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Metagenomic species profiling using universal phylogenetic marker genes.
Sunagawa S, Mende DR, Zeller G, Izquierdo-Carrasco F, Berger SA, Kultima JR, Coelho LP, Arumugam M, Tap J, Nielsen HB, Rasmussen S, Brunak S, Pedersen O, Guarner F, de Vos WM, Wang J, Li J, Doré J, Ehrlich SD, Stamatakis A, Bork P. Sunagawa S, et al. Among authors: berger sa. Nat Methods. 2013 Dec;10(12):1196-9. doi: 10.1038/nmeth.2693. Epub 2013 Oct 20. Nat Methods. 2013. PMID: 24141494
RAxML-Light: a tool for computing terabyte phylogenies.
Stamatakis A, Aberer AJ, Goll C, Smith SA, Berger SA, Izquierdo-Carrasco F. Stamatakis A, et al. Among authors: berger sa. Bioinformatics. 2012 Aug 1;28(15):2064-6. doi: 10.1093/bioinformatics/bts309. Epub 2012 May 24. Bioinformatics. 2012. PMID: 22628519 Free PMC article.
Phylogenomics resolves the timing and pattern of insect evolution.
Misof B, Liu S, Meusemann K, Peters RS, Donath A, Mayer C, Frandsen PB, Ware J, Flouri T, Beutel RG, Niehuis O, Petersen M, Izquierdo-Carrasco F, Wappler T, Rust J, Aberer AJ, Aspöck U, Aspöck H, Bartel D, Blanke A, Berger S, Böhm A, Buckley TR, Calcott B, Chen J, Friedrich F, Fukui M, Fujita M, Greve C, Grobe P, Gu S, Huang Y, Jermiin LS, Kawahara AY, Krogmann L, Kubiak M, Lanfear R, Letsch H, Li Y, Li Z, Li J, Lu H, Machida R, Mashimo Y, Kapli P, McKenna DD, Meng G, Nakagaki Y, Navarrete-Heredia JL, Ott M, Ou Y, Pass G, Podsiadlowski L, Pohl H, von Reumont BM, Schütte K, Sekiya K, Shimizu S, Slipinski A, Stamatakis A, Song W, Su X, Szucsich NU, Tan M, Tan X, Tang M, Tang J, Timelthaler G, Tomizuka S, Trautwein M, Tong X, Uchifune T, Walzl MG, Wiegmann BM, Wilbrandt J, Wipfler B, Wong TK, Wu Q, Wu G, Xie Y, Yang S, Yang Q, Yeates DK, Yoshizawa K, Zhang Q, Zhang R, Zhang W, Zhang Y, Zhao J, Zhou C, Zhou L, Ziesmann T, Zou S, Li Y, Xu X, Zhang Y, Yang H, Wang J, Wang J, Kjer KM, Zhou X. Misof B, et al. Science. 2014 Nov 7;346(6210):763-7. doi: 10.1126/science.1257570. Epub 2014 Nov 6. Science. 2014. PMID: 25378627
libgapmis: extending short-read alignments.
Alachiotis N, Berger S, Flouri T, Pissis SP, Stamatakis A. Alachiotis N, et al. BMC Bioinformatics. 2013;14 Suppl 11(Suppl 11):S4. doi: 10.1186/1471-2105-14-S11-S4. Epub 2013 Nov 4. BMC Bioinformatics. 2013. PMID: 24564250 Free PMC article.
What makes a cyanobacterial bloom disappear? A review of the abiotic and biotic cyanobacterial bloom loss factors.
Harris TD, Reinl KL, Azarderakhsh M, Berger SA, Berman MC, Bizic M, Bhattacharya R, Burnet SH, Cianci-Gaskill JA, Domis LNS, Elfferich I, Ger KA, Grossart HF, Ibelings BW, Ionescu D, Kouhanestani ZM, Mauch J, McElarney YR, Nava V, North RL, Ogashawara I, Paule-Mercado MCA, Soria-Píriz S, Sun X, Trout-Haney JV, Weyhenmeyer GA, Yokota K, Zhan Q. Harris TD, et al. Among authors: berger sa. Harmful Algae. 2024 Mar;133:102599. doi: 10.1016/j.hal.2024.102599. Epub 2024 Feb 9. Harmful Algae. 2024. PMID: 38485445 Free article. Review.
212 results