Ylva Ivarsson

Don't forget to catch out last seminar of the year on Monday Dec 8!

New paper “Proteome-wide model for human disease genetics” is now live at Nature Genetics: rdcu.be/eRu7K
popEVE (pop.evemodel.org) finds the needles in the haystacks of human genetic variation:

Major new direction in the lab: hacking human cell biology with pathogen effectors (eORFs) - amazing collaboration with @miketilapia.bsky.social lab. Huge congrats to first authors Tomas & He & all co-authors! Check out the pre-print on @biorxivpreprint.bsky.social www.biorxiv.org/content/10.1...

Applications for ERC Synergy Grants 2026: Facts and figures The ERC Synergy Grants 2026 call closed for applications on 5 November 2025. These are the preliminary data on the submitted proposals:

957 proposals were submitted in the latest round of ERC Synergy applications. They expect to fund 50 which means around 5% success rate. This is really not sustainable and a lot of people are likely avoiding doing this knowing how poor the chances are.
erc.europa.eu/news-events/...

profaff.fr

The new ProfAff database is up and running. Although there are still many things to improve, it is a major upgrade.

PhD student position in the Cell Signaling and Cell Cycle group at the Danish Cancer Institute. The Cell Signaling and Cell Cycle group, headed by Prof. Jakob Nilsson, is looking for a highly motivated and enthusiastic PhD student to establish novel CRISPR

I have a PhD opening in my lab for an exiting project using base editor screens to find novel drug targets. Please help spread the word. candidate.hr-manager.net/ApplicationI...

Catch our next seminar on November 10 at 3pm CET! You'll see presentations from Prof. Gideon Schreiber (@weizmanninstitute.bsky.social) and Alessandro Lussana (‪‬@alussana.bsky.social).

Register to attend: tinyurl.com/PMCseminar2

Recordings of previous seminars: www.youtube.com/@PMCModularity

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Two super well-funded PhD grants from our MSCA Doctoral Network @evomg-dn.bsky.social at our lab at @melisupf.bsky.social, @crg.eu and the @evomg-bcn.bsky.social Program.

If you're excited about evolution, genomics and biomedical research, this is your DN! 😃

Further info: www.evomg-dn.eu and 👇

The functional landscape of the human ubiquitinome Protein ubiquitination regulates cell biology through diverse avenues, from quality control-linked protein degradation to signaling functions such as modulating protein-protein interactions and enzyme...

new preprint: Ubiquitin is a protein modification linked with degradation but known to regulate other functions. Over 100k ubiquitination sites have been discovered and here we (@julianvangerwen.bsky.social + others) try to prioritize those most critical to the cell www.biorxiv.org/content/10.1...

Don't forget to catch out next seminar on October 13 at 3pm CEST!

Can't wait to see you all there!!

Postdoctoral Fellowships at Uppsala University - 2026 - Novo Nordisk Fonden

Never thought I would say this, but I need a Dane.. novonordiskfonden.dk/grant/postdo...

Fabulous work by Aimiliani Konstantinou, together with three other #UBIMOTIF members Alicia Córdova-Pérez, Julia K. Varga & Maximilian Vieler. #CYLD, #USP7, #USP11, #USP20, #USP22, #USP33

Systematic Discovery of Motif-based Interactions of the Auxiliary Domains of USP Family Deubiquitinases The ubiquitin-specific proteases (USPs) family is the largest family of human deubiquitinating enzymes (DUBs). While most USPs are agnostic to polyubiquitin linkage-type, their substrate specificity i...

Finally out! Thrilled to share our collaboration with @kulathu.bsky.social, @orafurman.bsky.social, and N Davey. We screened auxiliary domains of USP family #deubiquitinases, revealing short linear motifs (SLiMs), contributing to specificity in complex assembly.
www.biorxiv.org/content/10.1...

Cool project with the Pless lab on disease-associated variants in a membrane protein, NALCN, that needs to be in complex to function. Most of our computational work was done by PhD student Aleks Panfilova.

