VIB-UGent Center for Inflammation Research

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Title DOI
https://doi.org/10.1038/s41418-017-0012-4 Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018
https://doi.org/10.1016/j.ccell.2019.04.002 Targeting Ferroptosis to Iron Out Cancer
https://doi.org/10.1038/nrc3447 Regulatory networks defining EMT during cancer initiation and progression
https://doi.org/10.1038/s41422-019-0164-5 The molecular machinery of regulated cell death
https://doi.org/10.1038/nrm2970 Molecular mechanisms of necroptosis: an ordered cellular explosion
https://doi.org/10.1038/s41580-020-0237-9 Guidelines and definitions for research on epithelial–mesenchymal transition
https://doi.org/10.1038/s41592-019-0667-5 NicheNet: modeling intercellular communication by linking ligands to target genes
https://doi.org/10.1038/nature14191 Necroptosis and its role in inflammation
https://doi.org/10.1002/cyto.a.22625 FlowSOM: Using self‐organizing maps for visualization and interpretation of cytometry data
https://doi.org/10.1016/j.immuni.2016.02.024 Tissue-Resident Macrophage Ontogeny and Homeostasis
https://doi.org/10.1038/s41587-019-0071-9 A comparison of single-cell trajectory inference methods
https://doi.org/10.1038/nrm3737 Regulated necrosis: the expanding network of non-apoptotic cell death pathways
https://doi.org/10.1038/ni.3049 The immunology of asthma
https://doi.org/10.1038/s41596-020-0336-2 A scalable SCENIC workflow for single-cell gene regulatory network analysis
https://doi.org/10.1007/s00018-008-8281-1 The cell-cell adhesion molecule E-cadherin
https://doi.org/10.1038/s41586-019-0924-x Spatial and temporal heterogeneity of mouse and human microglia at single-cell resolution
https://doi.org/10.1038/nmeth.4185 EV-TRACK: transparent reporting and centralizing knowledge in extracellular vesicle research
https://doi.org/10.1084/jem.20131199 Alveolar macrophages develop from fetal monocytes that differentiate into long-lived cells in the first week of life via GM-CSF
https://doi.org/10.1038/s41586-019-1770-6 Caspase-8 is the molecular switch for apoptosis, necroptosis and pyroptosis
https://doi.org/10.1038/s41593-019-0393-4 A single-cell atlas of mouse brain macrophages reveals unique transcriptional identities shaped by ontogeny and tissue environment
https://doi.org/10.1136/jitc-2019-000337 Consensus guidelines for the definition, detection and interpretation of immunogenic cell death
https://doi.org/10.1016/j.cell.2021.02.016 The basic immunology of asthma
https://doi.org/10.1038/cdd.2014.137 Essential versus accessory aspects of cell death: recommendations of the NCCD 2015
https://doi.org/10.1016/j.immuni.2019.03.018 The Cytokines of Asthma
https://doi.org/10.1002/eji.201970107 Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition)
https://doi.org/10.1136/annrheumdis-2020-217159 EULAR recommendations for the management of psoriatic arthritis with pharmacological therapies: 2019 update
https://doi.org/10.1016/j.immuni.2018.10.005 Developmental and Functional Heterogeneity of Monocytes
https://doi.org/10.1038/nm.2737 The airway epithelium in asthma
https://doi.org/10.1016/j.cell.2021.12.018 Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
https://doi.org/10.1136/ard-2022-223296 ASAS-EULAR recommendations for the management of axial spondyloarthritis: 2022 update
https://doi.org/10.1038/ncomms10321 Bone marrow-derived monocytes give rise to self-renewing and fully differentiated Kupffer cells
https://doi.org/10.1038/s41422-020-0355-0 A pan-cancer blueprint of the heterogeneous tumor microenvironment revealed by single-cell profiling
https://doi.org/10.1210/er.2018-00064 Molecular Actions of PPARα in Lipid Metabolism and Inflammation
https://doi.org/10.1016/j.immuni.2015.07.007 Barrier Epithelial Cells and the Control of Type 2 Immunity
https://doi.org/10.1038/s41467-020-14766-3 Trajectory-based differential expression analysis for single-cell sequencing data
https://doi.org/10.1038/s41577-022-00792-3 Death by TNF: a road to inflammation
https://doi.org/10.1038/nrd4390 Is there new hope for therapeutic matrix metalloproteinase inhibition?
