Extreme heterogeneity of influenza virus infection in single cells

Metastasis suppressor NM23 limits oxidative stress in mammals by preventing activation of stress-activated protein kinases/JNKs through its nucleoside diphosphate kinase activity

(2017) Evelyne Peuchant et al.   FASEB JOURNAL

Single-cell studies of IFN-β promoter activation by wild-type and NS1-defective influenza A viruses

(2017) M. J Killip et al.   JOURNAL OF GENERAL VIROLOGY

Transmission Bottleneck Size Estimation from Pathogen Deep-Sequencing Data, with an Application to Human Influenza A Virus

(2017) Ashley Sobel Leonard et al.   JOURNAL OF VIROLOGY

Reversed graph embedding resolves complex single-cell trajectories

(2017) Xiaojie Qiu et al.   NATURE METHODS

Comprehensive single-cell transcriptional profiling of a multicellular organism

(2017) Junyue Cao et al.   SCIENCE

Plaques Formed by Mutagenized Viral Populations Have Elevated Coinfection Frequencies

(2017) Elizabeth R. Aguilera et al.   mBio

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

Analysis of IAV Replication and Co-infection Dynamics by a Versatile RNA Viral Genome Labeling Method

(2017) Dan Dou et al.   Cell Reports

Complete mapping of viral escape from neutralizing antibodies

(2017) Michael B. Doud et al.   PLoS Pathogens

A novel twelve class fluctuation test reveals higher than expected mutation rates for influenza A viruses

(2017) Matthew D Pauly et al.   eLife

Parallel evolution of influenza across multiple spatiotemporal scales

(2017) Katherine S Xue et al.   eLife

Cell Polarization and Epigenetic Status Shape the Heterogeneous Response to Type III Interferons in Intestinal Epithelial Cells

(2017) Sudeep Bhushal et al.   Frontiers in Immunology

Aldo-keto reductases are biomarkers of NRF2 activity and are co-ordinately overexpressed in non-small cell lung cancer

(2016) A Kenneth MacLeod et al.   BRITISH JOURNAL OF CANCER

Quantifying influenza virus diversity and transmission in humans

(2016) Leo L M Poon et al.   NATURE GENETICS

The protective role of Nrf2-Gadd45b against antimony-induced oxidative stress and apoptosis in HEK293 cells

(2016) Xingkang Jiang et al.   TOXICOLOGY LETTERS

The Influenza Virus H5N1 Infection Can Induce ROS Production for Viral Replication and Host Cell Death in A549 Cells Modulated by Human Cu/Zn Superoxide Dismutase (SOD1) Overexpression

(2016) Xian Lin et al.   Viruses-Basel

Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza Hemagglutinin

(2016) Michael Doud et al.   Viruses-Basel

A systematic view on influenza induced host shutoff

(2016) Adi Bercovich-Kinori et al.   eLife

Propagation and Characterization of Influenza Virus Stocks That Lack High Levels of Defective Viral Genomes and Hemagglutinin Mutations

(2016) Jia Xue et al.   Frontiers in Microbiology

Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses

(2015) Roi Avraham et al.   CELL

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

(2015) Allon M. Klein et al.   CELL

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Single-Cell Analysis of RNA Virus Infection Identifies Multiple Genetically Diverse Viral Genomes within Single Infectious Units

(2015) Marine Combe et al.   Cell Host & Microbe

High-Throughput Single-Cell Kinetics of Virus Infections in the Presence of Defective Interfering Particles

(2015) Fulya Akpinar et al.   JOURNAL OF VIROLOGY

Influenza virus activation of the interferon system

(2015) Marian J. Killip et al.   VIRUS RESEARCH

Single-cell analysis and stochastic modelling unveil large cell-to-cell variability in influenza A virus infection

(2015) Frank S. Heldt et al.   Nature Communications

Influenza Virus Reassortment Is Enhanced by Semi-infectious Particles but Can Be Suppressed by Defective Interfering Particles

(2015) Judith M. Fonville et al.   PLoS Pathogens

Influenza A Virus Transmission Bottlenecks Are Defined by Infection Route and Recipient Host

(2014) Andrew Varble et al.   Cell Host & Microbe

Influenza virus replication in lung epithelial cells depends on redox-sensitive pathways activated by NOX4-derived ROS

(2014) Donatella Amatore et al.   CELLULAR MICROBIOLOGY

Intracellular Redox State as Target for Anti-Influenza Therapy: Are Antioxidants Always Effective?

(2014) Rossella Sgarbanti et al.   CURRENT TOPICS IN MEDICINAL CHEMISTRY

Biological activities of 'noninfectious' influenza A virus particles

(2014) Christopher B Brooke   Future Virology

An Unbiased Genetic Screen Reveals the Polygenic Nature of the Influenza Virus Anti-Interferon Response

(2014) M. Perez-Cidoncha et al.   JOURNAL OF VIROLOGY

Defective Viral Genomes: Critical Danger Signals of Viral Infections

(2014) C. B. Lopez   JOURNAL OF VIROLOGY

Activation of the Interferon Induction Cascade by Influenza A Viruses Requires Viral RNA Synthesis and Nuclear Export

(2014) M. J. Killip et al.   JOURNAL OF VIROLOGY

Single-Cell Analysis Uncovers Extensive Biological Noise in Poliovirus Replication

(2014) M. B. Schulte et al.   JOURNAL OF VIROLOGY

Defective Interfering Influenza Virus RNAs: Time To Reevaluate Their Clinical Potential as Broad-Spectrum Antivirals?

