CITATION.cff

# YAML 1.2
---
authors:
  -
    family-names: Cozzuto
    given-names: Luca
    orcid: "https://orcid.org/0000-0003-3194-8892"
  -
    family-names: Mantica
    given-names: Federica
    orcid: "https://orcid.org/0000-0001-9794-9770"
  -
    family-names: Hermoso-Pulido
    given-names: Antonio
    orcid: "https://orcid.org/0000-0003-2016-6465"
cff-version: "1.2.0"
keywords:
  - exon
  - orthology
  - evolution
  - containerization
  - pipeline
  - reproducibility
license: MIT
message: "If you use this software, please cite it using these metadata."
repository-code: "https://github.com/biocorecrg/ExOrthist"
title: "ExOrthist: a tool to infer exon orthologies at any evolutionary distance"
preferred-citation:
  type: article
  authors:
    - family-names: Márquez
      given-names: Yamile
      orcid: "https://orcid.org/0000-0003-1686-5992"
    - family-names: Mantica
      given-names: Federica
      orcid: "https://orcid.org/0000-0001-9794-9770"
    - family-names: Cozzuto
      given-names: Luca
      orcid: "https://orcid.org/0000-0003-3194-8892"
    - family-names: Burguera
      given-names: Demian
      orcid: "https://orcid.org/0000-0001-8627-1634"
    - family-names: "Hermoso-Pulido"
      given-names: Antonio
      orcid: "https://orcid.org/0000-0003-2016-6465"
    - family-names: Ponomarenko
      given-names: Julia
      orcid: "https://orcid.org/0000-0002-1477-9444"
    - family-names: W. Roy
      given-names: Scott
    - family-names: Irimia
      given-names: Manuel
      orcid: "https://orcid.org/0000-0002-2179-2567"
  doi: "10.1186/s13059-021-02441-9"
  journal: "Genome Biology"
  title: "ExOrthist: a tool to infer exon orthologies at any evolutionary distance"
  abstract: "Several bioinformatic tools have been developed for genome-wide identification of orthologous and paralogous genes. However, no corresponding tool allows the detection of exon homology relationships. Here, we present ExOrthist, a fully reproducible Nextflow-based software enabling inference of exon homologs and orthogroups, visualization of evolution of exon-intron structures, and assessment of conservation of alternative splicing patterns. ExOrthist evaluates exon sequence conservation and considers the surrounding exon-intron context to derive genome-wide multi-species exon homologies at any evolutionary distance. We demonstrate its use in different evolutionary scenarios: whole genome duplication in frogs and convergence of Nova-regulated splicing networks (https://github.com/biocorecrg/ExOrthist)."
  year: 2021
  volume: 22
  number: 1
  issn: 1474-760X
...