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Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms.
Speiser DI, Pankey MS, Zaharoff AK, Battelle BA, Bracken-Grissom HD, Breinholt JW, Bybee SM, Cronin TW, Garm A, Lindgren AR, Patel NH, Porter ML, Protas ME, Rivera AS, Serb JM, Zigler KS, Crandall KA, Oakley TH. Speiser DI, et al. Among authors: bybee sm. BMC Bioinformatics. 2014 Nov 19;15(1):350. doi: 10.1186/s12859-014-0350-x. BMC Bioinformatics. 2014. PMID: 25407802 Free PMC article.
The OGCleaner: filtering false-positive homology clusters.
Fujimoto MS, Suvorov A, Jensen NO, Clement MJ, Snell Q, Bybee SM. Fujimoto MS, et al. Among authors: bybee sm. Bioinformatics. 2017 Jan 1;33(1):125-127. doi: 10.1093/bioinformatics/btw571. Epub 2016 Sep 10. Bioinformatics. 2017. PMID: 27614349
Phylogeny and classification of Odonata using targeted genomics.
Bybee SM, Kalkman VJ, Erickson RJ, Frandsen PB, Breinholt JW, Suvorov A, Dijkstra KB, Cordero-Rivera A, Skevington JH, Abbott JC, Sanchez Herrera M, Lemmon AR, Moriarty Lemmon E, Ware JL. Bybee SM, et al. Mol Phylogenet Evol. 2021 Jul;160:107115. doi: 10.1016/j.ympev.2021.107115. Epub 2021 Feb 18. Mol Phylogenet Evol. 2021. PMID: 33609713 Free article.
39 results