Phosphoproteomics identifies microglial Siglec‐F inflammatory response during neurodegeneration

Siglecs as Immune Cell Checkpoints in Disease

(2020) Shiteng Duan et al.   Annual Review of Immunology

Human and mouse single-nucleus transcriptomics reveal TREM2-dependent and TREM2-independent cellular responses in Alzheimer’s disease

(2020) Yingyue Zhou et al.   NATURE MEDICINE

SciPy 1.0: fundamental algorithms for scientific computing in Python

(2020) Pauli Virtanen et al.   NATURE METHODS

Microglial activation arises after aggregation of phosphorylated-tau in a neuron-specific P301S tauopathy mouse model

(2020) Lynn van Olst et al.   NEUROBIOLOGY OF AGING

Deep Multilayer Brain Proteomics Identifies Molecular Networks in Alzheimer’s Disease Progression

(2020) Bing Bai et al.   NEURON

Transcriptional Signatures of Tau and Amyloid Neuropathology

(2020) Isabel Castanho et al.   Cell Reports

Genome-wide meta-analysis identifies new loci and functional pathways influencing Alzheimer’s disease risk

(2019) Iris E. Jansen et al.   NATURE GENETICS

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage

(2019) Dvir Aran et al.   NATURE IMMUNOLOGY

N-terminal degradation activates the NLRP1B inflammasome

(2019) Ashley J. Chui et al.   SCIENCE

Genetic meta-analysis of diagnosed Alzheimer’s disease identifies new risk loci and implicates Aβ, tau, immunity and lipid processing

(2019) Brian W. Kunkle et al.   NATURE GENETICS

The Coming Decade of Cell Death Research: Five Riddles

(2019) Douglas R. Green   CELL

CD22 blockade restores homeostatic microglial phagocytosis in ageing brains

(2019) John V. Pluvinage et al.   NATURE

Targeting PDGFRα-activated Glioblastoma through Specific Inhibition of SHP-2-mediated Signaling

(2019) Youzhou Sang et al.   NEURO-ONCOLOGY

TREM2 Acts Downstream of CD33 in Modulating Microglial Pathology in Alzheimer’s Disease

(2019) Ana Griciuc et al.   NEURON

High‐fat diet in a mouse insulin‐resistant model induces widespread rewiring of the phosphotyrosine signaling network

(2019) Antje Dittmann et al.   Molecular Systems Biology

CLIJ: GPU-accelerated image processing for everyone

(2019) Robert Haase et al.   NATURE METHODS

Mapping microglia states in the human brain through the integration of high-dimensional techniques

(2019) Roman Sankowski et al.   NATURE NEUROSCIENCE

Leveraging Siglec-8 endocytic mechanisms to kill human eosinophils and malignant mast cells

(2018) Jeremy A. O'Sullivan et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

APOE4 Causes Widespread Molecular and Cellular Alterations Associated with Alzheimer’s Disease Phenotypes in Human iPSC-Derived Brain Cell Types

(2018) Yuan-Ta Lin et al.   NEURON

GOATOOLS: A Python library for Gene Ontology analyses

(2018) D. V. Klopfenstein et al.   Scientific Reports

A curated resource for phosphosite-specific signature analysis

(2018) Karsten Krug et al.   MOLECULAR & CELLULAR PROTEOMICS

Development and validation of a simplified method to generate human microglia from pluripotent stem cells

(2018) Amanda McQuade et al.   Molecular Neurodegeneration

A multiomic approach to characterize the temporal sequence in Alzheimer's disease-related pathology

(2018) Mikael Marttinen et al.   NEUROBIOLOGY OF DISEASE

The Alzheimer's disease–protective CD33 splice variant mediates adaptive loss of function via diversion to an intracellular pool

(2017) Shoib S. Siddiqui et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

iPSC-Derived Human Microglia-like Cells to Study Neurological Diseases

(2017) Edsel M. Abud et al.   NEURON

Osteoblasts remotely supply lung tumors with cancer-promoting SiglecFhighneutrophils

(2017) Camilla Engblom et al.   SCIENCE

Temporal Tracking of Microglia Activation in Neurodegeneration at Single-Cell Resolution

(2017) Hansruedi Mathys et al.   Cell Reports

An Aberrant Phosphorylation of Amyloid Precursor Protein Tyrosine Regulates Its Trafficking and the Binding to the Clathrin Endocytic Complex in Neural Stem Cells of Alzheimer's Disease Patients

(2017) Ebbe T. Poulsen et al.   Frontiers in Molecular Neuroscience

Methods for the Analysis of Protein Phosphorylation–Mediated Cellular Signaling Networks