https://doi.org/10.4161/21624011.2014.955691 Consensus guidelines for the detection of immunogenic cell death
https://doi.org/10.1016/j.celrep.2014.04.026 MLKL Compromises Plasma Membrane Integrity by Binding to Phosphatidylinositol Phosphates
https://doi.org/10.1016/j.immuni.2016.08.015 Unsupervised High-Dimensional Analysis Aligns Dendritic Cells across Tissues and Species
https://doi.org/10.1038/emboj.2011.497 A novel pathway combining calreticulin exposure and ATP secretion in immunogenic cancer cell death
https://doi.org/10.1038/ni.3772 Limiting inflammation—the negative regulation of NF-κB and the NLRP3 inflammasome
https://doi.org/10.15252/emmm.201810248 Inflammasomes in neuroinflammatory and neurodegenerative diseases
https://doi.org/10.3389/fimmu.2018.02379 Pattern Recognition Receptors and the Host Cell Death Molecular Machinery
https://doi.org/10.1126/science.aay3224 A cell atlas of human thymic development defines T cell repertoire formation
https://doi.org/10.1038/cdd.2009.44 Guidelines for the use and interpretation of assays for monitoring cell death in higher eukaryotes
https://doi.org/10.1038/s41593-020-00789-y Single-cell profiling of myeloid cells in glioblastoma across species and disease stage reveals macrophage competition and specialization
https://doi.org/10.1016/j.cub.2016.02.019 Pyroptosis
https://doi.org/10.1016/j.immuni.2016.02.017 Yolk Sac Macrophages, Fetal Liver, and Adult Monocytes Can Colonize an Empty Niche and Develop into Functional Tissue-Resident Macrophages
https://doi.org/10.1172/jci99032 Nano-targeted induction of dual ferroptotic mechanisms eradicates high-risk neuroblastoma
https://doi.org/10.1038/nri3582 The function of Fcγ receptors in dendritic cells and macrophages
https://doi.org/10.1038/cdd.2011.1 Dying for a cause: NETosis, mechanisms behind an antimicrobial cell death modality
https://doi.org/10.1016/j.immuni.2019.08.017 Stellate Cells, Hepatocytes, and Endothelial Cells Imprint the Kupffer Cell Identity on Monocytes Colonizing the Liver Macrophage Niche
https://doi.org/10.1038/ncomms5767 Genome dynamics of the human embryonic kidney 293 lineage in response to cell biology manipulations
https://doi.org/10.3389/fimmu.2019.01545 A General Introduction to Glucocorticoid Biology
https://doi.org/10.1186/s12931-020-01462-5 The pathophysiology of ‘happy’ hypoxemia in COVID-19
https://doi.org/10.1126/science.aac6623 Farm dust and endotoxin protect against allergy through A20 induction in lung epithelial cells
https://doi.org/10.1016/s1097-2765(03)00053-4 Functional Diversity and Regulation of Different Interleukin-1 Receptor-Associated Kinase (IRAK) Family Members
https://doi.org/10.1016/j.cell.2018.07.048 Self-Maintaining Gut Macrophages Are Essential for Intestinal Homeostasis
https://doi.org/10.1038/cdd.2017.65 Initiation and execution mechanisms of necroptosis: an overview
https://doi.org/10.1016/j.immuni.2020.08.004 Osteopontin Expression Identifies a Subset of Recruited Macrophages Distinct from Kupffer Cells in the Fatty Liver
https://doi.org/10.1016/j.immuni.2022.08.010 Biology of lung macrophages in health and disease
https://doi.org/10.1038/s41586-022-04654-9 Design of protein-binding proteins from the target structure alone
https://doi.org/10.1038/ncomms11852 Long-lived self-renewing bone marrow-derived macrophages displace embryo-derived cells to inhabit adult serous cavities
https://doi.org/10.1016/j.it.2013.10.005 A20 in inflammation and autoimmunity
https://doi.org/10.1126/sciimmunol.aan2946 An immune clock of human pregnancy
https://doi.org/10.1038/nri.2016.56 Computational flow cytometry: helping to make sense of high-dimensional immunology data
https://doi.org/10.1038/s41586-020-2121-3 Metabolites released from apoptotic cells act as tissue messengers
https://doi.org/10.1016/s0140-6736(22)01692-0 Systemic sclerosis
