Ryan Cook

During my PhD, @milja001 and I started counting phage genomes, and tried to make them available in useful formats with useful metadata. We also described the extent of sequenced phage genomes at the time. Five years on, we've had a look at what's changed biorxiv.org/content/10.648…

Been really fun to re-visit this with Branko Rihtman, @APonsero , @SMichniewski , @telatin , @TSPKU , Evelien Adriaenssens and @milja001 biorxiv.org/content/10.648…

We're also putting out a fully updated pipeline with defence (and anti) predictions, lifestyle predictions and other fun improvements. Community involvement in this project has been great over the last 5 years and I hope this continues!

During my PhD, @milja001 and I started counting phage genomes, and tried to make them available in useful formats with useful metadata. We also described the extent of sequenced phage genomes at the time. Five years on, we've had a look at what's changed biorxiv.org/content/10.648…

Really happy to have played a small part in this cool piece of work led by @GuidoValverde_ & @msabrysarhan. We characterised S. pyogenes in a pre-Columbian Bolivian mummy (suggesting circulation before European contact) #VivaBolivianMummies nature.com/articles/s4146…

Salmonella Genomic Markers for Risk to Food Safety biorxiv.org/content/10.648… #biorxiv_genomic

Really enjoyed writing a piece for @ConversationUK - trying to write for a general audience, you suddenly realise how much jargon is deeply embedded in your brain #Phages #Microbiome #SciComm theconversation.com/a-virus-hiding…

Happy to say this has now been published in @CellReports 🫁🦠 #Phages #Viromics cell.com/cell-reports/f…

🚨 We’re hiring! 🚨 The Integrative Viromics Lab @UCalgary is looking for a Lab Technician to join us starting November 2025. 🔬 Phage isolation & culture 🧫 Anaerobic chamber work 📦 Lab management & student mentoring Apply now & help us explore the virosphere!

Stoked to finally have a preprint out for Phold, our tool that uses protein structural information to enhance phage genome annotation

After hiatus, as @RyanCookAMR were a bit busy .... we have updated links to latest INPHARED dataset. With 37.5K genomes now millardlab.org/bacteriophage-…

Thrilled to see our Kiwa story out today! A membrane-associated supercomplex that senses infection and blocks replication and transcription. Huge congratulations to @ugobananas_uuu @Zhangzhiyi58692 and @TCTodeschini, and to all our collaborators. shorturl.at/l0ayB

This is probably my last piece of work from my @MedResFdn funded PhD at @UniofNottingham (thanks for all the support over the years!). Contributions from @milja001 @APonsero (and many others not on here) 13/13

The dairy cow gut virome is a dynamic ecosystem that could be an under-studied player in sustainable agriculture 🔑 Preprint: biorxiv.org/content/10.110… #Microbiome #Virome #ClimateScience #Agriculture #Dairy #Cows #Methanogens 12/13

From a practical standpoint: The viral community shake-ups during weaning and drying-off suggest these could be critical windows for microbiome interventions Could targeted viral therapies help optimise cow health and productivity during these transitions? 🎯 11/13