ArticleFrontiers in plant science2017
Analysis of Plant Pan-Genomes and Transcriptomes with GET_HOMOLOGUES-EST, a Clustering Solution for Sequences of the Same Species.
Article in Frontiers in plant science, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed.
- Biological and genomic resources for the cosmopolitan phytoplankton Bathycoccus: insights into genetic diversity and function of outlier chromosomes.The Plant journal : for cell and molecular biology · 2026Article
- From structural pangenomes to functional panomics in plants.Molecular biology and evolution · 2026Review
- Comparative genomics profiling of Citrus species reveals the diversity and disease responsiveness of the GLP pangenes family.BMC plant biology · 2025Article
- Current and future pangenomic research in cucurbit crops.Breeding science · 2025Article
- Comparative genomics and multiomics analyses reveal the evolution and physiological basis of rubber biosynthesis in Hevea species.GigaScience · 2025Article
- A stepwise guide for pangenome development in crop plants: an alfalfa (Medicago sativa) case study.BMC genomics · 2024Review
- Analyzes of pan-genome and resequencing atlas unveil the genetic basis of jujube domestication.Nature communications · 2024Article
- Technological Development and Advances for Constructing and Analyzing Plant Pangenomes.Genome biology and evolution · 2024Review
- A view of the pan-genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.).The plant genome · 2024Article
- Exploring the genetic makeup ofFrontiers in microbiology · 2024Article
- A comprehensive evaluation of the potential of three next-generation short-read-based plant pan-genome construction strategies for the identification of novel non-reference sequence.Frontiers in plant science · 2024Article
- Methods for Pangenomic Core Detection.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Evaluation of nuclear and mitochondrial phylogenetics for the subtyping of Cyclospora cayetanensis.Parasitology research · 2023Article
- GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation.Genome biology · 2023Article
- Interplay between transcriptional regulators and VapBC toxin-antitoxin loci during thermal stress response in extremely thermoacidophilic archaea.Environmental microbiology · 2023Article
- Citrus genomic resources unravel putative genetic determinants of Huanglongbing pathogenicity.iScience · 2023Article
- Resequencing of durian genomes reveals large genetic variations among different cultivars.Frontiers in plant science · 2023Article
- Mobile genetic elements drive the multidrug resistance and spread ofFrontiers in microbiology · 2023Article
- Patterns of pan-genome occupancy and gene coexpression under water-deficit in Brachypodium distachyon.Molecular ecology · 2022Article
- Population genomics of the grapevine pathogen Eutypa lata reveals evidence for population expansion and intraspecific differences in secondary metabolite gene clusters.PLoS genetics · 2022Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The pan-genome of a species is defined as the union of all the genes and non-coding sequences found in all its individuals. However, constructing a pan-genome for plants with large genomes is daunting both in sequencing cost and the scale of the required computational analysis. A more affordable alternative is to focus on the genic repertoire by using transcriptomic data. Here, the software GET_HOMOLOGUES-EST was benchmarked with genomic and RNA-seq data of 19
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