Christophe Dessimoz
@dessimoz.bsky.social
Executive Director of SIB Swiss Institute of Bioinformatics @sib.swiss and Professor at the University of Lausanne (UNIL), Switzerland. @cdessimoz and @dessimoz@mstdn.science elsewhere. Comparative Genomics, Phylogenetics, Evolution, Computational Biology.
And an EMBO meeting report led by Athina Gavriilidou entitled “Advances and challenges in understanding evolution through genome comparison.”
doi.org/10.1093/bioa...
doi.org/10.1093/bioa...
October 23, 2025 at 6:39 AM
And an EMBO meeting report led by Athina Gavriilidou entitled “Advances and challenges in understanding evolution through genome comparison.”
doi.org/10.1093/bioa...
doi.org/10.1093/bioa...
Correspondence in Nature: to make FAIR a reality, fund the data resources and expertise—not just data-management plans. A call to action co-signed with @francesarnold.bsky.social, Rich Roberts, and Tim Hubbard. doi.org/10.1038/d415...
October 23, 2025 at 6:26 AM
Correspondence in Nature: to make FAIR a reality, fund the data resources and expertise—not just data-management plans. A call to action co-signed with @francesarnold.bsky.social, Rich Roberts, and Tim Hubbard. doi.org/10.1038/d415...
OrthoXML-Tools: a pip-installable CLI to load, validate, filter & convert OrthoXML orthology files (export pairs/OGs, NHX↔OrthoXML; split by rootHOGs). Benchmarked on QfO data. Led by @yazdizadeh.bsky.social and @sinamajidian.bsky.social. doi.org/10.1007/s002... Github: github.com/DessimozLab/...
OrthoXML-Tools: A Toolkit for Manipulating OrthoXML Files for Orthology Data - Journal of Molecular Evolution
The OrthoXML file is a standard file format for orthology data. It provides a standardized structure for describing orthologous and paralogous relationships while allowing the user to store custom and...
doi.org
October 23, 2025 at 6:25 AM
OrthoXML-Tools: a pip-installable CLI to load, validate, filter & convert OrthoXML orthology files (export pairs/OGs, NHX↔OrthoXML; split by rootHOGs). Benchmarked on QfO data. Led by @yazdizadeh.bsky.social and @sinamajidian.bsky.social. doi.org/10.1007/s002... Github: github.com/DessimozLab/...
Quest for Orthologs 8 meeting report/review: where AI, protein structure, isoforms & domains meet orthology. We review recent developments in the field, with applications from environmental genomics to agriculture. Many authors, led by @irenejulca.bsky.social. Open access: doi.org/10.1007/s002...
Quest for Orthologs in the era of Data Deluge and AI: Challenges and Innovations in Orthology Prediction and Data Integration - Journal of Molecular Evolution
The rapid advancement of DNA sequencing technologies and computational algorithms has led to an unprecedented surge in genomic data, driven by several large-scale sequencing projects worldwide. Orthol...
doi.org
October 23, 2025 at 6:22 AM
Quest for Orthologs 8 meeting report/review: where AI, protein structure, isoforms & domains meet orthology. We review recent developments in the field, with applications from environmental genomics to agriculture. Many authors, led by @irenejulca.bsky.social. Open access: doi.org/10.1007/s002...
Gene annotations matter for downstream analyses: different structural gene-annotation pipelines yield markedly different orthology calls. We compare four strategies across species and argue for standards & QC before inference. Work led by @silviaprietob.bsky.social. Paper: doi.org/10.1093/bioi...
October 23, 2025 at 6:20 AM
Gene annotations matter for downstream analyses: different structural gene-annotation pipelines yield markedly different orthology calls. We compare four strategies across species and argue for standards & QC before inference. Work led by @silviaprietob.bsky.social. Paper: doi.org/10.1093/bioi...
EdgeHOG reconstructs ancestral gene order at Tree-of-Life scale in linear time. 2,845 genomes → 1,133 ancestors. Vontigs for LECA (~1.8 Ga). Also dates gene adjacencies & rearrangements. Sexual chroms stand out! Led by Charles Bernard (research.pasteur.fr/fr/member/ch...) doi.org/10.1038/s415...
October 23, 2025 at 6:19 AM
EdgeHOG reconstructs ancestral gene order at Tree-of-Life scale in linear time. 2,845 genomes → 1,133 ancestors. Vontigs for LECA (~1.8 Ga). Also dates gene adjacencies & rearrangements. Sexual chroms stand out! Led by Charles Bernard (research.pasteur.fr/fr/member/ch...) doi.org/10.1038/s415...
Testing the "least-diverged ortholog” conjecture on >1M structs + expression across 16 animals & 20 plants, the LDO tends to retain ancestral function while the other copy specialises. Work led by @irenejulca.bsky.social. Paper: doi.org/10.1101/gr.2... Free preprint: www.biorxiv.org/content/10.1...
October 23, 2025 at 6:17 AM
Testing the "least-diverged ortholog” conjecture on >1M structs + expression across 16 animals & 20 plants, the LDO tends to retain ancestral function while the other copy specialises. Work led by @irenejulca.bsky.social. Paper: doi.org/10.1101/gr.2... Free preprint: www.biorxiv.org/content/10.1...
Structure-informed phylogenetic inference with FoldTree outperforms sequence-only trees on divergent proteins, and untangles RRNPPA quorum-sensing receptors across Gram-positive bacteria & phages. Work led by David Moi (www.linkedin.com/in/david-moi) Paper: doi.org/10.1038/s415...
October 23, 2025 at 6:13 AM
Structure-informed phylogenetic inference with FoldTree outperforms sequence-only trees on divergent proteins, and untangles RRNPPA quorum-sensing receptors across Gram-positive bacteria & phages. Work led by David Moi (www.linkedin.com/in/david-moi) Paper: doi.org/10.1038/s415...
Looks very interesting but the link appears to be broken.
September 1, 2025 at 6:48 PM
Looks very interesting but the link appears to be broken.