Zhu, Qiyun

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

Bolyen, E., Rideout, J. R., Dillon, M. R., Bokulich, N. A., Abnet, C. C., Al-Ghalith, G. A., Alexander, H., Alm, E. J., Arumugam, M., Asnicar, F., et al. (2019) · Nature Biotechnology

Scientific Computing and Data ManagementGut microbiota and health

Cited by 23,742

A communal catalogue reveals Earth's multiscale microbial diversity

Thompson, L. R., Sanders, J. G., McDonald, D., Amir, A., Ladau, J., Locey, K. J., Prill, R. J., Tripathi, A., Gibbons, S. M., Ackermann, G., et al. (2017) · Nature

Microbial Community Ecology and PhysiologyGenomics and Phylogenetic Studies

Cited by 2,684

Best practices for analysing microbiomes

Knight, R., Vrbanac, A., Taylor, B. C., Aksenov, A., Callewaert, C., Debelius, J., Gonzalez, A., Kosciolek, T., McCall, L.-I., McDonald, D., et al. (2018) · Nature Reviews Microbiology

Genomics and Phylogenetic StudiesGut microbiota and health

Cited by 2,030

RETRACTED ARTICLE: Microbiome analyses of blood and tissues suggest cancer diagnostic approach

Poore, G. D., Kopylova, E., Zhu, Q., Carpenter, C., Fraraccio, S., Wandro, S., Kosciolek, T., Janssen, S., Metcalf, J., Song, S. J., et al. (2020) · Nature

Cancer Genomics and DiagnosticsGut microbiota and health

Cited by 989

American Gut: an Open Platform for Citizen-Science Microbiome Research

McDonalda, D., Hyde, E., Debelius, J. W., Morton, J. T., Gonzalez, A., Ackermann, G., Aksenov, A. A., Behsaz, B., Brennan, C., Chen, Y., et al. (2018) · mSystems

Gut microbiota and healthResearch Data Management Practices

Cited by 878

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0

Asnicar, F., Thomas, A. M., Beghini, F., Mengoni, C., Manara, S., Manghi, P., Zhu, Q., Bolzan, M., Cumbo, F., May, U., et al. (2020) · Nature Communications

Genomics and Phylogenetic StudiesMicrobial Community Ecology and Physiology

Cited by 869

Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort

Qin, Y., Havulinna, A. S., Liu, Y., Jousilahti, P., Ritchie, S. C., Tokolyi, A., Sanders, J. G., Valsta, L., Brożyńska, M., Zhu, Q., et al. (2022) · Nature Genetics

Gut microbiota and healthGenetic Associations and Epidemiology

Cited by 586

Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions

Narunsky-Haziza, L., Sepich-Poore, G. D., Livyatan, I., Asraf, O., Martino, C., Nejman, D., Gavert, N., Stajich, J. E., Amit, G., González, A., et al. (2022) · Cell

Gut microbiota and healthFungal Infections and Studies

Cited by 538

A gut-derived metabolite alters brain activity and anxiety behaviour in mice

Needham, B. D., Funabashi, M., Adame, M. D., Wang, Z., Boktor, J. C., Haney, J., Wu, W.-L., Rabut, C., Ladinsky, M. S., Hwang, S.-J., et al. (2022) · Nature

Gut microbiota and healthTryptophan and brain disorders

Cited by 489

Evaluating the Information Content of Shallow Shotgun Metagenomics

Hillmann, B., Al-Ghalith, G. A., Shields-Cutler, R. R., Zhu, Q., Gohl, D. M., Beckman, K. B., Knight, R., & Knights, D. (2018) · mSystems

Genomics and Phylogenetic StudiesGut microbiota and health

Cited by 474

Multi-omics analyses of the ulcerative colitis gut microbiome link Bacteroides vulgatus proteases with disease severity

Mills, R. H., Dulai, P. S., Vázquez-Baeza, Y., Sauceda, C., Daniel, N., Gerner, R. R., Batachari, L. E., Malfavon, M., Zhu, Q., Weldon, K., et al. (2022) · Nature Microbiology

Gut microbiota and healthInflammatory Bowel Disease

Cited by 385

Gut microbiome and magnetic resonance spectroscopy study of subjects at ultra-high risk for psychosis may support the membrane hypothesis

He, Y., Kosciolek, T., Tang, J., Zhou, Y., Li, Z., Ma, X., Zhu, Q., Yuan, N., Yuan, L., Li, C., et al. (2018) · European Psychiatry

Gut microbiota and healthSchizophrenia research and treatment

Cited by 123

Candidate probiotic Lactiplantibacillus plantarum HNU082 rapidly and convergently evolves within human, mice, and zebrafish gut but differentially influences the resident microbiome

Huang, S., Jiang, S., Huo, D., Allaband, C., Estaki, M., Cantu, V., Belda-Ferre, P., Vázquez-Baeza, Y., Zhu, Q., Ma, C., et al. (2021) · Microbiome

Probiotics and Fermented FoodsGut microbiota and health

Cited by 61