Nice new paper of the Quest for Orthologs consortium, addressing 5 timely challenges:
• Ortholog Search Across Tens of Thousands of Genomes
• Tracking Functional Changes of Orthologs
• Orthology Inference off the Beaten Track
• Integrating Orthology With Protein Structure
• Making Orthology Inferences FAIR
with @dessimoz and many others #ortholog #orthology #bioinformatics
https://academic.oup.com/gbe/article/16/10/evae224/7822254

Very nice preprint on most-diverged vs. less-diverged ortholog among paralog pairs: https://www.biorxiv.org/content/10.1101/2024.10.29.620890v1 @dessimoz #ortholog #paralog #MolecularEvolution

Updated preprint of work by Tina Begum et al showing that paralogs from small-scale duplications have jumps in expression phenotype, much more than orthologs or whole genome duplication paralogs
https://www.biorxiv.org/content/10.1101/2023.12.29.571877v2 #ortholog #paralog #phylogenetics #GeneExpression #MolecularEvolution #FishEvolution

Registrations open to our @SIB course for PhD students in Lausanne 🇨🇭 with @rmwaterhouse and @dessimoz :
Biodiversity bioinformatics: from large-scale phylogenomics to gene families and functions
with @bgeedb, OMA and BUSCO inside
https://www.sib.swiss/training/course/20240828_COMGE #BiodiversityGenomics #MolecularEvolution #ortholog #paralog #bioinformatics

We posted this cool preprint between Xmas and new year, now time for a thread about the results: Begum et al "Phylogenetic modeling provides evidence for sudden shifts in expression after small-scale duplication in vertebrates and strong support for the ortholog conjecture"
https://www.biorxiv.org/content/10.1101/2023.12.29.571877v1
#paralog #ortholog #GeneDuplication #GenomeDuplication #MolecularEvolution #phylogeny #ohnolog

Announcing #SIB Comparative genomics course, taught by Christophe Dessimoz, Natasha Glover, @rmwaterhouse and myself, 30 August - 01 September in Lausanne #UNIL
• Introduction to molecular evolution & phylogenetics
• Orthology-focused arthropod comparative genomics
• Duplication of genes and genomes, expression
with #SIB resources #OMA, #Orthodb #BUSCO and @bgeedb #ortholog #orthologs #paralog #duplication #MolecularEvolution #Genomics #bioinformatics #training @P_Palagi https://www.sib.swiss/training/course/20230830_COMGE

Marc Feuermann: PAN-GO phylogenetic annotation of @go, implicitly relying on the #ortholog conjecture for annotation, mapping the changes in function to duplication nodes (my interpretation) #biocuration2023

Bgee used to support the identification of the target gene for depletion experiment in zebrafish: https://elifesciences.org/articles/83652
#zebrafish #cytoskeleton #ortholog #paralog #GeneExpression #SIB @dee_unil @marcrr