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Qiyun Zhu
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Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ...
Nature biotechnology 37 (8), 852-857, 2019
93512019
A communal catalogue reveals Earth’s multiscale microbial diversity
LR Thompson, JG Sanders, D McDonald, A Amir, J Ladau, KJ Locey, ...
Nature 551 (7681), 457-463, 2017
18212017
Best practices for analysing microbiomes
R Knight, A Vrbanac, BC Taylor, A Aksenov, C Callewaert, J Debelius, ...
Nature Reviews Microbiology 16 (7), 410-422, 2018
11792018
QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, C Abnet, GA Al-Ghalith, ...
PeerJ Preprints, 2018
9042018
Microbiome analyses of blood and tissues suggest cancer diagnostic approach
GD Poore, E Kopylova, Q Zhu, C Carpenter, S Fraraccio, S Wandro, ...
Nature 579 (7800), 567-574, 2020
5502020
American gut: an open platform for citizen science microbiome research
D McDonald, E Hyde, JW Debelius, JT Morton, A Gonzalez, G Ackermann, ...
Msystems 3 (3), e00031-18, 2018
5352018
FXR regulates intestinal cancer stem cell proliferation
T Fu, S Coulter, E Yoshihara, TG Oh, S Fang, F Cayabyab, Q Zhu, ...
Cell 176 (5), 1098-1112. e18, 2019
2682019
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0
F Asnicar, AM Thomas, F Beghini, C Mengoni, S Manara, P Manghi, ...
Nature communications 11 (1), 2500, 2020
2592020
Evaluating the information content of shallow shotgun metagenomics
B Hillmann, GA Al-Ghalith, RR Shields-Cutler, Q Zhu, DM Gohl, ...
Msystems 3 (6), e00069-18, 2018
2432018
Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea
Q Zhu, U Mai, W Pfeiffer, S Janssen, F Asnicar, JG Sanders, ...
Nature communications 10 (1), 5477, 2019
1792019
QIIME 2 enables comprehensive end‐to‐end analysis of diverse microbiome data and comparative studies with publicly available data
M Estaki, L Jiang, NA Bokulich, D McDonald, A González, T Kosciolek, ...
Current protocols in bioinformatics 70 (1), e100, 2020
1602020
High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing
SM Karst, RM Ziels, RH Kirkegaard, EA Sřrensen, D McDonald, Q Zhu, ...
Nature methods 18 (2), 165-169, 2021
1462021
Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort
Y Qin, AS Havulinna, Y Liu, P Jousilahti, SC Ritchie, A Tokolyi, ...
Nature genetics 54 (2), 134-142, 2022
1072022
HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers
Q Zhu, M Kosoy, K Dittmar
BMC genomics 15 (1), 1-18, 2014
1072014
Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota
ZS Hua, YN Qu, Q Zhu, EM Zhou, YL Qi, YR Yin, YZ Rao, Y Tian, YX Li, ...
Nature communications 9 (1), 2832, 2018
1062018
Origin of microbial biomineralization and magnetotaxis during the Archean
W Lin, GA Paterson, Q Zhu, Y Wang, E Kopylova, Y Li, R Knight, ...
Proceedings of the National Academy of Sciences 114 (9), 2171-2176, 2017
1042017
A gut-derived metabolite alters brain activity and anxiety behaviour in mice
BD Needham, M Funabashi, MD Adame, Z Wang, JC Boktor, J Haney, ...
Nature 602 (7898), 647-653, 2022
1002022
Gut microbiome and magnetic resonance spectroscopy study of subjects at ultra-high risk for psychosis may support the membrane hypothesis
Y He, T Kosciolek, J Tang, Y Zhou, Z Li, X Ma, Q Zhu, N Yuan, L Yuan, ...
European Psychiatry 53, 37-45, 2018
922018
KatharoSeq enables high-throughput microbiome analysis from low-biomass samples
JJ Minich, Q Zhu, S Janssen, R Hendrickson, A Amir, R Vetter, J Hyde, ...
MSystems 3 (3), e00218-17, 2018
902018
Fleas (Siphonaptera) are Cretaceous, and evolved with Theria
Q Zhu, MW Hastriter, MF Whiting, K Dittmar
Molecular Phylogenetics and Evolution 90, 129-139, 2015
892015
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Articles 1–20