Hakutulokset - Xing‐Xing Shen

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  1. 1
    One Thousand Two Hundred Ninety Nuclear Genes from a Genome-Wide Survey Support Lungfishes as the Sister Group of Tetrapods

    One Thousand Two Hundred Ninety Nuclear Genes from a Genome-Wide Survey Support Lungfishes as the Sister Group of Tetrapods Tekijä Dan Liang, Xing‐Xing Shen, Peng Zhang

    Julkaistu 2013
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  2. 2
    A Genome-Scale Investigation of How Sequence, Function, and Tree-Based Gene Properties Influence Phylogenetic Inference

    A Genome-Scale Investigation of How Sequence, Function, and Tree-Based Gene Properties Influence Phylogenetic Inference Tekijä Xing‐Xing Shen, Leonidas Salichos, Antonis Rokas

    Julkaistu 2016
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  3. 3
    Multiple Genome Alignments Facilitate Development of NPCL Markers: A Case Study of Tetrapod Phylogeny Focusing on the Position of Turtles

    Multiple Genome Alignments Facilitate Development of NPCL Markers: A Case Study of Tetrapod Phylogeny Focusing on the Position of Turtles Tekijä Xing‐Xing Shen, Dan Liang, Jianping Wen, Ping Zhang

    Julkaistu 2011
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  4. 4
    Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets

    Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets Tekijä Xiaofan Zhou, Xing‐Xing Shen, Chris Todd Hittinger, Antonis Rokas

    Julkaistu 2017
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  5. 5
    A robust phylogenomic timetree for biotechnologically and medically important fungi in the genera <i>Aspergillus</i> and <i>Penicillium</i>

    A robust phylogenomic timetree for biotechnologically and medically important fungi in the genera <i>Aspergillus</i> and <i>Penicillium</i> Tekijä Jacob L. Steenwyk, Xing‐Xing Shen, Abigail Lind, Gustavo H. Goldman, Antonis Rokas

    Julkaistu 2018
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  6. 6
    A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera <i>Aspergillus</i> and <i>Penicillium</i>

    A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera <i>Aspergillus</i> and <i>Penicillium</i> Tekijä Jacob L. Steenwyk, Xing‐Xing Shen, Abigail Lind, Gustavo H. Goldman, Antonis Rokas

    Julkaistu 2019
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  7. 7
    ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference

    ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference Tekijä Jacob L. Steenwyk, Thomas J. Buida, Yuanning Li, Xing‐Xing Shen, Antonis Rokas

    Julkaistu 2020
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  8. 8
    An investigation of irreproducibility in maximum likelihood phylogenetic inference

    An investigation of irreproducibility in maximum likelihood phylogenetic inference Tekijä Xing‐Xing Shen, Yuanning Li, Chris Todd Hittinger, Xue‐Xin Chen, Antonis Rokas

    Julkaistu 2020
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  9. 9
    Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data

    Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data Tekijä Xing‐Xing Shen, Xiaofan Zhou, Jacek Kominek, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas

    Julkaistu 2016
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  10. 10
    OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

    OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees Tekijä Jacob L. Steenwyk, Dayna Goltz, Thomas J. Buida, Yuanning Li, Xing‐Xing Shen, Antonis Rokas

    Julkaistu 2022
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  11. 11
    PhyKIT: a broadly applicable UNIX shell toolkit for processing and analyzing phylogenomic data

    PhyKIT: a broadly applicable UNIX shell toolkit for processing and analyzing phylogenomic data Tekijä Jacob L. Steenwyk, Thomas J. Buida, Abigail L. LaBella, Yuanning Li, Xing‐Xing Shen, Antonis Rokas

    Julkaistu 2021
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  12. 12
    Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts

    Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts Tekijä David Krause, Jacek Kominek, Dana A. Opulente, Xing‐Xing Shen, Xiaofan Zhou, Quinn K. Langdon, Jeremy DeVirgilio, Amanda Beth Hulfachor, Cletus P. Kurtzman, Antonis Rokas, Chris Todd Hittinger

    Julkaistu 2018
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  13. 13
    Saccharomycotina yeasts defy long-standing macroecological patterns

