cell Atlas: a single-cell transcriptomic atlas of the adult fruit fly

A. M. Allen, Robert C. Jones, J. Leskovec, 2021, bioRxiv.

Spatial proteogenomics reveals distinct and evolutionarily-conserved hepatic macrophage niches

Y. Saeys, B. Deplancke, H. Van Vlierberghe, 2021, bioRxiv.

A scalable SCENIC workflow for single-cell gene regulatory network analysis

Y. Saeys, S. Aerts, R. Seurinck, 2020, Nature Protocols.

A comprehensive evaluation of module detection methods for gene expression data

Y. Saeys, Robrecht Cannoodt, Wouter Saelens, 2018, Nature Communications.

A comprehensive evaluation of module detection methods for gene expression data

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2018, Nature Communications.

Essential guidelines for computational method benchmarking

Yvan Saeys, Anne-Laure Boulesteix, Robrecht Cannoodt, 2018, Genome Biology.

CD8 memory precursor cell generation is a continuous process

Y. Saeys, Robrecht Cannoodt, Wouter Saelens, 2022, bioRxiv.

Recent advances in trajectory inference from single-cell omics data

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2021 .

dyngen: a multi-modal simulator for spearheading new single-cell omics analyses

Yvan Saeys, Robrecht Cannoodt, Wouter Saelens, 2020, bioRxiv.

Improving regulatory network inference based on single-cell pseudotime data

Y. Saeys, Robrecht Cannoodt, Wouter Saelens, 2017 .

A human omentum-specific mesothelial-like stromal population inhibits adipogenesis through IGFBP2 secretion

B. Deplancke, Daniel Alpern, V. Gardeux, 2023, bioRxiv.

ChromatinHD connects single-cell DNA accessibility and conformation to gene expression through scale-adaptive machine learning

B. Deplancke, Wouter Saelens, Olga Pushkarev, 2023, bioRxiv.

Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches

Y. Saeys, B. Deplancke, H. Van Vlierberghe, 2022, Cell.

Non-coding variants impact cis-regulatory coordination in a cell type-specific manner

B. Deplancke, V. Gardeux, Wouter Saelens, 2023, bioRxiv.

CD8 memory precursor cell generation is a continuous process

Y. Saeys, Robrecht Cannoodt, Wouter Saelens, 2022, iScience.

SPArrOW: a flexible, interactive and scalable pipeline for spatial transcriptomics analysis

R. Seurinck, J. Marine, Wouter Saelens, 2024, bioRxiv.