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Critical Assessment of Metagenome Interpretation: the second round of challenges.
Meyer F, Fritz A, Deng ZL, Koslicki D, Lesker TR, Gurevich A, Robertson G, Alser M, Antipov D, Beghini F, Bertrand D, Brito JJ, Brown CT, Buchmann J, Buluç A, Chen B, Chikhi R, Clausen PTLC, Cristian A, Dabrowski PW, Darling AE, Egan R, Eskin E, Georganas E, Goltsman E, Gray MA, Hansen LH, Hofmeyr S, Huang P, Irber L, Jia H, Jørgensen TS, Kieser SD, Klemetsen T, Kola A, Kolmogorov M, Korobeynikov A, Kwan J, LaPierre N, Lemaitre C, Li C, Limasset A, Malcher-Miranda F, Mangul S, Marcelino VR, Marchet C, Marijon P, Meleshko D, Mende DR, Milanese A, Nagarajan N, Nissen J, Nurk S, Oliker L, Paoli L, Peterlongo P, Piro VC, Porter JS, Rasmussen S, Rees ER, Reinert K, Renard B, Robertsen EM, Rosen GL, Ruscheweyh HJ, Sarwal V, Segata N, Seiler E, Shi L, Sun F, Sunagawa S, Sørensen SJ, Thomas A, Tong C, Trajkovski M, Tremblay J, Uritskiy G, Vicedomini R, Wang Z, Wang Z, Wang Z, Warren A, Willassen NP, Yelick K, You R, Zeller G, Zhao Z, Zhu S, Zhu J, Garrido-Oter R, Gastmeier P, Hacquard S, Häußler S, Khaledi A, Maechler F, Mesny F, Radutoiu S, Schulze-Lefert P, Smit N, Strowig T, Bremges A, Sczyrba A, McHardy AC. Meyer F, et al. Among authors: hofmeyr s. Nat Methods. 2022 Apr;19(4):429-440. doi: 10.1038/s41592-022-01431-4. Epub 2022 Apr 8. Nat Methods. 2022. PMID: 35396482 Free PMC article.
The parallelism motifs of genomic data analysis.
Yelick K, Buluç A, Awan M, Azad A, Brock B, Egan R, Ekanayake S, Ellis M, Georganas E, Guidi G, Hofmeyr S, Selvitopi O, Teodoropol C, Oliker L. Yelick K, et al. Among authors: hofmeyr s. Philos Trans A Math Phys Eng Sci. 2020 Mar 6;378(2166):20190394. doi: 10.1098/rsta.2019.0394. Epub 2020 Jan 20. Philos Trans A Math Phys Eng Sci. 2020. PMID: 31955674 Free PMC article.
Terabase-scale metagenome coassembly with MetaHipMer.
Hofmeyr S, Egan R, Georganas E, Copeland AC, Riley R, Clum A, Eloe-Fadrosh E, Roux S, Goltsman E, Buluç A, Rokhsar D, Oliker L, Yelick K. Hofmeyr S, et al. Sci Rep. 2020 Jul 1;10(1):10689. doi: 10.1038/s41598-020-67416-5. Sci Rep. 2020. PMID: 32612216 Free PMC article.
Terabase-Scale Coassembly of a Tropical Soil Microbiome.
Riley R, Bowers RM, Camargo AP, Campbell A, Egan R, Eloe-Fadrosh EA, Foster B, Hofmeyr S, Huntemann M, Kellom M, Kimbrel JA, Oliker L, Yelick K, Pett-Ridge J, Salamov A, Varghese NJ, Clum A. Riley R, et al. Among authors: hofmeyr s. Microbiol Spectr. 2023 Aug 17;11(4):e0020023. doi: 10.1128/spectrum.00200-23. Epub 2023 Jun 13. Microbiol Spectr. 2023. PMID: 37310219 Free PMC article.
Combined hepatocellular-cholangiocarcinoma compared to hepatocellular carcinoma and intrahepatic cholangiocarcinoma: Different survival, similar recurrence: Report of a large study on repurposed databases with propensity score matching.
Amory B, Goumard C, Laurent A, Langella S, Cherqui D, Salame E, Barbier L, Soubrane O, Farges O, Hobeika C, Kawai T, Regimbeau JM, Faitot F, Pessaux P, Truant S, Boleslawski E, Herrero A, Mabrut JY, Chiche L, Di Martino M, Rhaiem R, Schwarz L, Resende V, Calderaro J, Augustin J, Caruso S, Sommacale D, Hofmeyr S, Ferrero A, Fuks D, Vibert E, Torzilli G, Scatton O, Brustia R; AFC-ICC-2009, AFC-LLR-2018, and PRS-2019 Study Group. Amory B, et al. Among authors: hofmeyr s. Surgery. 2024 Feb;175(2):413-423. doi: 10.1016/j.surg.2023.09.040. Epub 2023 Nov 18. Surgery. 2024. PMID: 37981553
22 results