Yvan Saeys

Research interests

Publications

• Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches

  Cell · 2022 · https://doi.org/10.1016/j.cell.2021.12.018

• Single-cell profiling of myeloid cells in glioblastoma across species and disease stage reveals macrophage competition and specialization

  Nature Neuroscience · 2021 · https://doi.org/10.1038/s41593-020-00789-y

• Osteopontin Expression Identifies a Subset of Recruited Macrophages Distinct from Kupffer Cells in the Fatty Liver

  Immunity · 2020 · 10.1016/j.immuni.2020.08.004

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

  Nature Protocols · 2020 · https://doi.org/10.1038/s41596-020-0336-2

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

  Nature Communications · 2020 · https://doi.org/10.1038/s41467-020-14766-3

• A cell atlas of human thymic development defines T cell repertoire formation

  Science · 2020 · 10.1126/science.aay3224

• Vascular transcription factors guide plant epidermal responses to limiting phosphate conditions

  Science · 2020 · 10.1126/science.aay4970

• Inflammatory Type 2 cDCs Acquire Features of cDC1s and Macrophages to Orchestrate Immunity to Respiratory Virus Infection

  Immunity · 2020 · 10.1016/j.immuni.2020.04.005

• NicheNet: modeling intercellular communication by linking ligands to target genes

  Nature Methods · 2019 · https://doi.org/10.1038/s41592-019-0667-5

• A comparison of single-cell trajectory inference methods

  Nature Biotechnology · 2019 · https://doi.org/10.1038/s41587-019-0071-9

• Stellate Cells, Hepatocytes, and Endothelial Cells Imprint the Kupffer Cell Identity on Monocytes Colonizing the Liver Macrophage Niche

  Immunity · 2019 · 10.1016/j.immuni.2019.08.017

• A single-cell atlas of mouse brain macrophages reveals unique transcriptional identities shaped by ontogeny and tissue environment

  Nature Neuroscience · 2019 · 10.1038/s41593-019-0393-4

• RORγt inhibition selectively targets IL-17 producing iNKT and γδ-T cells enriched in Spondyloarthritis patients

  Nature Communications · 2018 · 10.1038/s41467-018-07911-6

• A comprehensive evaluation of module detection methods for gene expression data

  Nature Communications · 2018 · 10.1038/s41467-018-03424-4

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

  Immunity · 2016 · 10.1016/j.immuni.2016.02.017

• Bone marrow-derived monocytes give rise to self-renewing and fully differentiated Kupffer cells

  Nature Communications · 2016 · 10.1038/ncomms10321

• Computational flow cytometry: helping to make sense of high-dimensional immunology data

  Nature reviews. Immunology · 2016 · 10.1038/nri.2016.56

• Unsupervised High-Dimensional Analysis Aligns Dendritic Cells across Tissues and Species

  Immunity · 2016 · 10.1016/j.immuni.2016.08.015

• IRF8 Transcription Factor Controls Survival and Function of Terminally Differentiated Conventional and Plasmacytoid Dendritic Cells, Respectively

  Immunity · 2016 · 10.1016/j.immuni.2016.08.013

• FlowSOM: Using self‐organizing maps for visualization and interpretation of cytometry data

  Cytometry Part A · 2015 · https://doi.org/10.1002/cyto.a.22625

• The function of Fcγ receptors in dendritic cells and macrophages

  Nature reviews. Immunology · 2014 · 10.1038/nri3582

• Robust biomarker identification for cancer diagnosis with ensemble feature selection methods

  Bioinformatics · 2009 · 10.1093/bioinformatics/btp630

• Robust Feature Selection Using Ensemble Feature Selection Techniques

  Lecture notes in computer science · 2008 · 10.1007/978-3-540-87481-2_21

• A review of feature selection techniques in bioinformatics

  Bioinformatics · 2007 · https://doi.org/10.1093/bioinformatics/btm344

• Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features

  Proceedings of the National Academy of Sciences · 2006 · 10.1073/pnas.0604795103

Current projects

No projects listed.