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The Quest for Orthologs benchmark service and consensus calls in 2020.

  • Altenhoff AM SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland.
  • Garrayo-Ventas J Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain.
  • Cosentino S Department of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.
  • Emms D Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, UK.
  • Glover NM SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland.
  • Hernández-Plaza A Centro de Biotecnologia y Genomica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo-UPM, 28223, Pozuelo de Alarcón, Madrid, Spain.
  • Nevers Y SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland.
  • Sundesha V Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain.
  • Szklarczyk D SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland.
  • Fernández JM Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain.
  • Codó L Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain.
  • For Orthologs Consortium TQ Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain.
  • Gelpi JL Centro de Biotecnologia y Genomica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo-UPM, 28223, Pozuelo de Alarcón, Madrid, Spain.
  • Huerta-Cepas J Department of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.
  • Iwasaki W Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, UK.
  • Kelly S Department of Computer Science, ICube, UMR 7357, University of Strasbourg, CNRS, Fédération de Médecine Translationnelle de Strasbourg, Strasbourg, France.
  • Lecompte O European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.
  • Muffato M European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.
  • Martin MJ Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain.
  • Capella-Gutierrez S Division of Bioinformatics, Department of Preventive Medicine, University of Southern California, Los Angeles, USA.
  • Thomas PD Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Solna, Sweden.
  • Sonnhammer E SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland.
  • Dessimoz C
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  • 2020-05-07
Published in:
  • Nucleic acids research. - 2020
Animals
Benchmarking
Consensus
Genomics
Humans
Mice
Multigene Family
Phylogeny
Proteome
Rats
Software
English The identification of orthologs-genes in different species which descended from the same gene in their last common ancestor-is a prerequisite for many analyses in comparative genomics and molecular evolution. Numerous algorithms and resources have been conceived to address this problem, but benchmarking and interpreting them is fraught with difficulties (need to compare them on a common input dataset, absence of ground truth, computational cost of calling orthologs). To address this, the Quest for Orthologs consortium maintains a reference set of proteomes and provides a web server for continuous orthology benchmarking (http://orthology.benchmarkservice.org). Furthermore, consensus ortholog calls derived from public benchmark submissions are provided on the Alliance of Genome Resources website, the joint portal of NIH-funded model organism databases.
Language
  • English
Open access status
gold
Identifiers
Persistent URL
https://sonar.rero.ch/global/documents/119635
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