Our perspective on adapting LMs for protein sequences with the help of linguistic knowledge is now out in Nature Machine Intelligence. Led by Mai Ha, cilantro and Philippe A. Robert 🇺🇦 🇵🇱 🇷🇴 🇲🇩 🇭🇺 🇸🇰. Great collboration with Bartlomiej Swiatczak, Geir Kjetil Sandve and Dag Haug. nature.com/articles/s4225…

RSG-Norway in collaboration with Centre for Bioinformatics, University of Oslo is inviting you to a panel discussion: "Is DNA agile? Software engineering challenges in bioinformatics", which will happen on May 11th 17:30 CET at Ole-Johan Dahls hus, Smalltalk auditorium. Register at forms.gle/cr9WMLu6qmJTgD…

The next AIRR-C Seminar is on May 25, 16:00 CET, with Geir Kjetil Sandve (topic: deciphering the rules of immune receptor-antigen binding) and Thomas Konstantinovsky (topic: merging compression theory and immunology). Talk and registration info are here: antibodysociety.org/the-airr-commu…

Happy to announce an open PhD position in a collaboration between Bjoern Peter's group and mine (simula.no/about/job/6-ph…). And I can for sure not present this opportunity as well as Lonneke, who has experienced this great PhD program herself:)

1/8 New preprint: generative modeling of AIRR repertoires, the last piece of my PhD, >2 years of work, a project that is very dear to me biorxiv.org/content/10.110…

Do you want to model gene regulatory or co-expression networks based on large-scale heterogeneous data, such as data derived from different tissues or cancer types? Have a look at our new normalization method SNAIL 🐌, now out in Bioinformatics 👇: academic.oup.com/bioinformatics…

(1/8)🎉A fresh preprint in which we present LIgO — a powerful tool to simulate adaptive immune receptor (AIR) and repertoire (AIRR) data for the development and benchmarking of AIRR-based ML 🧵⬇️ biorxiv.org/content/10.110…

It's not often a new method ends up being both faster and more accurate than existing methods, so I believe KAGE2 by @IvarGrtytten and @knutrand (powered by BioNumPy) will be a great addition to the toolboxes of structural variant discovery researchers  biorxiv.org/content/10.110…

It took us some time to chew on this, and a bunch of (intriguing) nuances came up as we dug deeper, but I think it landed as a quite accessible and useful overview of concerns and opportunities connected to causality and study design for biomarkers! (with AIRR as case)

Tissue proteomics with clinical value in #celiac disease: - bitly.ws/3fGa2 Great work Anette Johansen and thank you collaborators in particular Geir Kjetil Sandve for expert ML knowledge! Celiac Disease Foundation UiO - Det medisinske fakultet Coeliac_UK Gastroenterology NorskCøliakiforening

One more baby is out! A perspective led by Mai Ha bring a salt of linguistic in the soup of biological sequence ML models! She describes how antibody sequences of different specificities may form a language, which has implications on the design of future LLM models.

Our biophysical cartography of native and human-engineered antibody landscapes is out: nature.com/articles/s4200…. Study led by Habib Bashour Eva Smorodina Jahn Zhong e/🧬 Matteo Pariset. Great collab with Adaptyv Bio naturalantibody Geir Kjetil Sandve JTA Andersen.

NEWS: @unioslo's Titan magazine published an in-depth article about DHIS2's Wellcome-funded Climate & Health work (in Norwegian), featuring colleagues Geir Kjetil Sandve, Zeferino Saugene & Patrick Omiel Okecho. Read more: buff.ly/3yHo4Cb @Saudigitus @HISP_Uganda