List of works - Xing-Xing Shen

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

scientific article published on 04 August 2016

A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera Aspergillus and Penicillium

scientific article published on 09 July 2019

A robust phylogenomic timetree for biotechnologically and medically important fungi from Aspergillaceae (Eurotiomycetes, Ascomycota)

An investigation of irreproducibility in maximum likelihood phylogenetic inference

scientific article published on 30 November 2020

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

scientific article published on 10 April 2017

Enlarged Multilocus Data set Provides Surprisingly Younger Time of Origin for the Plethodontidae, the Largest Family of Salamanders

scientific article

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

scholarly article published 25 May 2017

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

scientific article published on 12 April 2018

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

scientific article

Extensive loss of cell cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts

article

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

article

Feature frequency profile-based phylogenies are inaccurate

scientific article published on 24 November 2020

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

article published in the Proceedings of the National Academy of Sciences of the United States of America

Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota

scientific article published on 04 November 2020

Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts

scientific article published on 25 April 2024

Genomic features and evolution of the conditionally dispensable chromosome in the tangerine pathotype ofAlternaria alternata

Multiple genome alignments facilitate development of NPCL markers: a case study of tetrapod phylogeny focusing on the position of turtles.

scientific article

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

scientific article (publication date: 7 December 2016)

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

scientific article published on 20 October 2017

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

scientific article published on 28 September 2018

Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum

scientific article published on 08 November 2018

The development of three long universal nuclear protein-coding locus markers and their application to osteichthyan phylogenetics with nested PCR

scientific article (publication date: 2012)

List of works by Xing-Xing Shen

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

A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera Aspergillus and Penicillium

A robust phylogenomic timetree for biotechnologically and medically important fungi from Aspergillaceae (Eurotiomycetes, Ascomycota)

An investigation of irreproducibility in maximum likelihood phylogenetic inference

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

Enlarged Multilocus Data set Provides Surprisingly Younger Time of Origin for the Plethodontidae, the Largest Family of Salamanders

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

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

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

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

Feature frequency profile-based phylogenies are inaccurate

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

Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota

Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts

Genomic features and evolution of the conditionally dispensable chromosome in the tangerine pathotype ofAlternaria alternata

Multiple genome alignments facilitate development of NPCL markers: a case study of tetrapod phylogeny focusing on the position of turtles.

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

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

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

Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum

The development of three long universal nuclear protein-coding locus markers and their application to osteichthyan phylogenetics with nested PCR