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Author Details

Amber M Smith
University of California san francisco
2006
71
41
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36805129Computational pipeline provides mechanistic understanding of Omicron variant of concern neutralizing engineered ACE2 receptor traps.Structure2023
35262077Time-Dependent Increase in Susceptibility and Severity of Secondary Bacterial Infection during SARS-CoV-2 Infection.bioRxiv2022
35982665Computational pipeline provides mechanistic understanding of Omicron variant of concern neutralizing engineered ACE2 receptor traps.bioRxiv2022
33442689COVID-19 virtual patient cohort reveals immune mechanisms driving disease outcomes.bioRxiv2021
33907743Sentinel cells enable genetic detection of SARS-CoV-2 Spike protein.bioRxiv2021
33875471Dynamic Pneumococcal Genetic Adaptations Support Bacterial Growth and Inflammation during Coinfection with Influenza.Infect Immun2021
34383757Quantifying dose-, strain-, and tissue-specific kinetics of parainfluenza virus infection.PLoS Comput Biol2021
34602490Mitochondrial Fusion Suppresses Tau Pathology-Induced Neurodegeneration and Cognitive Decline.J Alzheimers Dis2021
34720999Curcumin Reduced H<sub>2</sub>O<sub>2</sub>- and G2385R-LRRK2-Induced Neurodegeneration.Front Aging Neurosci2021
34013269CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.bioRxiv2021
34031651CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.Res Sq2021
34260666COVID-19 virtual patient cohort suggests immune mechanisms driving disease outcomes.PLoS Pathog2021
34282728Dynamically linking influenza virus infection kinetics, lung injury, inflammation, and disease severity.Elife2021
32268090TBK1 and IKKε Act Redundantly to Mediate STING-Induced NF-κB Responses in Myeloid Cells.Cell Rep2020
33060197Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.Science2020
33154106An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike.Science2020
32823684Extracellular Vesicles in Viral Replication and Pathogenesis and Their Potential Role in Therapeutic Intervention.Viruses2020
32989410Leveraging Computational Modeling to Understand Infectious Diseases.Curr Pathobiol Rep2020
32817938An ultra-potent synthetic nanobody neutralizes SARS-CoV-2 by locking Spike into an inactive conformation.bioRxiv2020
30463976A Human Gain-of-Function STING Mutation Causes Immunodeficiency and Gammaherpesvirus-Induced Pulmonary Fibrosis in Mice.J Virol2019
30794604Enhanced IL-1β production is mediated by a TLR2-MYD88-NLRP3 signaling axis during coinfection with influenza A virus and Streptococcus pneumoniae.PLoS One2019
29148920The Unexpected Impact of Vaccines on Secondary Bacterial Infections Following Influenza.Viral Immunol2018
31723715Validated Models of Immune Response to Virus Infection.Curr Opin Syst Biol2018
30134202Memory CD8<sup>+</sup> T Cells Use Cell-Intrinsic Lipolysis to Support the Metabolic Programming Necessary for Development.Immunity2018
30129197Host-pathogen kinetics during influenza infection and coinfection: insights from predictive modeling.Immunol Rev2018
30042759Influenza Virus Infection Model With Density Dependence Supports Biphasic Viral Decay.Front Microbiol2018
29386359Zika virus-related neurotropic flaviviruses infect human placental explants and cause fetal demise in mice.Sci Transl Med2018
29304101Fab-based inhibitors reveal ubiquitin independent functions for HIV Vif neutralization of APOBEC3 restriction factors.PLoS Pathog2018
27679506Quantifying the therapeutic requirements and potential for combination therapy to prevent bacterial coinfection during influenza.J Pharmacokinet Pharmacodyn2017
28148840Therapy with CTLA4-Ig and an antiviral monoclonal antibody controls chikungunya virus arthritis.Sci Transl Med2017
28951494STING-associated vasculopathy develops independently of IRF3 in mice.J Exp Med2017
28910635Gestational Stage and IFN-λ Signaling Regulate ZIKV Infection In Utero.Cell Host Microbe2017
27903651T Cells Encountering Myeloid Cells Programmed for Amino Acid-dependent Immunosuppression Use Rictor/mTORC2 Protein for Proliferative Checkpoint Decisions.J Biol Chem2017
