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Qiyun Zhu, Ph.D. - Publications

Affiliations: 
2014 Biological Sciences State University of New York, Buffalo, Buffalo, NY, United States 
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18 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Asnicar F, Thomas AM, Beghini F, Mengoni C, Manara S, Manghi P, Zhu Q, Bolzan M, Cumbo F, May U, Sanders JG, Zolfo M, Kopylova E, Pasolli E, Knight R, et al. Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0. Nature Communications. 11: 2500. PMID 32427907 DOI: 10.1038/S41467-020-16366-7  0.343
2020 Hillmann B, Al-Ghalith GA, Shields-Cutler RR, Zhu Q, Knight R, Knights D. SHOGUN: a modular, accurate, and scalable framework for microbiome quantification. Bioinformatics (Oxford, England). PMID 32365167 DOI: 10.1093/Bioinformatics/Btaa277  0.318
2020 Estaki M, Jiang L, Bokulich NA, McDonald D, González A, Kosciolek T, Martino C, Zhu Q, Birmingham A, Vázquez-Baeza Y, Dillon MR, Bolyen E, Caporaso JG, Knight R. QIIME 2 Enables Comprehensive End-to-End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data. Current Protocols in Bioinformatics. 70: e100. PMID 32343490 DOI: 10.1002/Cpbi.100  0.315
2019 Zhu Q, Mai U, Pfeiffer W, Janssen S, Asnicar F, Sanders JG, Belda-Ferre P, Al-Ghalith GA, Kopylova E, McDonald D, Kosciolek T, Yin JB, Huang S, Salam N, Jiao JY, et al. Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea. Nature Communications. 10: 5477. PMID 31792218 DOI: 10.1038/S41467-019-13443-4  0.368
2018 Hua ZS, Qu YN, Zhu Q, Zhou EM, Qi YL, Yin YR, Rao YZ, Tian Y, Li YX, Liu L, Castelle CJ, Hedlund BP, Shu WS, Knight R, Li WJ. Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota. Nature Communications. 9: 2832. PMID 30026532 DOI: 10.1038/S41467-018-05284-4  0.357
2018 Washburne AD, Morton JT, Sanders J, McDonald D, Zhu Q, Oliverio AM, Knight R. Methods for phylogenetic analysis of microbiome data. Nature Microbiology. 3: 652-661. PMID 29795540 DOI: 10.1038/S41564-018-0156-0  0.339
2018 Knight R, Vrbanac A, Taylor BC, Aksenov A, Callewaert C, Debelius J, Gonzalez A, Kosciolek T, McCall LI, McDonald D, Melnik AV, Morton JT, Navas J, Quinn RA, Sanders JG, ... ... Zhu Q, et al. Best practices for analysing microbiomes. Nature Reviews. Microbiology. PMID 29795328 DOI: 10.1038/S41579-018-0029-9  0.32
2017 Thompson LR, Sanders JG, McDonald D, Amir A, Ladau J, Locey KJ, Prill RJ, Tripathi A, Gibbons SM, Ackermann G, Navas-Molina JA, Janssen S, Kopylova E, Vázquez-Baeza Y, González A, ... ... Zhu Q, et al. A communal catalogue reveals Earth's multiscale microbial diversity. Nature. PMID 29088705 DOI: 10.1038/Nature24621  0.351
2017 Lin W, Paterson GA, Zhu Q, Wang Y, Kopylova E, Li Y, Knight R, Bazylinski DA, Zhu R, Kirschvink JL, Pan Y. Origin of microbial biomineralization and magnetotaxis during the Archean. Proceedings of the National Academy of Sciences of the United States of America. PMID 28193877 DOI: 10.1073/Pnas.1614654114  0.345
2016 Dittmar K, Zhu Q, Hastriter MW, Whiting MF. On the probability of dinosaur fleas. Bmc Evolutionary Biology. 16: 9. PMID 26754250 DOI: 10.1186/S12862-015-0568-X  0.533
2015 Zhu Q, Hastriter MW, Whiting MF, Dittmar K. Fleas (Siphonaptera) are Cretaceous, and evolved with Theria. Molecular Phylogenetics and Evolution. 90: 129-39. PMID 25987528 DOI: 10.1016/J.Ympev.2015.04.027  0.554
2015 Brook CE, Bai Y, Dobson AP, Osikowicz LM, Ranaivoson HC, Zhu Q, Kosoy MY, Dittmar K. Bartonella spp. in fruit bats and blood-feeding Ectoparasites in Madagascar. Plos Neglected Tropical Diseases. 9: e0003532. PMID 25706653 DOI: 10.1371/Journal.Pntd.0003532  0.531
2014 Zhu Q, Kosoy M, Dittmar K. HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers. Bmc Genomics. 15: 717. PMID 25159222 DOI: 10.1186/1471-2164-15-717  0.558
2014 Zhu Q, Kosoy M, Olival KJ, Dittmar K. Horizontal transfers and gene losses in the phospholipid pathway of bartonella reveal clues about early ecological niches. Genome Biology and Evolution. 6: 2156-69. PMID 25106622 DOI: 10.1093/Gbe/Evu169  0.566
2011 Kazemian M, Zhu Q, Halfon MS, Sinha S. Improved accuracy of supervised CRM discovery with interpolated Markov models and cross-species comparison. Nucleic Acids Research. 39: 9463-72. PMID 21821659 DOI: 10.1093/Nar/Gkr621  0.34
2009 Kantorovitz MR, Kazemian M, Kinston S, Miranda-Saavedra D, Zhu Q, Robinson GE, Göttgens B, Halfon MS, Sinha S. Motif-blind, genome-wide discovery of cis-regulatory modules in Drosophila and mouse. Developmental Cell. 17: 568-79. PMID 19853570 DOI: 10.1016/J.Devcel.2009.09.002  0.322
2009 Zhu QY, Liu Y, Zhu NS. [Molecular evolution of GAGE gene family]. Yi Chuan = Hereditas. 29: 559-64. PMID 17548324 DOI: 10.1360/Yc-007-0559  0.318
2008 Liu Y, Zhu Q, Zhu N. Recent duplication and positive selection of the GAGE gene family. Genetica. 133: 31-5. PMID 17661182 DOI: 10.1007/S10709-007-9179-9  0.302
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