Shen XX - Search Results

1

A Genome-Scale Investigation of How Sequence, Function, and Tree-Based Gene Properties Influence Phylogenetic Inference.

Shen XX, Salichos L, Rokas A. Shen XX, et al. Genome Biol Evol. 2016 Sep 2;8(8):2565-80. doi: 10.1093/gbe/evw179. Genome Biol Evol. 2016. PMID: 27492233 Free PMC article.

2

Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data.

Shen XX, Zhou X, Kominek J, Kurtzman CP, Hittinger CT, Rokas A. Shen XX, et al. G3 (Bethesda). 2016 Dec 7;6(12):3927-3939. doi: 10.1534/g3.116.034744. G3 (Bethesda). 2016. PMID: 27672114 Free PMC article.

3

Contentious relationships in phylogenomic studies can be driven by a handful of genes.

Shen XX, Hittinger CT, Rokas A. Shen XX, et al. Nat Ecol Evol. 2017 Apr 10;1(5):126. doi: 10.1038/s41559-017-0126. Nat Ecol Evol. 2017. PMID: 28812701 Free PMC article.

4

Selective base excision repair of DNA damage by the non-base-flipping DNA glycosylase AlkC.

Shi R, Mullins EA, Shen XX, Lay KT, Yuen PK, David SS, Rokas A, Eichman BF. Shi R, et al. Among authors: shen xx. EMBO J. 2018 Jan 4;37(1):63-74. doi: 10.15252/embj.201797833. Epub 2017 Oct 20. EMBO J. 2018. PMID: 29054852 Free PMC article.

5

Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets.

Zhou X, Shen XX, Hittinger CT, Rokas A. Zhou X, et al. Among authors: shen xx. Mol Biol Evol. 2018 Feb 1;35(2):486-503. doi: 10.1093/molbev/msx302. Mol Biol Evol. 2018. PMID: 29177474 Free PMC article.

6

Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage.

Gonçalves C, Wisecaver JH, Kominek J, Oom MS, Leandro MJ, Shen XX, Opulente DA, Zhou X, Peris D, Kurtzman CP, Hittinger CT, Rokas A, Gonçalves P. Gonçalves C, et al. Among authors: shen xx. Elife. 2018 Apr 12;7:e33034. doi: 10.7554/eLife.33034. Elife. 2018. PMID: 29648535 Free PMC article.

7

Evolutionary instability of CUG-Leu in the genetic code of budding yeasts.

Krassowski T, Coughlan AY, Shen XX, Zhou X, Kominek J, Opulente DA, Riley R, Grigoriev IV, Maheshwari N, Shields DC, Kurtzman CP, Hittinger CT, Rokas A, Wolfe KH. Krassowski T, et al. Among authors: shen xx. Nat Commun. 2018 May 14;9(1):1887. doi: 10.1038/s41467-018-04374-7. Nat Commun. 2018. PMID: 29760453 Free PMC article.

8

Structural Biology of the HEAT-Like Repeat Family of DNA Glycosylases.

Shi R, Shen XX, Rokas A, Eichman BF. Shi R, et al. Among authors: shen xx. Bioessays. 2018 Nov;40(11):e1800133. doi: 10.1002/bies.201800133. Epub 2018 Sep 28. Bioessays. 2018. PMID: 30264543 Review.

9

Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts.

Krause DJ, Kominek J, Opulente DA, Shen XX, Zhou X, Langdon QK, DeVirgilio J, Hulfachor AB, Kurtzman CP, Rokas A, Hittinger CT. Krause DJ, et al. Among authors: shen xx. Proc Natl Acad Sci U S A. 2018 Oct 23;115(43):11030-11035. doi: 10.1073/pnas.1806268115. Epub 2018 Oct 8. Proc Natl Acad Sci U S A. 2018. PMID: 30297402 Free PMC article.

10

Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum.

Shen XX, Opulente DA, Kominek J, Zhou X, Steenwyk JL, Buh KV, Haase MAB, Wisecaver JH, Wang M, Doering DT, Boudouris JT, Schneider RM, Langdon QK, Ohkuma M, Endoh R, Takashima M, Manabe RI, Čadež N, Libkind D, Rosa CA, DeVirgilio J, Hulfachor AB, Groenewald M, Kurtzman CP, Hittinger CT, Rokas A. Shen XX, et al. Cell. 2018 Nov 29;175(6):1533-1545.e20. doi: 10.1016/j.cell.2018.10.023. Epub 2018 Nov 8. Cell. 2018. PMID: 30415838 Free PMC article.

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