    Saccharomycotina yeasts defy long-standing macroecological patterns Tekijä Kyle T. David, Marie‐Claire Harrison, Dana A. Opulente, Abigail L. LaBella, John F. Wolters, Xiaofan Zhou, Xing‐Xing Shen, Marizeth Groenewald, Matt Pennell, Chris Todd Hittinger, Antonis Rokas

    Julkaistu 2024
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  14. 14
    Eukaryotic Acquisition of a Bacterial Operon

    Eukaryotic Acquisition of a Bacterial Operon Tekijä Jacek Kominek, Drew T. Doering, Dana A. Opulente, Xing‐Xing Shen, Xiaofan Zhou, Jeremy DeVirgilio, Amanda Beth Hulfachor, Marizeth Groenewald, Mcsean A. Mcgee, Steven D. Karlen, Cletus P. Kurtzman, Antonis Rokas, Chris Todd Hittinger

    Julkaistu 2019
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  15. 15
    Evolutionary instability of CUG-Leu in the genetic code of budding yeasts

    Evolutionary instability of CUG-Leu in the genetic code of budding yeasts Tekijä Tadeusz Krassowski, Aisling Y. Coughlan, Xing‐Xing Shen, Xiaofan Zhou, Jacek Kominek, Dana A. Opulente, Robert Riley, Igor V. Grigoriev, Nikunj Maheshwari, Denis C. Shields, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas, Kenneth H. Wolfe

    Julkaistu 2018
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  16. 16
    Convergent expansions of keystone gene families drive metabolic innovation in Saccharomycotina yeasts

    Convergent expansions of keystone gene families drive metabolic innovation in Saccharomycotina yeasts Tekijä Kyle T. David, Joshua G. Schraiber, Johnathan G. Crandall, Abigail L. LaBella, Dana A. Opulente, Marie‐Claire Harrison, John F. Wolters, Xiaofan Zhou, Xing‐Xing Shen, Marizeth Groenewald, Chris Todd Hittinger, Matthew W. Pennell, Antonis Rokas

    Julkaistu 2025
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  17. 17
    PhyloFisher: A phylogenomic package for resolving eukaryotic relationships

    PhyloFisher: A phylogenomic package for resolving eukaryotic relationships Tekijä Alexander K. Tice, David Žihala, Tomáš Pánek, Robert E. Jones, Eric D. Salomaki, Serafim Nenarokov, Fabien Burki, Marek Eliáš, Laura Eme, Andrew J. Roger, Antonis Rokas, Xing‐Xing Shen, Jürgen F. H. Strassert, Martin Kolísko, Matthew W. Brown

    Julkaistu 2021
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  18. 18
    Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts

    Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts Tekijä Jacob L. Steenwyk, Dana A. Opulente, Jacek Kominek, Xing‐Xing Shen, Xiaofan Zhou, Abigail L. LaBella, Noah P. Bradley, Brandt F. Eichman, Neža Čadež, Diego Libkind, Jeremy DeVirgilio, Amanda Beth Hulfachor, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas

    Julkaistu 2019
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  19. 19
    Prickly waterlily and rigid hornwort genomes shed light on early angiosperm evolution

    Prickly waterlily and rigid hornwort genomes shed light on early angiosperm evolution Tekijä Yongzhi Yang, Pengchuan Sun, Leke Lv, Donglei Wang, Dafu Ru, Ying Li, Tao Ma, Lei Zhang, Xing‐Xing Shen, Fanbo Meng, Beibei Jiao, Lanxing Shan, Man Liu, Qingfeng Wang, Zhiji Qin, Zhenxiang Xi, Xiyin Wang, Charles C. Davis, Jianquan Liu

    Julkaistu 2020
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  20. 20
    Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum

    Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum Tekijä Xing‐Xing Shen, Dana A. Opulente, Jacek Kominek, Xiaofan Zhou, Jacob L. Steenwyk, Kelly V. Buh, Max A. B. Haase, Jennifer H. Wisecaver, Mingshuang Wang, Drew T. Doering, James T. Boudouris, Rachel M. Schneider, Quinn K. Langdon, Moriya Ohkuma, Rikiya Endoh, Masako Takashima, Ri‐Ichiroh Manabe, Neža Čadež, Diego Libkind, Carlos A. Rosa, Jeremy DeVirgilio, Amanda Beth Hulfachor, Marizeth Groenewald, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas

    Julkaistu 2018
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