A hybrid discrete-continuum model of immune responses to SARS-CoV-2 infection in the lung alveolar region, with a focus on interferon induced innate response

SARS-CoV-2 Omicron variant replication in human bronchus and lung ex vivo

(2022) Kenrie P. Y. Hui et al.   NATURE

Modeling insights into SARS-CoV-2 respiratory tract infections prior to immune protection

(2022) Alexander Chen et al.   BIOPHYSICAL JOURNAL

Natural killer cell‐mediated ADCC in SARS‐CoV‐2‐infected individuals and vaccine recipients

(2022) Kerri Hagemann et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Omicron: What Makes the Latest SARS-CoV-2 Variant of Concern So Concerning?

(2022) Christoph Jung et al.   JOURNAL OF VIROLOGY

SARS-CoV-2 pathogenesis

(2022) Mart M. Lamers et al.   NATURE REVIEWS MICROBIOLOGY

Modeling explains prolonged SARS-CoV-2 nasal shedding relative to lung shedding in remdesivir treated rhesus macaques

(2022) Ashish Goyal et al.   iScience

Circuits between infected macrophages and T cells in SARS-CoV-2 pneumonia

(2021) Rogan A. Grant et al.   NATURE

Differential Signaling and Virus Production in Calu-3 Cells and Vero Cells upon SARS-CoV-2 Infection

(2021) Byoung Kwon Park et al.   Biomolecules & Therapeutics

Pneumonia

(2021) Antoni Torres et al.   Nature Reviews Disease Primers

Distinct uptake, amplification, and release of SARS-CoV-2 by M1 and M2 alveolar macrophages

(2021) Jiadi Lv et al.   Cell Discovery

The total number and mass of SARS-CoV-2 virions

(2021) Ron Sender et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Modeling Within-Host Dynamics of SARS-CoV-2 Infection: A Case Study in Ferrets

(2021) Naveen K. Vaidya et al.   Viruses-Basel

In vivo kinetics of SARS-CoV-2 infection and its relationship with a person’s infectiousness

(2021) Ruian Ke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spatially distributed infection increases viral load in a computational model of SARS-CoV-2 lung infection

(2021) Melanie E. Moses et al.   PLoS Computational Biology

The role of spatial structure in the evolution of viral innate immunity evasion: A diffusion-reaction cellular automaton model

(2020) Ernesto Segredo-Otero et al.   PLoS Computational Biology

COVID-19 Does Not Lead to a “Typical” Acute Respiratory Distress Syndrome

(2020) Luciano Gattinoni et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

SARS-CoV-2 Reverse Genetics Reveals a Variable Infection Gradient in the Respiratory Tract

(2020) Yixuan J. Hou et al.   CELL

Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients

(2020) Pierre Bost et al.   CELL

Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study

(2020) Fei Zhou et al.   LANCET

Virological assessment of hospitalized patients with COVID-2019

(2020) Roman Wölfel et al.   NATURE

SARS-CoV-2 (COVID-19) by the numbers

(2020) Yinon M Bar-On et al.   eLife

Antiviral activities of type I interferons to SARS-CoV-2 infection

(2020) Emily Mantlo et al.   ANTIVIRAL RESEARCH

Type 1 interferons as a potential treatment against COVID-19

(2020) Erwan Sallard et al.   ANTIVIRAL RESEARCH

Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus

(2020) Bette Korber et al.   CELL

Alveolar SARS-CoV-2 viral load is tightly correlated with severity in COVID-19 ARDS

(2020) Mathieu Blot et al.   CLINICAL INFECTIOUS DISEASES

A mouse-adapted model of SARS-CoV-2 to test COVID-19 countermeasures

(2020) Kenneth H. Dinnon et al.   NATURE

Social evolution of innate immunity evasion in a virus

(2019) Pilar Domingo-Calap et al.   Nature Microbiology

The Dual Nature of Type I and Type II Interferons

(2018) Amanda J. Lee et al.   Frontiers in Immunology

Resistance to type 1 interferons is a major determinant of HIV-1 transmission fitness

(2017) Shilpa S. Iyer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid induction and persistence of paracrine-induced cellular antiviral states arrest viral infection spread in A549 cells

(2016) Emily A. Voigt et al.   VIROLOGY

Fingering in Stochastic Growth Models

(2014) Andreas C. Aristotelous et al.   EXPERIMENTAL MATHEMATICS

Differentiated Human Alveolar Type II Cells Secrete Antiviral IL-29 (IFN- 1) in Response to Influenza A Infection

(2014) J. Wang et al.   JOURNAL OF IMMUNOLOGY

Chemical evolutionary games

(2014) Andreas C. Aristotelous et al.   THEORETICAL POPULATION BIOLOGY

Increased burst size in multiply infected cells can alter basic virus dynamics

(2012) Kara W Cummings et al.   Biology Direct

Systematic identification of type I and type II interferon-induced antiviral factors

(2012) S.-Y. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Modeling Within-Host Dynamics of Influenza Virus Infection Including Immune Responses

(2012) Kasia A. Pawelek et al.   PLoS Computational Biology

Type I interferons: diversity of sources, production pathways and effects on immune responses

(2011) Melissa Swiecki et al.   Current Opinion in Virology

Stochastic Theory of Early Viral Infection: Continuous versus Burst Production of Virions

(2011) John E. Pearson et al.   PLoS Computational Biology

Human Immunodeficiency Virus Type 1 Is Trapped by Acidic but Not by Neutralized Human Cervicovaginal Mucus

(2009) S. K. Lai et al.   JOURNAL OF VIROLOGY