26712805Migratory CD103+ dendritic cells suppress helminth-driven type 2 immunity through constitutive expression of IL-12.J Exp Med2016
27880901Stress Kinase GCN2 Controls the Proliferative Fitness and Trafficking of Cytotoxic T Cells Independent of Environmental Amino Acid Sensing.Cell Rep2016
27612415Zika Virus Infection in Mice Causes Panuveitis with Shedding of Virus in Tears.Cell Rep2016
27760338Metabolic Reprogramming Mediated by the mTORC2-IRF4 Signaling Axis Is Essential for Macrophage Alternative Activation.Immunity2016
27974820A Critical, Nonlinear Threshold Dictates Bacterial Invasion and Initial Kinetics During Influenza.Sci Rep2016
27685368Oligomeric viral proteins: small in size, large in presence.Crit Rev Biochem Mol Biol2016
27332732Type 1 Interferons Induce Changes in Core Metabolism that Are Critical for Immune Function.Immunity2016
27180225Zika Virus Infection during Pregnancy in Mice Causes Placental Damage and Fetal Demise.Cell2016
27066744A Mouse Model of Zika Virus Pathogenesis.Cell Host Microbe2016
25712216IL-4-secreting secondary T follicular helper (Tfh) cells arise from memory T cells, not persisting Tfh cells, through a B cell-dependent mechanism.J Immunol2015
26365184TNF Counterbalances the Emergence of M2 Tumor Macrophages.Cell Rep2015
24562310TLR-driven early glycolytic reprogramming via the kinases TBK1-IKKÉ¿ supports the anabolic demands of dendritic cell activation.Nat Immunol2014
25500368Myeloid-derived suppressor activity is mediated by monocytic lineages maintained by continuous inhibition of extrinsic and intrinsic death pathways.Immunity2014
25001241Memory CD8(+) T cells use cell-intrinsic lipolysis to support the metabolic programming necessary for development.Immunity2014
25027822Secondary bacterial infections in influenza virus infection pathogenesis.Curr Top Microbiol Immunol2014
25086775Cell-intrinsic lysosomal lipolysis is essential for alternative activation of macrophages.Nat Immunol2014
25144366Ly6Chi monocyte recruitment is responsible for Th2 associated host-protective macrophage accumulation in liver inflammation due to schistosomiasis.PLoS Pathog2014
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Collaborators

University of California san francisco
Co-authored papers 7
Boehringer Ingelheim Pharma GmbH & Co. KG
Co-authored papers 7
University of California san francisco
Co-authored papers 7
University of California san francisco
Co-authored papers 7
University of California san francisco
Co-authored papers 7
University of California san francisco
Co-authored papers 7
Washington University School of Medicine
Co-authored papers 6
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 6
Washington University School of Medicine
Co-authored papers 6
University of California San Francisco
Co-authored papers 6
Department of Pharmaceutical Chemistry, University of California San Francisco
Co-authored papers 5
University of California san francisco
Co-authored papers 5
J. David Gladstone Institutes
Co-authored papers 5
University of California, University of California San Francisco
Co-authored papers 5
Henan Normal University
Co-authored papers 5
Cardiovascular Research Institute, University of California San Francisco
Co-authored papers 5
University of California san francisco
Co-authored papers 5
University of California san francisco
Co-authored papers 5
Department of Pharmaceutical Chemistry, University of California-San Francisco
Co-authored papers 5
University of California san francisco
Co-authored papers 5
University of California san francisco
Co-authored papers 5
Fred Hutchinson Cancer Center
Co-authored papers 5
University of California San Francisco (UCSF) School of Medicine
Co-authored papers 5
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 5
Shanghai Clinical Research and Trial Center
Co-authored papers 5
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 4
Quantitative Bioscience Institute, University of California san francisco
Co-authored papers 4
Fred Hutchinson Cancer Center
Co-authored papers 4
St. Jude Children's Research Hospital
Co-authored papers 4
The Francis Crick Institute
Co-authored papers 4