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Author Details

Qiyun Zhu
Biodesign Center for Fundamental and Applied Microbiomics, Arizona State University
2007
115
37
PMIDPaper TitleJournal TitlePublished Year
37500913Greengenes2 unifies microbial data in a single reference tree.Nat Biotechnol2024
37853258Author Correction: Greengenes2 unifies microbial data in a single reference tree.Nat Biotechnol2024
37853257Author Correction: Generation of accurate, expandable phylogenomic trees with uDance.Nat Biotechnol2024
37500914Generation of accurate, expandable phylogenomic trees with uDance.Nat Biotechnol2024
36588386The nucleoprotein of influenza A virus inhibits the innate immune response by inducing mitophagy.Autophagy2023
37853256Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation.Nat Biotechnol2023
37611587Paired microbiome and metabolome analyses associate bile acid changes with colorectal cancer progression.Cell Rep2023
35485976DEPP: Deep Learning Enables Extending Species Trees using Single Genes.Syst Biol2023
37415812Metagenomics reveals novel microbial signatures of farm exposures in house dust.Front Microbiol2023
34643995Fast and accurate distance-based phylogenetic placement using divide and conquer.Mol Ecol Resour2022
35378331The Host-Microbiome Response to Hyperbaric Oxygen Therapy in Ulcerative Colitis Patients.Cell Mol Gastroenterol Hepatol2022
35798960Enhancing untargeted metabolomics using metadata-based source annotation.Nat Biotechnol2022
35733260Tankyrases inhibit innate antiviral response by PARylating VISA/MAVS and priming it for RNF146-mediated ubiquitination and degradation.Proc Natl Acad Sci U S A2022
35369727Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy.mSystems2022
35354069Early prediction of incident liver disease using conventional risk factors and gut-microbiome-augmented gradient boosting.Cell Metab2022
36073806Zebra: Static and Dynamic Genome Cover Thresholds with Overlapping References.mSystems2022
36179670Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions.Cell2022
35999575Location-specific signatures of Crohn's disease at a multi-omics scale.Microbiome2022
36366509H1N1 Influenza A Virus Protein NS2 Inhibits Innate Immune Response by Targeting IRF7.Viruses2022
36037479Specific Monoclonal Antibodies Targeting Unique HA Epitopes Block H7N9 Influenza A Viral Replication.J Virol2022
35042975Correction to: Compositional and genetic alterations in Graves' disease gut microbiome reveal specific diagnostic biomarkers.ISME J2022
35063656Influenza D virus Matrix protein 1 restricts the type I interferon response by degrading TRAF6.Virology2022
35087228Multi-omics analyses of the ulcerative colitis gut microbiome link Bacteroides vulgatus proteases with disease severity.Nat Microbiol2022
35171955MicroRNA-200c-targeted contactin 1 facilitates the replication of influenza A virus by accelerating the degradation of MAVS.PLoS Pathog2022
34991927Effective improvements to the live-attenuated Newcastle disease virus vaccine by polyethylenimine-based biomimetic silicification.Vaccine2022
35293792Swapping Metagenomics Preprocessing Pipeline Components Offers Speed and Sensitivity Increases.mSystems2022
35165440A gut-derived metabolite alters brain activity and anxiety behaviour in mice.Nature2022
33418911A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria.Mar Drugs2021
33686859Exploring the Composition and Functions of Plastic Microbiome Using Whole-Genome Sequencing.Environ Sci Technol2021
33727399EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets.mSystems2021
33577621The PB1 protein of influenza A virus inhibits the innate immune response by targeting MAVS for NBR1-mediated selective autophagic degradation.PLoS Pathog2021
34479875Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes.Genome Res2021
34079079Compositional and genetic alterations in Graves' disease gut microbiome reveal specific diagnostic biomarkers.ISME J2021
33986544Challenges in benchmarking metagenomic profilers.Nat Methods2021
33953361Insight into the function and evolution of the Wood-Ljungdahl pathway in Actinobacteria.ISME J2021
34193290Candidate probiotic Lactiplantibacillus plantarum HNU082 rapidly and convergently evolves within human, mice, and zebrafish gut but differentially influences the resident microbiome.Microbiome2021
33199911Chemically informed analyses of metabolomics mass spectrometry data with Qemistree.Nat Chem Biol2021
33432244High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing.Nat Methods2021
32343490QIIME 2 Enables Comprehensive End-to-End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data.Curr Protoc Bioinformatics2020
31686026Home chemical and microbial transitions across urbanization.Nat Microbiol2020
33028715The Nucleoprotein of H7N9 Influenza Virus Positively Regulates TRAF3-Mediated Innate Signaling and Attenuates Viral Virulence in Mice.J Virol2020
33126926Expanding magnetic organelle biogenesis in the domain Bacteria.Microbiome2020
32839779Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity.bioRxiv2020
32365167SHOGUN: a modular, accurate and scalable framework for microbiome quantification.Bioinformatics2020
32214244Microbiome analyses of blood and tissues suggest cancer diagnostic approach.Nature2020
32427907Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0.Nat Commun2020
30410068Induction of OTUD4 by viral infection promotes antiviral responses through deubiquitinating and stabilizing MAVS.Cell Res2019
31672156Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads.Genome Biol2019
31921093Comparative Pathogenicity and Transmissibility of Pandemic H1N1, Avian H5N1, and Human H7N9 Influenza Viruses in Tree Shrews.Front Microbiol2019
31792218Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea.Nat Commun2019
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Collaborators

University of California
Co-authored papers 35
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Co-authored papers 24
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Co-authored papers 19
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Co-authored papers 15
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Co-authored papers 9
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Co-authored papers 9
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Co-authored papers 8
University of California
Co-authored papers 8
Cumming School of Medicine, University of Calgary
Co-authored papers 8
Co-authored papers 7
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University of California San Diego
Co-authored papers 6
University of Minnesota
Co-authored papers 6
University of California San Diego
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Broad Institute of MIT and Harvard
Co-authored papers 5
Center for Microbiome Innovation, University of California San Diego
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University of California San Diego
Co-authored papers 5
Feinberg School of Medicine Northwestern University
Co-authored papers 5
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