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Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package.
Griffiths EJ, Timme RE, Mendes CI, Page AJ, Alikhan NF, Fornika D, Maguire F, Campos J, Park D, Olawoye IB, Oluniyi PE, Anderson D, Christoffels A, da Silva AG, Cameron R, Dooley D, Katz LS, Black A, Karsch-Mizrachi I, Barrett T, Johnston A, Connor TR, Nicholls SM, Witney AA, Tyson GH, Tausch SH, Raphenya AR, Alcock B, Aanensen DM, Hodcroft E, Hsiao WWL, Vasconcelos ATR, MacCannell DR. Griffiths EJ, et al. Among authors: fornika d. Gigascience. 2022 Feb 16;11:giac003. doi: 10.1093/gigascience/giac003. Gigascience. 2022. PMID: 35169842 Free PMC article.
MentaLiST - A fast MLST caller for large MLST schemes.
Feijao P, Yao HT, Fornika D, Gardy J, Hsiao W, Chauve C, Chindelevitch L. Feijao P, et al. Among authors: fornika d. Microb Genom. 2018 Feb;4(2):e000146. doi: 10.1099/mgen.0.000146. Epub 2018 Jan 10. Microb Genom. 2018. PMID: 29319471 Free PMC article.
Expanding the Galaxy's reference data.
VijayKrishna N, Joshi J, Coraor N, Hillman-Jackson J, Bouvier D, van den Beek M, Eguinoa I, Coppens F, Davis J, Stolarczyk M, Sheffield NC, Gladman S, Cuccuru G, Grüning B, Soranzo N, Rasche H, Langhorst BW, Bernt M, Fornika D, de Lima Morais DA, Barrette M, van Heusden P, Petrillo M, Puertas-Gallardo A, Patak A, Hotz HR, Blankenberg D. VijayKrishna N, et al. Among authors: fornika d. Bioinform Adv. 2022 Apr 29;2(1):vbac030. doi: 10.1093/bioadv/vbac030. eCollection 2022. Bioinform Adv. 2022. PMID: 35669346 Free PMC article.
Prevalence and type distribution of human papillomavirus in 5,000 British Columbia women--implications for vaccination.
Moore RA, Ogilvie G, Fornika D, Moravan V, Brisson M, Amirabbasi-Beik M, Kollar A, Burgess T, Hsu R, Towers L, Lo J, Matisic J, Brooks-Wilson A. Moore RA, et al. Among authors: fornika d. Cancer Causes Control. 2009 Oct;20(8):1387-96. doi: 10.1007/s10552-009-9365-4. Epub 2009 May 29. Cancer Causes Control. 2009. PMID: 19475481 Free PMC article.
Targeted error-suppressed quantification of circulating tumor DNA using semi-degenerate barcoded adapters and biotinylated baits.
Alcaide M, Yu S, Davidson J, Albuquerque M, Bushell K, Fornika D, Arthur S, Grande BM, McNamara S, Tertre MCD, Batist G, Huntsman DG, Cavallone L, Aguilar A, Basik M, Johnson NA, Deyell RJ, Rassekh SR, Morin RD. Alcaide M, et al. Among authors: fornika d. Sci Rep. 2017 Sep 5;7(1):10574. doi: 10.1038/s41598-017-10269-2. Sci Rep. 2017. PMID: 28874686 Free PMC article.
Genetic inactivation of TRAF3 in canine and human B-cell lymphoma.
Bushell KR, Kim Y, Chan FC, Ben-Neriah S, Jenks A, Alcaide M, Fornika D, Grande BM, Arthur S, Gascoyne RD, Steidl C, Morin RD. Bushell KR, et al. Among authors: fornika d. Blood. 2015 Feb 5;125(6):999-1005. doi: 10.1182/blood-2014-10-602714. Epub 2014 Dec 2. Blood. 2015. PMID: 25468570 Free article.
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