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It has been public for a while, but with #VoM2024 starting, today is as good as any to introduce our new tool phage genome annotation tool Phold. Phold uses structural homology to assign functions to phage proteins (1/n)

The prisoners released by Russia included U.S. and German citizens, but many of them were Russian citizens jailed for opposing the Putin regime or the war in Ukraine. Here are some of the first reactions from the loved ones of these now-exiled Russians. meduza.io/en/feature/202…

Thanks to all of you joined, raised questions and made this afternoon very enjoyable!! Hope we soon be able to this again.

Our collaboration with WilsonLab and Vicent Pelechano is out in Nucleic Acids Res! The ABCF ATPase New1 resolves translation termination defects associated with specific tRNAArg and tRNALys isoacceptors in the P site academic.oup.com/nar/advance-ar…

Please give it a go - and give feedback! And stay tuned for more awesome stuff from Artyom Egorov and Gemma C Atkinson !

In a new study, we report the discovery of a human homolog of SIR2 antiphage proteins that participates in the TLR pathway of mammalian innate immunity!! Co-led with @EnzoZ_P lab, in collab with @morehouse_ben biorxiv.org/content/10.110…

LoVis4u v0.0.9 is released. Now with new compact styles for A4 layouts, including one- and two-column figures with adjusted fonts and object sizes. Check out the examples in the gallery and visit the new user guide page: art-egorov.github.io/lovis4u/Galler…

Am Yisrael Chai 🇮🇱

Glad to see this beast out in the wild, incredible collab. with Carl de Boer's lab on modeling promoter sequences with advanced DNNs. Congratulations to the team incl. Dmitry Penzar Daria Nogina Arsenii Zinkevich. Spoiler: expect more wonders from Dmitry's LegNet later this year.

See our preprint on systematic hotspot annotation! In addition to hotspot analysis, we provide precomputed iLund4u databases and two search modes: find if your query proteins are encoded in hotspots or map hotspots to a single phage/plasmid sequence. biorxiv.org/content/10.110…

New version of LoVis4u is released! 💛 Now it supports visualisation of non-coding features like tRNAs and includes a new module for hmmscan searches against DefenseFinder, PADLOC, VFDB, AMRFinder, dbAPIS (anti-defences), or your own databases. Homepage: art-egorov.github.io/lovis4u

Minus one in the set of iLund4u discovered systems for our lab… hope others will survive in this hot environment 🥲 🔥 Congrats to colleagues!

There is no place in our world for antisemitic attacks like those against Israeli soccer fans in Amsterdam yesterday. The United States stands with the Dutch and Israeli governments in strongly condemning these horrible acts of violence and antisemitism in all its forms.

Published today Nature Communications We discovered a bacterial NLR-like pattern recognition receptor that can sense 3 different viral proteins as a signature for infection. This explains its broad defense against different phage families Congrats Nathalie Bechon! nature.com/articles/s4146…

A 3-year postdoctoral position in antiphage immunity hosted by my lab (Lund), co-supervised Gemma C Atkinson (co-PI, structural bioinformatics, Lund University) and Pontus Gourdon (co-PI, cryo-EM, Lund University and University of Copenhagen). PleaseRT! lu.varbi.com/en/what:job/jo…

Excited to share our latest collab with Wenyuan Han's Lab! 🚨 Bacteria use dITP as an immune signal to activate NAD+-depleting effectors. Phages counter immunity by destroying dAMP (dITP precursor)! 💥🧬 Preprint 🔗: biorxiv.org/content/10.110…

New big update of LoVis4u is released! 💛 A lot of new features for single-locus plots, including: ⏵ Visualisation of genomic signal tracks from sequencing experiments ⏵ GC content & GC skew profiles Homepage: art-egorov.github.io/lovis4u

🚨New review🚨 Evolution and ecology of anti-defence systems in phages and plasmids Link: cell.com/current-biolog…

💛LoVis4u - a visualisation tool for comparative genomics and sequencing coverage profiles is now published! See our paper in NAR GB: doi.org/10.1093/nargab…

Please spread the word! We have an opening in the Atkinson lab for a post-doc with a focus on molecular mechanisms of microbial immune systems. Can be a fully computational or experimental or hybrid project. Read more & apply here: lu.varbi.com/en/what:job/jo… #phage #Bioinformatics