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Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations.
McNally A, Oren Y, Kelly D, Pascoe B, Dunn S, Sreecharan T, Vehkala M, Välimäki N, Prentice MB, Ashour A, Avram O, Pupko T, Dobrindt U, Literak I, Guenther S, Schaufler K, Wieler LH, Zhiyong Z, Sheppard SK, McInerney JO, Corander J. McNally A, et al. Among authors: pupko t. PLoS Genet. 2016 Sep 12;12(9):e1006280. doi: 10.1371/journal.pgen.1006280. eCollection 2016 Sep. PLoS Genet. 2016. PMID: 27618184 Free PMC article.
The "alternative" choice of constitutive exons throughout evolution.
Lev-Maor G, Goren A, Sela N, Kim E, Keren H, Doron-Faigenboim A, Leibman-Barak S, Pupko T, Ast G. Lev-Maor G, et al. Among authors: pupko t. PLoS Genet. 2007 Nov;3(11):e203. doi: 10.1371/journal.pgen.0030203. PLoS Genet. 2007. PMID: 18020709 Free PMC article.
Transfer of noncoding DNA drives regulatory rewiring in bacteria.
Oren Y, Smith MB, Johns NI, Kaplan Zeevi M, Biran D, Ron EZ, Corander J, Wang HH, Alm EJ, Pupko T. Oren Y, et al. Among authors: pupko t. Proc Natl Acad Sci U S A. 2014 Nov 11;111(45):16112-7. doi: 10.1073/pnas.1413272111. Epub 2014 Oct 13. Proc Natl Acad Sci U S A. 2014. PMID: 25313052 Free PMC article.
Inferring Indel Parameters using a Simulation-based Approach.
Levy Karin E, Rabin A, Ashkenazy H, Shkedy D, Avram O, Cartwright RA, Pupko T. Levy Karin E, et al. Among authors: pupko t. Genome Biol Evol. 2015 Nov 3;7(12):3226-38. doi: 10.1093/gbe/evv212. Genome Biol Evol. 2015. PMID: 26537226 Free PMC article.
ASAP - A Webserver for Immunoglobulin-Sequencing Analysis Pipeline.
Avram O, Vaisman-Mentesh A, Yehezkel D, Ashkenazy H, Pupko T, Wine Y. Avram O, et al. Among authors: pupko t. Front Immunol. 2018 Jul 30;9:1686. doi: 10.3389/fimmu.2018.01686. eCollection 2018. Front Immunol. 2018. PMID: 30105017 Free PMC article.
130 results