Synima: a Synteny imaging tool for annotated genome assemblies von Farrer, Rhys A

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HaplotypeTools: a toolkit for accurately identifying recombination and recombinant genotypes von Farrer, Rhys A.

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Genomic insights into multidrug-resistance, mating and virulence in Candida auris and related emerging species von Muñoz, José F., Gade, Lalitha, Chow, Nancy A., Loparev, Vladimir N., Juieng, Phalasy, Berkow, Elizabeth L., Farrer, Rhys A., Litvintseva, Anastasia P., Cuomo, Christina A.

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Nine Things Genomics Can Tell Us About Candida auris von Chybowska, Aleksandra D., Childers, Delma S., Farrer, Rhys A.

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Genome variation in the Batrachochytrium pathogens of amphibians von Wacker, Theresa, Helmstetter, Nicolas, Studholme, David J, Farrer, Rhys A

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Genomic innovations linked to infection strategies across emerging pathogenic chytrid fungi von Farrer, Rhys A., Martel, An, Verbrugghe, Elin, Abouelleil, Amr, Ducatelle, Richard, Longcore, Joyce E., James, Timothy Y., Pasmans, Frank, Fisher, Matthew C., Cuomo, Christina A.

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Genome Evolution Following Host Jumps in the Irish Potato Famine Pathogen Lineage von Raffaele, Sylvain, Farrer, Rhys A, Cano, Liliana M, Studholme, David J, MacLean, Daniel, Thines, Marco, Jiang, Rays H.Y, Zody, Michael C, Kunjeti, Sridhara G, Donofrio, Nicole M, Meyers, Blake C, Nusbaum, Chad, Kamoun, Sophien

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Multiple emergences of genetically diverse amphibian-infecting chytrids include a globalized hypervirulent recombinant lineage von Farrer, Rhys A, Weinert, Lucy A, Bielby, Jon, Garner, Trenton W. J, Balloux, Francois, Clare, Frances, Bosch, Jaime, Cunningham, Andrew A, Weldon, Che, du Preez, Louis H, Anderson, Lucy, Pond, Sergei L. Kosakovsky, Shahar-Golan, Revital, Henk, Daniel A, Fisher, Matthew C

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Hsf1 and Hsp90 orchestrate temperature-dependent global transcriptional remodelling and chromatin architecture in Candida albicans von Leach, Michelle D., Farrer, Rhys A., Tan, Kaeling, Miao, Zhengqiang, Walker, Louise A., Cuomo, Christina A., Wheeler, Robert T., Brown, Alistair J. P., Wong, Koon Ho, Cowen, Leah E.

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Chromosomal copy number variation, selection and uneven rates of recombination reveal cryptic genome diversity linked to pathogenicity von Farrer, Rhys A, Henk, Daniel A, Garner, Trenton W J, Balloux, Francois, Woodhams, Douglas C, Fisher, Matthew C

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Drivers of methicillin-resistant Staphylococcus aureus (MRSA) lineage replacement in China von Chen, Hongbin, Yin, Yuyao, van Dorp, Lucy, Shaw, Liam P., Gao, Hua, Acman, Mislav, Yuan, Jizhen, Chen, Fengning, Sun, Shijun, Wang, Xiaojuan, Li, Shuguang, Zhang, Yawei, Farrer, Rhys A., Wang, Hui, Balloux, Francois

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A New Lineage of Cryptococcus gattii (VGV) Discovered in the Central Zambezian Miombo Woodlands von Farrer, Rhys A, Chang, Miwha, Davis, Michael J, van Dorp, Lucy, Yang, Dong-Hoon, Shea, Terrance, Sewell, Thomas R, Meyer, Wieland, Balloux, Francois, Edwards, Hannah M, Chanda, Duncan, Kwenda, Geoffrey, Vanhove, Mathieu, Chang, Yun C, Cuomo, Christina A, Fisher, Matthew C, Kwon-Chung, Kyung J

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Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii von Farrer, Rhys A, Desjardins, Christopher A, Sakthikumar, Sharadha, Gujja, Sharvari, Saif, Sakina, Zeng, Qiandong, Chen, Yuan, Voelz, Kerstin, Heitman, Joseph, May, Robin C, Fisher, Matthew C, Cuomo, Christina A

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Batrachochytrium salamandrivorans von Farrer, Rhys A.

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Strain and temperature dependent aggregation of Candida auris is attenuated by inhibition of surface amyloid proteins von Malavia-Jones, Dhara, Farrer, Rhys A., Stappers, Mark H.T., Edmondson, Matt B., Borman, Andrew M., Johnson, Elizabeth M., Lipke, Peter N., Gow, Neil A.R.

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Transmission of Hypervirulence traits via sexual reproduction within and between lineages of the human fungal pathogen cryptococcus gattii von Voelz, Kerstin, Ma, Hansong, Phadke, Sujal, Byrnes, Edmond J, Zhu, Pinkuan, Mueller, Olaf, Farrer, Rhys A, Henk, Daniel A, Lewit, Yonathan, Hsueh, Yen-Ping, Fisher, Matthew C, Idnurm, Alexander, Heitman, Joseph, May, Robin C

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Global analysis of mutations driving microevolution of a heterozygous diploid fungal pathogen von Ene, Iuliana V., Farrer, Rhys A., Hirakawa, Matthew P., Agwamba, Kennedy, Cuomo, Christina A., Bennett, Richard J.

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Two-speed genome evolution drives pathogenicity in fungal pathogens of animals von Wacker, Theresa, Helmstetter, Nicolas, Wilson, Duncan, Fisher, Matthew C, Studholme, David J, Farrer, Rhys A

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Genomic epidemiology of the UK outbreak of the emerging human fungal pathogen Candida auris von Rhodes, Johanna, Abdolrasouli, Alireza, Farrer, Rhys A., Cuomo, Christina A., Aanensen, David M., Armstrong-James, Darius, Fisher, Matthew C., Schelenz, Silke

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Population genetics and microevolution of clinical Candida glabrata reveals recombinant sequence types and hyper-variation within mitochondrial genomes, virulence genes, and drug t... von Helmstetter, Nicolas, Chybowska, Aleksandra D, Delaney, Christopher, Da Silva Dantas, Alessandra, Gifford, Hugh, Wacker, Theresa, Munro, Carol, Warris, Adilia, Jones, Brian, Cuomo, Christina A, Wilson, Duncan, Ramage, Gordon, Farrer, Rhys A

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