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Long-read sequencing based clinical metagenomics for the detection and confirmation of Pneumocystis jirovecii directly from clinical specimens: A paradigm shift in mycological diagnostics.
Irinyi L, Hu Y, Hoang MTV, Pasic L, Halliday C, Jayawardena M, Basu I, McKinney W, Morris AJ, Rathjen J, Stone E, Chen S, Sorrell TC, Schwessinger B, Meyer W. Irinyi L, et al. Among authors: hu y. Med Mycol. 2020 Jul 1;58(5):650-660. doi: 10.1093/mmy/myz109. Med Mycol. 2020. PMID: 31758176
The stem rust fungus Puccinia graminis f. sp. tritici induces centromeric small RNAs during late infection that are associated with genome-wide DNA methylation.
Sperschneider J, Jones AW, Nasim J, Xu B, Jacques S, Zhong C, Upadhyaya NM, Mago R, Hu Y, Figueroa M, Singh KB, Stone EA, Schwessinger B, Wang MB, Taylor JM, Dodds PN. Sperschneider J, et al. Among authors: hu y. BMC Biol. 2021 Sep 15;19(1):203. doi: 10.1186/s12915-021-01123-z. BMC Biol. 2021. PMID: 34526021 Free PMC article.
Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data.
Duan H, Jones AW, Hewitt T, Mackenzie A, Hu Y, Sharp A, Lewis D, Mago R, Upadhyaya NM, Rathjen JP, Stone EA, Schwessinger B, Figueroa M, Dodds PN, Periyannan S, Sperschneider J. Duan H, et al. Among authors: hu y. Genome Biol. 2022 Mar 25;23(1):84. doi: 10.1186/s13059-022-02658-2. Genome Biol. 2022. PMID: 35337367 Free PMC article.
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