ArticleGenes2019
Pangloss: A Tool for Pan-Genome Analysis of Microbial Eukaryotes.
Article in Genes, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Insights into the Genomic and Phenotypic Landscape of the Oleaginous YeastJournal of fungi (Basel, Switzerland) · 2023Article
- Using bacterial pan-genome-based feature selection approach to improve the prediction of minimum inhibitory concentration (MIC).Frontiers in genetics · 2023Article
- First Isolation ofPathogens (Basel, Switzerland) · 2022Article
- The pangenome of the wheat pathogen Pyrenophora tritici-repentis reveals novel transposons associated with necrotrophic effectors ToxA and ToxB.BMC biology · 2022Article
- Pan-Genomes Provide Insights into the Genetic Basis ofJournal of fungi (Basel, Switzerland) · 2022Article
- Giant Starship Elements Mobilize Accessory Genes in Fungal Genomes.Molecular biology and evolution · 2022Article
- Genome, transcriptome and secretome analyses of the antagonistic, yeast-like fungusMicrobial cell (Graz, Austria) · 2021Article
- Review
- Categorization of Orthologous Gene Clusters in 92 Ascomycota Genomes Reveals Functions Important for Phytopathogenicity.Journal of fungi (Basel, Switzerland) · 2021Article
- Whole Genome Sequence of the Commercially Relevant Mushroom StrainG3 (Bethesda, Md.) · 2019Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Although the pan-genome concept originated in prokaryote genomics, an increasing number of eukaryote species pan-genomes have also been analysed. However, there is a relative lack of software intended for eukaryote pan-genome analysis compared to that available for prokaryotes. In a previous study, we analysed the pan-genomes of four model fungi with a computational pipeline that constructed pan-genomes using the synteny-dependent Pan-genome Ortholog Clustering Tool (PanOCT) approach. Here, we present a modified and improved version of that pipeline which we have called Pangloss. Pangloss can perform gene prediction for a set of genomes from a given species that the user provides, constructs and optionally refines a species pan-genome from that set using PanOCT, and can perform various functional characterisation and visualisation analyses of species pan-genome data. To demonstrate Pangloss's capabilities, we constructed and analysed a species pan-genome for the oleaginous yeast
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.