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BioVeL: a virtual laboratory for data analysis and modelling in biodiversity science and ecology.
Hardisty AR, Bacall F, Beard N, Balcázar-Vargas MP, Balech B, Barcza Z, Bourlat SJ, De Giovanni R, de Jong Y, De Leo F, Dobor L, Donvito G, Fellows D, Guerra AF, Ferreira N, Fetyukova Y, Fosso B, Giddy J, Goble C, Güntsch A, Haines R, Ernst VH, Hettling H, Hidy D, Horváth F, Ittzés D, Ittzés P, Jones A, Kottmann R, Kulawik R, Leidenberger S, Lyytikäinen-Saarenmaa P, Mathew C, Morrison N, Nenadic A, de la Hidalga AN, Obst M, Oostermeijer G, Paymal E, Pesole G, Pinto S, Poigné A, Fernandez FQ, Santamaria M, Saarenmaa H, Sipos G, Sylla KH, Tähtinen M, Vicario S, Vos RA, Williams AR, Yilmaz P. Hardisty AR, et al. Among authors: santamaria m. BMC Ecol. 2016 Oct 20;16(1):49. doi: 10.1186/s12898-016-0103-y. BMC Ecol. 2016. PMID: 27765035 Free PMC article.
BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS.
Fosso B, Santamaria M, Marzano M, Alonso-Alemany D, Valiente G, Donvito G, Monaco A, Notarangelo P, Pesole G. Fosso B, et al. Among authors: santamaria m. BMC Bioinformatics. 2015 Jul 1;16:203. doi: 10.1186/s12859-015-0595-z. BMC Bioinformatics. 2015. PMID: 26130132 Free PMC article.
Building essential biodiversity variables (EBVs) of species distribution and abundance at a global scale.
Kissling WD, Ahumada JA, Bowser A, Fernandez M, Fernández N, García EA, Guralnick RP, Isaac NJB, Kelling S, Los W, McRae L, Mihoub JB, Obst M, Santamaria M, Skidmore AK, Williams KJ, Agosti D, Amariles D, Arvanitidis C, Bastin L, De Leo F, Egloff W, Elith J, Hobern D, Martin D, Pereira HM, Pesole G, Peterseil J, Saarenmaa H, Schigel D, Schmeller DS, Segata N, Turak E, Uhlir PF, Wee B, Hardisty AR. Kissling WD, et al. Among authors: santamaria m. Biol Rev Camb Philos Soc. 2018 Feb;93(1):600-625. doi: 10.1111/brv.12359. Epub 2017 Aug 2. Biol Rev Camb Philos Soc. 2018. PMID: 28766908 Review.
ITSoneWB: profiling global taxonomic diversity of eukaryotic communities on Galaxy.
Tangaro MA, Defazio G, Fosso B, Licciulli VF, Grillo G, Donvito G, Lavezzo E, Baruzzo G, Pesole G, Santamaria M. Tangaro MA, et al. Among authors: santamaria m. Bioinformatics. 2021 Nov 18;37(22):4253-4254. doi: 10.1093/bioinformatics/btab431. Bioinformatics. 2021. PMID: 34117876 Free PMC article.
The metagenomic data life-cycle: standards and best practices.
Ten Hoopen P, Finn RD, Bongo LA, Corre E, Fosso B, Meyer F, Mitchell A, Pelletier E, Pesole G, Santamaria M, Willassen NP, Cochrane G. Ten Hoopen P, et al. Among authors: santamaria m. Gigascience. 2017 Aug 1;6(8):1-11. doi: 10.1093/gigascience/gix047. Gigascience. 2017. PMID: 28637310 Free PMC article.
Reference databases for taxonomic assignment in metagenomics.
Santamaria M, Fosso B, Consiglio A, De Caro G, Grillo G, Licciulli F, Liuni S, Marzano M, Alonso-Alemany D, Valiente G, Pesole G. Santamaria M, et al. Brief Bioinform. 2012 Nov;13(6):682-95. doi: 10.1093/bib/bbs036. Epub 2012 Jul 10. Brief Bioinform. 2012. PMID: 22786784 Review.
590 results