https://doi.org/10.1016/j.bbamcr.2013.06.010 Cell death by cornification
https://doi.org/10.1038/nrrheum.2017.188 Enthesitis: from pathophysiology to treatment
https://doi.org/10.1016/j.immuni.2015.06.003 Proteolytic Processing of Interleukin-1 Family Cytokines: Variations on a Common Theme
https://doi.org/10.1007/s00018-008-8465-8 The role of the ZEB family of transcription factors in development and disease
https://doi.org/10.1038/s41586-019-0904-1 Evidence for an alternative fatty acid desaturation pathway increasing cancer plasticity
https://doi.org/10.1038/nrc3647 Beyond E-cadherin: roles of other cadherin superfamily members in cancer
https://doi.org/10.1016/j.drudis.2016.04.003 Nanobodies as therapeutics: big opportunities for small antibodies
https://doi.org/10.1016/j.immuni.2020.02.015 Establishment and Maintenance of the Macrophage Niche
https://doi.org/10.15252/embj.201797858 Attenuation of c GASSTING signaling is mediated by a p62/ SQSTM 1‐dependent autophagy pathway activated by TBK1
https://doi.org/10.1038/cr.2011.152 Autophagy: for better or for worse
https://doi.org/10.1136/jitc-2020-001369 Vaccination with early ferroptotic cancer cells induces efficient antitumor immunity
https://doi.org/10.1172/jci81108 Endothelial LRP1 transports amyloid-β1–42 across the blood-brain barrier
https://doi.org/10.1016/j.celrep.2016.03.037 Vaccination with Necroptotic Cancer Cells Induces Efficient Anti-tumor Immunity
https://doi.org/10.1007/s00018-008-8064-8 TLR-4, IL-1R and TNF-R signaling to NF-κB: variations on a common theme
https://doi.org/10.1016/j.molcel.2015.07.032 NF-κB-Independent Role of IKKα/IKKβ in Preventing RIPK1 Kinase-Dependent Apoptotic and Necroptotic Cell Death during TNF Signaling
https://doi.org/10.1038/s41418-018-0261-x To NET or not to NET:current opinions and state of the science regarding the formation of neutrophil extracellular traps
https://doi.org/10.1016/j.cellimm.2018.01.020 Macrophages and lipid metabolism
https://doi.org/10.1038/cdd.2011.164 Many stimuli pull the necrotic trigger, an overview
https://doi.org/10.1016/j.immuni.2020.04.005 Inflammatory Type 2 cDCs Acquire Features of cDC1s and Macrophages to Orchestrate Immunity to Respiratory Virus Infection
https://doi.org/10.1038/nri.2017.42 Does niche competition determine the origin of tissue-resident macrophages?
https://doi.org/10.1038/ni.3829 The immunology of the allergy epidemic and the hygiene hypothesis
https://doi.org/10.1016/s0140-6736(18)31115-2 Safety and efficacy of upadacitinib in patients with rheumatoid arthritis and inadequate response to conventional synthetic disease-modifying anti-rheumatic drugs (SELECT-NEXT): a randomised, double-blind, placebo-controlled phase 3 trial
https://doi.org/10.3389/fimmu.2015.00588 Molecular and Translational Classifications of DAMPs in Immunogenic Cell Death
https://doi.org/10.1038/s41573-022-00470-y Drugging the efferocytosis process: concepts and opportunities
https://doi.org/10.1038/s41418-018-0106-7 Single-cell analysis of pyroptosis dynamics reveals conserved GSDMD-mediated subcellular events that precede plasma membrane rupture
https://doi.org/10.1016/j.immuni.2019.04.018 Living on the Edge: Efferocytosis at the Interface of Homeostasis and Pathology
https://doi.org/10.1093/femsre/fuv036 Heterogeneity of the gut microbiome in mice: guidelines for optimizing experimental design
https://doi.org/10.1016/j.jaci.2020.09.010 Coronavirus disease 2019 in patients with inborn errors of immunity: An international study
https://doi.org/10.1080/1744666x.2019.1614915 Pathophysiology of systemic sclerosis: current understanding and new insights
https://doi.org/10.1038/s41467-018-03424-4 A comprehensive evaluation of module detection methods for gene expression data
https://doi.org/10.1016/j.immuni.2022.08.002 Liver macrophages in health and disease