Tune in to our next seminar on October 13 at 3pm CEST! We’ll hear from Dr. Cris Viéitez (@crisvieitez.bsky.social) and Dr. Patrick Brunner (@humboldtuni.bsky.social).

Register to attend: tinyurl.com/PMCseminar2

Recordings of previous seminars: www.youtube.com/@PMCModularity

To protein designers (and others)

The Dept of Chemistry, Lund University & the Wallenberg Initiative for Materials Science for Sustainability is looking for an Assoc Senior Lecturer/Assist Professor in Biomolecular materials with a focus on de novo design and synthesis

lu.varbi.com/en/what:job/...

We are back with an exciting seminar on September 8 at 3pm CEST! We’ll hear from Prof. Birthe Kragelund and Maximilian Vieler (@uu.se).

Register to attend:
tinyurl.com/PMCseminar2

Recordings of previous seminars: www.youtube.com/@PMCModularity

Target sequence-conditioned design of peptide binders using masked language modeling - Nature Biotechnology PepMLM designs peptide binders against diverse targets using masked language modeling.

Leo Tianlai Chen and coauthors present PepMLM, an ESM-2–based protein language model that designs target-specific peptide binders from sequence alone, enabling binding and degradation of disease and viral proteins. www.nature.com/articles/s41...

We’re looking for curious, innovative science leaders at EMBL Heidelberg! 🔬🧬🦠

Join a vibrant, interdisciplinary community where collaboration and innovation are nurtured at all levels.

Take a look at these four open positions 👇

PhD student in Biochemistry - Uppsala University PhD student in Biochemistry, Disciplinary Domain of Science and Technology, Faculty of Chemistry, Department of Chemistry - BMC, Uppsala University

We are looking for a PhD student in (mostly )wet-lab biochemistry to work on short linear motifs, intrinsically disordered regions, in the context of the Marie Curie network "IDPro". More info an apply here: www.uu.se/en/about-uu/...

Predicting the protein interaction landscape of a free-living bacterium with pooled-AlphaFold3 https://www.biorxiv.org/content/10.1101/2025.07.01.662654v1

And of course, we could not have done this without NIH funding that has been critical for supporting my students’ training and my career, and for giving us the resources to shed light on some aspects of the molecular basis of human diseases.

Variant characterization in the intrinsically disordered human proteome Variant effect prediction remains a key challenge to resolve in precision medicine. Sophisticated computational models that exploit sequence conservation and structure are increasingly successful in t...

Variant characterization in the intrinsically disordered human proteome - here is how we did it using short linear motif prediction, AlphaFold, and experimentation. Check out our preprint: www.biorxiv.org/cgi/content/...

.. more information about the IDPro network here: idpro.elte.hu

Do you have experience in mechanistic modelling of biological systems and want to do a postdoc with an interdisciplinary team on developing Digital Twins for rare disease? We have the job for you! Check it out below - deadline July 13th, online interviews 24th July.

PhD student in Biochemistry - Uppsala University PhD student in Biochemistry, Disciplinary Domain of Science and Technology, Faculty of Chemistry, Department of Chemistry - BMC, Uppsala University

We are looking for a PhD student in (mostly )wet-lab biochemistry to work on short linear motifs, intrinsically disordered regions, in the context of the Marie Curie network "IDPro". More info an apply here: www.uu.se/en/about-uu/...

A major KI initiative to recruit new assistant professors with outstanding proposals in all areas of medicine, biomedicine and public health. We offer an amazing research environment, great colleagues and generous startup packages. Check it out and get working on your applications! (repost please!)

It's June 20 in New Zealand, which means it's the last day to have your abstract considered for oral presentations at the IUBMB Focussed Meeting on kinases and pseudokinases!

Sequence-based prediction of condensate composition reveals that specificity can emerge from multivalent interactions among disordered regions https://www.biorxiv.org/content/10.1101/2025.06.13.659429v1