Influenza Virus Research Studies

The paper introduces VADR, a standalone tool for validating and annotating influenza sequences, showing consistent results with FLAN and extending its capabilities to new subtypes.

The paper compares two avian influenza virus incursions in Australia, showing contrasting evolutionary dynamics between H4 and H10 viruses.

This study uses phylogenetic analysis of influenza A virus sequences to assess if a sequence-based taxonomy can replace serological subtype definitions.

This study shows that natural variation in neuraminidase activity affects the evolutionary potential of hemagglutinin in seasonal H1N1 influenza viruses.

This study analyzes within-host influenza A virus evolution in a household cohort over three seasons, finding purifying selection and rare positive selection.

The paper presents a high-resolution structure of influenza polymerase showing the role of a conserved dibasic motif in replication initiation.

This study identifies sequence constraints for IGHV1-69 antibodies targeting influenza HA stem, showing light chain and CDR H3 sequences coordinate HA stem specificity.

The paper reports the detection of H5N1 clade 2.3.4.4b in wild birds in Ecuador and emphasizes the need for collaboration and genotyping in monitoring zoonotic pathogens.

This study identifies 98 UPS factors interacting with IAV NS1 proteins and functionally characterizes 18 of them to understand their role in viral immune evasion.

This study compares Oxford Nanopore R9.4.1 and R10.4.1 sequencing chemistries for resolving the hemagglutinin cleavage site in avian influenza viruses, finding improved accuracy with R10.4.1.

The paper reports the genomic characterization of HPAI/H5N1 viruses in marine mammals and seabirds in Peru, identifying reassortant lineages and novel mutations.

The paper compares the distribution of PB2 residue 627E/K/V in H5 AIV across avian and mammalian isolates, showing higher prevalence of E627K in mammalian sequences and H5-Gs/GD lineage.

The paper reports the detection of H5N1 AIV clade 2.3.4.4b in Chile in 2022, linked to migratory birds and showing phylogenetic similarity to Peruvian isolates.

ViPal improves influenza virulence prediction by integrating prior viral knowledge into machine learning models using genomic sequences.

The paper analyzes genetic diversity of H5 avian influenza in the UK from 2020-2022, identifying reassortment events and tracking subtype shifts between H5N8 and H5N1.

This paper develops in-silico models to predict infectious Influenza A virus strains from genome and protein sequences, achieving high AUC scores and providing a web tool for pandemic preparedness.

The paper identifies a nonsynonymous ERAP1 variant associated with increased susceptibility to influenza virus using scHi-HOST, a single-cell method for genetic susceptibility testing.

The paper constructs a virulence network of Influenza A virus-host protein domain interactions using lethal dose data and domain interaction scoring to aid in disease modeling and mechanism discovery.

TreeKnit infers ancestral reassortment graphs from segment trees of influenza viruses, showing high accuracy and speed compared to Bayesian methods.

This study identifies transcriptional changes in mice during influenza and pneumococcal superinfection, revealing rewired immune resistance programs and potential therapeutic targets.

The paper identifies immune-related genes significantly expressed in influenza A virus infection using microarray data and pathway analysis.

This paper develops a reverse-transcription recombinase-aided amplification assay for detecting H5 subtype avian influenza virus with high sensitivity and specificity.

The paper reports an outbreak of H5N1 in New England seals, linking it to a second wave of H5N1 in wild birds and identifying genetic differences between avian and mammalian infections.

This study uses cryo-EM to observe how influenza polymerase backtracks after incorporating T1106-MP nucleotides, revealing structural changes that lead to chain termination.

This paper presents a novel cloning strategy and standardized assay for studying influenza B virus RNA synthesis without infection, showing effects of viral and host proteins and antiviral drugs.

The paper estimates intercontinental movement rates between Eurasian and North American waterbirds, identifying species at highest risk for avian influenza spread.

This study uses a network-based approach to analyze sex differences in immune responses to influenza virus infection in ferrets, identifying sex-biased gene expression and pathways.

This paper investigates how influenza A virus RNA polymerase (FluPol) interacts with host chromatin during infection, showing it targets regulatory elements of immune response genes and interferes with transcription processes.

The paper identifies host genes associated with variation in viral shedding in LPAIV-infected mallards using RNA-seq analysis of ileum and bursa of Fabricius tissues.