(2016) Forest M. White et al.   Annual Review of Analytical Chemistry

The Cellular Phase of Alzheimer’s Disease

(2016) Bart De Strooper et al.   CELL

Characterization of RNA isolated from eighteen different human tissues: results from a rapid human autopsy program

(2016) Douglas G. Walker et al.   CELL AND TISSUE BANKING

CONSTANd : A Normalization Method for Isobaric Labeled Spectra by Constrained Optimization

(2016) Evelyne Maes et al.   MOLECULAR & CELLULAR PROTEOMICS

Allosteric inhibition of SHP2 phosphatase inhibits cancers driven by receptor tyrosine kinases

(2016) Ying-Nan P. Chen et al.   NATURE

TREM2 variants: new keys to decipher Alzheimer disease pathogenesis

(2016) Marco Colonna et al.   NATURE REVIEWS NEUROSCIENCE

Purification and Characterization of Progenitor and Mature Human Astrocytes Reveals Transcriptional and Functional Differences with Mouse

(2016) Ye Zhang et al.   NEURON

Early signaling dynamics of the epidermal growth factor receptor

(2016) Raven J. Reddy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gain-of-function mutations in protein kinase Cα (PKCα) may promote synaptic defects in Alzheimer’s disease

(2016) Stephanie I. Alfonso et al.   Science Signaling

Altered protein phosphorylation as a resource for potential AD biomarkers

(2016) Ana Gabriela Henriques et al.   Scientific Reports

Gain-of-function mutations in protein kinase Cα (PKCα) may promote synaptic defects in Alzheimer’s disease

(2016) Stephanie I. Alfonso et al.   Science Signaling

Elucidation of Signaling Pathways from Large-Scale Phosphoproteomic Data Using Protein Interaction Networks

(2016) Jan Daniel Rudolph et al.   Cell Systems

The dual roles of cytokines in Alzheimer’s disease: update on interleukins, TNF-α, TGF-β and IFN-γ

(2016) Cong Zheng et al.   Translational Neurodegeneration

The suitability of BV2 cells as alternative model system for primary microglia cultures or for animal experiments examining brain inflammation

(2016) Anja Henn   ALTEX-Alternatives to Animal Experimentation

Phosphoproteomics in the Age of Rapid and Deep Proteome Profiling

(2015) Nicholas M. Riley et al.   ANALYTICAL CHEMISTRY

Alzheimer’s Disease Risk Genes and Mechanisms of Disease Pathogenesis

(2015) Celeste M. Karch et al.   BIOLOGICAL PSYCHIATRY

Phosphotyrosine Signaling Analysis in Human Tumors Is Confounded by Systemic Ischemia-Driven Artifacts and Intra-Specimen Heterogeneity

(2015) A. S. Gajadhar et al.   CANCER RESEARCH

Endogenous airway mucins carry glycans that bind Siglec-F and induce eosinophil apoptosis

(2015) Takumi Kiwamoto et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

The JAK/STAT3 Pathway Is a Common Inducer of Astrocyte Reactivity in Alzheimer's and Huntington's Diseases

(2015) L. Ben Haim et al.   JOURNAL OF NEUROSCIENCE

A Comprehensive Immunoreceptor Phosphotyrosine-based Signaling Network Revealed by Reciprocal Protein–Peptide Array Screening

(2015) Huadong Liu et al.   MOLECULAR & CELLULAR PROTEOMICS

Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer’s disease

(2015) Elizabeta Gjoneska et al.   NATURE

CD33 modulates TREM2: convergence of Alzheimer loci

(2015) Gail Chan et al.   NATURE NEUROSCIENCE

Calcium/calmodulin-dependent kinase II and Alzheimer’s disease

(2015) Anshua Ghosh et al.   Molecular Brain

Identification of neurotoxic cytokines by profiling Alzheimer’s disease tissues and neuron culture viability screening

(2015) Levi B. Wood et al.   Scientific Reports

Activity-Dependent p25 Generation Regulates Synaptic Plasticity and Aβ-Induced Cognitive Impairment

(2014) Jinsoo Seo et al.   CELL

Impaired Src signaling and post-synaptic actin polymerization in Alzheimer's disease mice hippocampus — Linking NMDA receptors and the reelin pathway

(2014) Sandra I. Mota et al.   EXPERIMENTAL NEUROLOGY

Associations of genetic polymorphisms of Siglecs with human diseases

(2014) Takashi Angata   GLYCOBIOLOGY

Comprehensive phosphoproteome analysis unravels the core signaling network that initiates the earliest synapse pathology in preclinical Alzheimer's disease brain

