Jincun Zhao

Optimizing broadly neutralizing antibodies via all-atom interaction modeling and pre-trained language models

This paper introduces InterAb and InterAb-Opt, computational frameworks that predict and optimize broadly neutralizing antibodies using all-atom modeling and pre-trained language models, showing significant improvements in binding affinity and neutralization activity.

Epitope-Focused Immunogens Confer Broad Protection against Coronaviruses

This study designs epitope-focused immunogens targeting conserved coronavirus regions, showing broad neutralizing activity and protection in mice against diverse coronaviruses.

Ribophorin-1 Governs Spike Abundance of Highly Pathogenic Coronaviruses by ER-associated degradation

This study identifies Ribophorin-1 as a host factor that reduces spike protein abundance on coronaviruses by promoting its degradation, thereby inhibiting infection.

Structural determinants of IGHV1-69 public antibodies conferring resilience to SARS-CoV-2 antigenic escape

This study identifies structural features of affinity-matured R1-32-like antibodies that enable tolerance to SARS-CoV-2 mutations and reveals an ultrapotent antibody with broad variant activity.

Targeting the host factor HGS-viral membrane protein interaction in coronavirus infection

This study identifies HGS as a host factor critical for coronavirus infection and discovers RTB as a broad-spectrum antiviral by disrupting HGS-M protein interaction.

AI recognizes convergent somatic hypermutation signatures to allow the discovery of variant-resilient broadly neutralizing antibodies

The paper uses AI to identify convergent somatic hypermutation patterns in antibodies, enabling the discovery of variant-resilient broadly neutralizing antibodies from early-pandemic data.

UHRF1 restricts HCoV-229E infection through epigenetic silencing of the viral receptor APN

This study identifies UHRF1 as a host factor that restricts HCoV-229E infection by epigenetically silencing its receptor APN, with age-related UHRF1 decline linked to increased viral susceptibility.

DAZAP2 functions as a pan-coronavirus restriction factor by inhibiting viral entry and genomic replication

This study identifies DAZAP2 as a pan-coronavirus restriction factor that inhibits viral entry and genomic replication, with physiological relevance confirmed in mouse models and human cells.

hPSC-Derived Distal Lung Organoids Reveal Respiratory Airway Secretory Cells Acting as Immune Sentinels in Human Distal Airways

This study uses hPSC-derived distal lung organoids to identify RAS cells as immune sentinels in human distal airways, revealing their roles in viral, bacterial responses, and COPD.

Interleukin-1 prevents SARS-CoV-2-induced membrane fusion to restrict viral transmission via induction of actin bundles

The paper identifies IL-1β as a factor that inhibits SARS-CoV-2-induced cell-cell fusion by promoting actin bundles, thereby restricting viral transmission.

Glycosylphosphatidylinositol biosynthesis restricts coronavirus infection via the regulation of LY6E

This study identifies GPI biosynthesis as a conserved host restriction factor against coronaviruses, with LY6E as a key antiviral effector.

Extracellular stiffness regulates site-specific lung development

This study shows that ECM stiffness influences site-specific lung development in organoids by directing cell differentiation and pathway activation.

Plasma cell-free DNA promise disease monitoring and tissue injury assessment of COVID-19

This study analyzes cell-free DNA in COVID-19 patients to show its potential for disease monitoring and tissue injury assessment.

The Strand-biased Transcription of SARS-CoV-2 and Unbalanced Inhibition by Remdesivir

The paper investigates SARS-CoV-2 strand-biased transcription and shows Remdesivir preferentially inhibits negative strand synthesis.

Intra-host Variation and Evolutionary Dynamics of SARS-CoV-2 Population in COVID-19 Patients

This study characterizes intra-host SARS-CoV-2 genomic variants and their evolutionary dynamics in COVID-19 patients using deep sequencing data.

Population Bottlenecks and Intra-host Evolution during Human-to-Human Transmission of SARS-CoV-2Population Bottlenecks and Intra-host Evolution during Human-to-Human Transmission of SARS-CoV-2

This study compares SARS-CoV-2 viral populations in COVID-19 patients to show narrow transmission bottlenecks and stochastic dynamics in intra-host and inter-host evolution.

Large-scale single-cell analysis reveals critical immune characteristics of COVID-19 patients

This study uses single-cell RNA sequencing to analyze immune responses in COVID-19 patients, identifying key immune cell changes and molecular pathways linked to disease severity.

Multiple approaches for massively parallel sequencing of HCoV-19 (SARS-CoV-2) genomes directly from clinical samples

This paper compares amplicon, hybrid capture, and metatranscriptomic sequencing methods for directly sequencing SARS-CoV-2 genomes from clinical samples, finding differences in bias, sensitivity, and accuracy.