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Comparative genomics in infectious disease.传染病的比较基因组学。
Curr Opin Microbiol. 2020 Feb;53:61-70. doi: 10.1016/j.mib.2020.02.009. Epub 2020 Apr 2.
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Genomic perspectives on the evolution and spread of bacterial pathogens.细菌病原体进化与传播的基因组学视角
Proc Biol Sci. 2015 Dec 22;282(1821):20150488. doi: 10.1098/rspb.2015.0488.
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A core genome approach that enables prospective and dynamic monitoring of infectious outbreaks.一种核心基因组方法，能够对传染病暴发进行前瞻性和动态监测。
Sci Rep. 2019 May 24;9(1):7808. doi: 10.1038/s41598-019-44189-0.
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Emergence and Spread of Antimicrobial Resistance: Recent Insights from Bacterial Population Genomics.抗菌药物耐药性的出现与传播：细菌群体基因组学的最新见解
Curr Top Microbiol Immunol. 2016;398:35-53. doi: 10.1007/82_2016_505.
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Human infectious diseases in the genomics era: where do we go from here?基因组学时代的人类传染病：我们从这里走向何方？
Genome Biol. 2014 Nov 22;15(11):529. doi: 10.1186/s13059-014-0529-5.
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Development of Phylodynamic Methods for Bacterial Pathogens.细菌病原体系统发育动力学方法的发展。
Trends Microbiol. 2021 Sep;29(9):788-797. doi: 10.1016/j.tim.2021.02.008. Epub 2021 Mar 15.
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[New bacteria causing infectious diseases].[引发传染病的新型细菌]
Rev Clin Esp. 1996 Jul;196 Suppl 2:59-65; discussion 66.
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Bacterial genomics in infectious disease and the clinical pathology laboratory.感染病学和临床病理实验室中的细菌基因组学。
Arch Pathol Lab Med. 2012 Nov;136(11):1414-22. doi: 10.5858/arpa.2012-0025-RA. Epub 2012 Mar 22.
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The impact of comparative genomics on infectious disease research.比较基因组学对传染病研究的影响。
Microbes Infect. 2006 May;8(6):1613-22. doi: 10.1016/j.micinf.2005.11.019. Epub 2006 Jan 27.
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Microbial pathogenesis: genomics and beyond.微生物致病机制：基因组学及其他
Science. 1997 May 2;276(5313):707-12. doi: 10.1126/science.276.5313.707.
引用本文的文献
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High intestinal carriage of in healthy individuals and ICU patients in Hangzhou, China.中国杭州健康个体和 ICU 患者的肠道高携带率。
Microbiol Spectr. 2024 Jul 2;12(7):e0338523. doi: 10.1128/spectrum.03385-23. Epub 2024 May 21.
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The Swiss Pathogen Surveillance Platform - towards a nation-wide One Health data exchange platform for bacterial, viral and fungal genomics and associated metadata.瑞士病原体监测平台 - 迈向全国性的细菌、病毒和真菌基因组学及相关元数据的 One Health 数据交换平台。
Microb Genom. 2023 May;9(5). doi: 10.1099/mgen.0.001001.
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Phylogenomics of nontuberculous mycobacteria respiratory infections in people with cystic fibrosis.囊性纤维化患者中非结核分枝杆菌呼吸道感染的系统发育组学研究。
Paediatr Respir Rev. 2023 Jun;46:63-70. doi: 10.1016/j.prrv.2023.02.001. Epub 2023 Feb 10.
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An accessible, efficient and global approach for the large-scale sequencing of bacterial genomes.一种用于大规模细菌基因组测序的可及、高效和全球化的方法。
Genome Biol. 2021 Dec 21;22(1):349. doi: 10.1186/s13059-021-02536-3.
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Cross-species RNA-seq for deciphering host-microbe interactions.用于解析宿主-微生物相互作用的跨物种 RNA-seq。
Nat Rev Genet. 2021 Jun;22(6):361-378. doi: 10.1038/s41576-021-00326-y. Epub 2021 Feb 17.
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WhatsGNU: a tool for identifying proteomic novelty.WhatsGNU：一种用于鉴定蛋白质组学新颖性的工具。
Genome Biol. 2020 Mar 5;21(1):58. doi: 10.1186/s13059-020-01965-w.
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Current Affairs of Microbial Genome-Wide Association Studies: Approaches, Bottlenecks and Analytical Pitfalls.微生物全基因组关联研究的现状：方法、瓶颈与分析陷阱
Front Microbiol. 2020 Jan 30;10:3119. doi: 10.3389/fmicb.2019.03119. eCollection 2019.
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Previously undetected super-spreading of revealed by deep sequencing.深度测序揭示此前未检测到的超级传播。
Elife. 2020 Feb 4;9:e53245. doi: 10.7554/eLife.53245.
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The EnteroBase user's guide, with case studies on transmissions, phylogeny, and core genomic diversity.《EnteroBase 用户指南》，内含传播、系统发育和核心基因组多样性方面的案例研究。
Genome Res. 2020 Jan;30(1):138-152. doi: 10.1101/gr.251678.119. Epub 2019 Dec 6.
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Dashing: fast and accurate genomic distances with HyperLogLog.使用 HyperLogLog 实现快速准确的基因组距离计算。
Genome Biol. 2019 Dec 4;20(1):265. doi: 10.1186/s13059-019-1875-0.
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Genomics of host-pathogen interactions: challenges and opportunities across ecological and spatiotemporal scales.宿主-病原体相互作用的基因组学：跨越生态和时空尺度的挑战与机遇
PeerJ. 2019 Nov 5;7:e8013. doi: 10.7717/peerj.8013. eCollection 2019.
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Genomic and epidemiological evidence of bacterial transmission from probiotic capsule to blood in ICU patients.重症监护病房患者益生菌胶囊向血液中细菌传播的基因组和流行病学证据。
Nat Med. 2019 Nov;25(11):1728-1732. doi: 10.1038/s41591-019-0626-9. Epub 2019 Nov 7.
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CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database.CARD 2020：利用综合抗生素耐药数据库进行抗生素耐药组监测。
Nucleic Acids Res. 2020 Jan 8;48(D1):D517-D525. doi: 10.1093/nar/gkz935.
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PIRATE: A fast and scalable pangenomics toolbox for clustering diverged orthologues in bacteria.PIRATE：一种快速且可扩展的细菌分歧直系同源聚类泛基因组工具包。
Gigascience. 2019 Oct 1;8(10). doi: 10.1093/gigascience/giz119.
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Phylogenomic analysis of gastroenteritis-associated in England and Wales over a 7-year period indicates distribution of clonal toxigenic strains in multiple outbreaks and extensive involvement of enterotoxin-encoding (CPE) plasmids.在英格兰和威尔士的 7 年期间，对胃肠炎相关的进行了系统基因组学分析，结果表明，克隆性产毒菌株在多次暴发中的分布以及肠毒素编码（CPE）质粒的广泛参与。
Microb Genom. 2019 Oct;5(10). doi: 10.1099/mgen.0.000297. Epub 2019 Sep 20.
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