(2014) Kazuhiko Tagawa et al.   HUMAN MOLECULAR GENETICS

An RNA-Sequencing Transcriptome and Splicing Database of Glia, Neurons, and Vascular Cells of the Cerebral Cortex

(2014) Y. Zhang et al.   JOURNAL OF NEUROSCIENCE

A three-dimensional human neural cell culture model of Alzheimer’s disease

(2014) Se Hoon Choi et al.   NATURE

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

Quantitative phosphoproteomics of Alzheimer's disease reveals cross-talk between kinases and small heat shock proteins

(2014) Eric B. Dammer et al.   PROTEOMICS

De-regulation of gene expression and alternative splicing affects distinct cellular pathways in the aging hippocampus

(2014) Roman M. Stilling et al.   Frontiers in Cellular Neuroscience

Prominent role of IFN-γ in patients with aspirin-exacerbated respiratory disease

(2013) John W. Steinke et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

An Unbiased Approach to Identifying Tau Kinases That Phosphorylate Tau at Sites Associated with Alzheimer Disease

(2013) Annalisa Cavallini et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Computer aided manual validation of mass spectrometry-based proteomic data

(2013) Timothy G. Curran et al.   METHODS

Meta-analysis of 74,046 individuals identifies 11 new susceptibility loci for Alzheimer's disease

(2013) Jean-Charles Lambert et al.   NATURE GENETICS

pLogo: a probabilistic approach to visualizing sequence motifs

(2013) Joseph P O'Shea et al.   NATURE METHODS

CD33 Alzheimer's disease locus: altered monocyte function and amyloid biology

(2013) Elizabeth M Bradshaw et al.   NATURE NEUROSCIENCE

Identification of a unique TGF-β–dependent molecular and functional signature in microglia

(2013) Oleg Butovsky et al.   NATURE NEUROSCIENCE

Alzheimer’s Disease Risk Gene CD33 Inhibits Microglial Uptake of Amyloid Beta

(2013) Ana Griciuc et al.   NEURON

Molecular Characterization of EGFR and EGFRvIII Signaling Networks in Human Glioblastoma Tumor Xenografts

(2012) Hannah Johnson et al.   MOLECULAR & CELLULAR PROTEOMICS

Siglec-8 as a drugable target to treat eosinophil and mast cell-associated conditions

(2012) Takumi Kiwamoto et al.   PHARMACOLOGY & THERAPEUTICS

Toward quantitative phosphotyrosine profiling in vivo

(2012) Hannah Johnson et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Quantitative phosphoproteomics to characterize signaling networks

(2012) Kristoffer T.G. Rigbolt et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

The NumPy Array: A Structure for Efficient Numerical Computation

(2011) Stéfan van der Walt et al.   COMPUTING IN SCIENCE & ENGINEERING

Common variants at MS4A4/MS4A6E, CD2AP, CD33 and EPHA1 are associated with late-onset Alzheimer's disease

(2011) Adam C Naj et al.   NATURE GENETICS

The pINDUCER lentiviral toolkit for inducible RNA interference in vitro and in vivo

(2011) Kristen L. Meerbrey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Postmortem interval effect on RNA and gene expression in human brain tissue

(2010) Alex C. Birdsill et al.   CELL AND TISSUE BANKING

Polymorphisms in the sialic acid-binding immunoglobulin-like lectin-8 (Siglec-8) gene are associated with susceptibility to asthma

(2010) Pei-Song Gao et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Discovery of CP-690,550: A Potent and Selective Janus Kinase (JAK) Inhibitor for the Treatment of Autoimmune Diseases and Organ Transplant Rejection

(2010) Mark E. Flanagan et al.   JOURNAL OF MEDICINAL CHEMISTRY

Interferon-γ Differentially Affects Alzheimer’s Disease Pathologies and Induces Neurogenesis in Triple Transgenic-AD Mice

(2009) Michael A. Mastrangelo et al.   AMERICAN JOURNAL OF PATHOLOGY

Siglec-F antibody administration to mice selectively reduces blood and tissue eosinophils

(2008) N. Zimmermann et al.   ALLERGY

Killing of macrophages by anthrax lethal toxin: involvement of the N-end rule pathway

(2008) Katherine E. Wickliffe et al.   CELLULAR MICROBIOLOGY

An integrated comparative phosphoproteomic and bioinformatic approach reveals a novel class of MPM-2 motifs upregulated in EGFRvIII-expressing glioblastoma cells

(2008) Brian A. Joughin et al.   Molecular BioSystems

Gene expression changes in the course of normal brain aging are sexually dimorphic

(2008) N. C. Berchtold et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA