{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["15"],"submitter":["Guenzi-Tiberi P"],"pubmed_abstract":["Extensive research has focused on exploring the range of genome sizes in eukaryotes, with a particular emphasis on land plants, where significant variability has been observed. Accurate estimation of genome size is essential for various research purposes, but existing sequence-based methods have limitations, particularly for low-coverage datasets. In this study, we introduce LocoGSE, a novel genome size estimator designed specifically for low-coverage datasets generated by genome skimming approaches. LocoGSE relies on mapping the reads on single copy consensus proteins without the need for a reference genome assembly. We calibrated LocoGSE using 430 low-coverage Angiosperm genome skimming datasets and compared its performance against other estimators. Our results demonstrate that LocoGSE a"],"journal":["Frontiers in plant science"],"pagination":["1328966"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC10972871"],"repository":["biostudies-literature"],"pubmed_title":["LocoGSE, a sequence-based genome size estimator for plants."],"pmcid":["PMC10972871"],"pubmed_authors":["Lavergne S","Istace B","Aury JM","Guenzi-Tiberi P","Alsos IG","Denoeud F","Coissac E"],"additional_accession":[]},"is_claimable":false,"name":"LocoGSE, a sequence-based genome size estimator for plants.","description":"Extensive research has focused on exploring the range of genome sizes in eukaryotes, with a particular emphasis on land plants, where significant variability has been observed. Accurate estimation of genome size is essential for various research purposes, but existing sequence-based methods have limitations, particularly for low-coverage datasets. In this study, we introduce LocoGSE, a novel genome size estimator designed specifically for low-coverage datasets generated by genome skimming approaches. LocoGSE relies on mapping the reads on single copy consensus proteins without the need for a reference genome assembly. We calibrated LocoGSE using 430 low-coverage Angiosperm genome skimming datasets and compared its performance against other estimators. Our results demonstrate that LocoGSE a","dates":{"release":"2024-01-01T00:00:00Z","publication":"2024","modification":"2025-04-04T20:47:21.789Z","creation":"2025-04-04T20:47:21.789Z"},"accession":"S-EPMC10972871","cross_references":{"pubmed":["38550287"],"doi":["10.3389/fpls.2024.1328966"]}}