Evolutionary Retention and Lineage-Specific Expansion of Whole-Genome-Duplication-Derived Gene Families in Cyprinid Fishes

<p dir="ltr">This repository contains the computational datasets, intermediate outputs, </p><p dir="ltr">and analysis scripts supporting the study:</p><p><br></p><p dir="ltr">"Evolutionary Retention and Lineage-Specific Expansion of </p><p dir="ltr">Whole-Genome-Duplication-Derived Gene Families in Cyprinid Fishes"</p><p><br></p><p dir="ltr">The study investigates the evolutionary fate of duplicated gene families </p><p dir="ltr">following whole-genome duplication in cyprinid fishes through comparative </p><p dir="ltr">genomics, orthogroup inference, synteny analysis, molecular evolution </p><p dir="ltr">analysis, and integrated evolutionary modelling.</p><p><br></p><p dir="ltr">The repository includes:</p><p dir="ltr">(1) OrthoFinder orthogroup results,</p><p dir="ltr">(2) MCScan synteny evidence,</p><p dir="ltr">(3) Ka/Ks analysis inputs and outputs,</p><p dir="ltr">(4) duplication age estimation results,</p><p dir="ltr">(5) integrated evolutionary model tables,</p><p dir="ltr">and (6) complete computational scripts.</p><p><br></p><p dir="ltr">Genome assemblies used in this study were obtained from publicly available </p><p dir="ltr">Ensembl resources and are not redistributed here.</p>