J. K. Baillie

Hypoxia shapes the immune landscape in lung injury promoting inflammation persistence

This study shows hypoxia suppresses type I interferon signaling in ALI, leading to monocytopenia and unchecked inflammation, which can be mitigated by CSF1 administration.

Rapid selection of P323L in the SARS-CoV-2 polymerase (NSP12) in humans and non-human primate models and confers a large plaque phenotype

The paper tracks the rapid emergence of the P323L mutation in SARS-CoV-2 polymerase in human and non-human primate models, showing it confers a larger plaque phenotype compared to P323.

Pandemic, epidemic, endemic: B cell repertoire analysis reveals unique anti-viral responses to SARS-CoV-2, Ebola and Respiratory Syncytial Virus

The paper analyzes B cell repertoires from SARS-CoV-2, Ebola, and RSV infections to identify distinct anti-viral immune responses and repertoire characteristics.

Secreted SARS-CoV-2 ORF8 modulates the cytokine expression profile of human macrophages

This study shows that SARS-CoV-2 ORF8 protein modulates cytokine expression in human macrophages, with sequence polymorphisms affecting IL-6 and IL-8 secretion.

Endomembrane targeting of human OAS1 p46 augments antiviral activity

This study shows that the OAS1 p46 isoform, targeted to the endomembrane system, enhances antiviral activity against RNA viruses and is associated with COVID-19 severity.

Sequence analysis of SARS-CoV-2 in nasopharyngeal samples from patients with COVID-19 illustrates population variation and diverse phenotypes, placing the in vitro growth properties of B.1.1.7 and B.1.351 lineage viruses in context.

The paper analyzes SARS-CoV-2 sequence variation in patient samples and compares the in vitro growth of B.1.1.7 and B.1.351 variants to other isolates, finding no significant difference in growth for B.1.1.7.

Identification and quantification of SARS-CoV-2 leader subgenomic mRNA gene junctions in nasopharyngeal samples shows phasic transcription in animal models of COVID-19 and dysregulation at later time points that can also be identified in humans

The paper identifies and quantifies SARS-CoV-2 leader-TRS-junctions in samples, showing phasic sgmRNA transcription in animal models and dysregulation in humans.

Characterising pre-clinical sub-phenotypic models of Acute Respiratory Distress Syndrome: an experimental ovine study.

This study identifies sub-phenotypes in ovine ARDS models that resemble clinical ARDS sub-phenotypes using clustering and principal components analysis.

Subtractive CRISPR screen identifies factors involved in non-canonical LC3 lipidation.

The paper uses a subtractive CRISPR screen to identify factors involved in non-canonical LC3 lipidation, revealing distinct roles for ATG4D and the RALGAP complex in different contexts.

Broad and strong memory CD4+ and CD8+ T cells induced by SARS-CoV-2 in UK convalescent COVID-19 patients.

This study examines T cell immunity in UK COVID-19 patients, finding stronger and broader memory T cell responses in severe cases, with implications for vaccine design.

Comprehensive characterisation of molecular host-pathogen interactions in influenza A virus-infected human macrophages

This study characterizes molecular host-pathogen interactions in influenza A virus-infected human macrophages using CAGE sequencing, revealing snatching preferences and avoidance patterns of host RNAs.

Predictive validity of effective shunt fraction in critically ill patients

This study compares the predictive validity of different shunt fraction measures in critically ill patients, finding that the non-invasive effective shunt (ES) outperforms other methods.