(2014) N. J. Dimmock et al.   JOURNAL OF VIROLOGY

An Experimentally Determined Evolutionary Model Dramatically Improves Phylogenetic Fit

(2014) Jesse D. Bloom   MOLECULAR BIOLOGY AND EVOLUTION

Single-cell RNA-seq reveals dynamic paracrine control of cellular variation

(2014) Alex K. Shalek et al.   NATURE

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

At the centre: influenza A virus ribonucleoproteins

(2014) Amie J. Eisfeld et al.   NATURE REVIEWS MICROBIOLOGY

Influenza A virus nucleoprotein selectively decreases neuraminidase gene-segment packaging while enhancing viral fitness and transmissibility

(2014) Christopher B. Brooke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Influenza Viruses and mRNA Splicing: Doing More with Less

(2014) J. Dubois et al.   mBio

Visualizing the Beta Interferon Response in Mice during Infection with Influenza A Viruses Expressing or Lacking Nonstructural Protein 1

(2013) C. Kallfass et al.   JOURNAL OF VIROLOGY

Most Influenza A Virions Fail To Express at Least One Essential Viral Protein

(2013) C. B. Brooke et al.   JOURNAL OF VIROLOGY

Sequence Analysis of In Vivo Defective Interfering-Like RNA of Influenza A H1N1 Pandemic Virus

(2013) K. Saira et al.   JOURNAL OF VIROLOGY

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Modulation of oxidative stress as an anticancer strategy

(2013) Chiara Gorrini et al.   NATURE REVIEWS DRUG DISCOVERY

Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods

(2013) Leif Väremo et al.   NUCLEIC ACIDS RESEARCH

Quantitative phosphoproteomic analysis of host responses in human lung epithelial (A549) cells during influenza virus infection

(2013) Clyde Dapat et al.   VIRUS RESEARCH

Influenza A Virus Utilizes Suboptimal Splicing to Coordinate the Timing of Infection

(2013) Mark A. Chua et al.   Cell Reports

Defective Viral Genomes Arising In Vivo Provide Critical Danger Signals for the Triggering of Lung Antiviral Immunity

(2013) Karla Tapia et al.   PLoS Pathogens

Type I and Type III Interferons Drive Redundant Amplification Loops to Induce a Transcriptional Signature in Influenza-Infected Airway Epithelia

(2013) Stefania Crotta et al.   PLoS Pathogens

Single-Cell Expression Analyses during Cellular Reprogramming Reveal an Early Stochastic and a Late Hierarchic Phase

(2012) Yosef Buganim et al.   CELL

Regulation of human carbonyl reductase 1 (CBR1, SDR21C1) gene by transcription factor Nrf2

(2012) Takeshi Miura et al.   CHEMICO-BIOLOGICAL INTERACTIONS

Modeling the Intracellular Dynamics of Influenza Virus Replication To Understand the Control of Viral RNA Synthesis

(2012) F. S. Heldt et al.   JOURNAL OF VIROLOGY

Multi-layered stochasticity and paracrine signal propagation shape the type-I interferon response

(2012) Ulfert Rand et al.   Molecular Systems Biology

Activation of Type I and III Interferon Signalling Pathways Occurs in Lung Epithelial Cells Infected with Low Pathogenic Avian Influenza Viruses

(2012) Richard Sutejo et al.   PLoS One

The NumPy Array: A Structure for Efficient Numerical Computation

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

Cellular Networks Involved in the Influenza Virus Life Cycle

(2010) Tokiko Watanabe et al.   Cell Host & Microbe

The ISG56/IFIT1 Gene Family

(2010) Volker Fensterl et al.   JOURNAL OF INTERFERON AND CYTOKINE RESEARCH

Influenza A virus-generated small RNAs regulate the switch from transcription to replication

(2010) J. T. Perez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Heterocellular induction of interferon by negative-sense RNA viruses

(2010) S. Chen et al.   VIROLOGY

Quasispecies Theory and the Behavior of RNA Viruses

(2010) Adam S. Lauring et al.   PLoS Pathogens

Genome packaging in influenza A virus

(2009) E. C. Hutchinson et al.   JOURNAL OF GENERAL VIROLOGY

Expression of stress-response ATF3 is mediated by Nrf2 in astrocytes

(2009) Kyu-Han Kim et al.   NUCLEIC ACIDS RESEARCH

The multifunctional NS1 protein of influenza A viruses

(2008) B. G. Hale et al.   JOURNAL OF GENERAL VIROLOGY

Influenza A Virus Neuraminidase Limits Viral Superinfection

(2008) I-C. Huang et al.   JOURNAL OF VIROLOGY

Growth of an RNA virus in single cells reveals a broad fitness distribution

(2008) Ying Zhu et al.   VIROLOGY