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Ylva Ivarsson

@ivarssonlab.bsky.social
612 followers 173 following 48 posts

Professor of Biochemistry, Uppsala University. Protein domains, disorder and interactions. www.uu.se/en/contact-and-organisati… Views are my own.

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Reposted by Ylva Ivarsson
Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 24/09/2026
AlphaFold Database is expanding into pandemic preparedness. Together with NVIDIA, DeepMind, EBI et al. we exhaustively predicted ~1.7 million homo- & heterodimers across 2,812 viral proteomes, resulting in 8,028 high-confidence predictions. 📄 research.nvidia.com/labs/dbr/ass... 🌐 alphafold.ebi.ac.uk
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Ylva Ivarsson @ivarssonlab.bsky.social · 11/09/2026
Do you want to be my colleague? We are recruiting a tenured #Associate #Professor in #Biochemistry to the Department of Chemistry for Life Sciences at #Uppsala University. Deadline for application November 20. www.uu.se/en/about-uu/...
uu.se
Associate Professor in Biochemistry - Uppsala University
Associate Professor in Biochemistry, Department of Chemistry for life sciences, Uppsala University
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Reposted by Ylva Ivarsson
xavier salvatella @xsalvatella1.bsky.social · 21/09/2026
PhD fellowship open in our lab at @irbbarcelona.org to work on intrinsically disordered proteins — activities, disease mutations, and druggability. Deadline: 28 Oct. 🔗 irbbarcelona.org/en/careers/young-scientists/irb-barcelona-international-phd-fellowships-extraordinary-call-2026
irbbarcelona.org
IRB Barcelona International PhD Fellowships - Extraordinary call 2026
The following will be offered in this call:Up to 8 FPI positions associated with the “Proyectos de Generación de Conocimiento 2025” Call (funded by the Agencia Estatal de Investigación AEI- MICINN).Ch...
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Reposted by Ylva Ivarsson
Bornberglab @bornberglab.bsky.social · 16/09/2026
Having a great time at the Nobel Symposium on #microproteins in Umeå. It’s always nice to reconnect with friends and collaborators!
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Jüri Reimand @reimand.bsky.social · 16/09/2026
Our paper on mutational processes in prostate cancer is out now in Nature! By analysing nearly 1,000 primary prostate cancer genomes from the Pan Prostate Cancer Group (PPCG), we identified the major mutational processes shaping prostate cancer genomes. www.nature.com/articles/s41... [1/5]
nature.com
Integrated signatures define mutational processes in prostate cancer - Nature
Eight integrated mutational footprints collectively explain the mutational processes in 85% of primary prostate cancer genomes.
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chipotlab.bsky.social @chipotlab.bsky.social · 10/09/2026
No predefined reaction coordinate. No mechanistic guesswork. No massive sampling campaign. Gen-COMPAS reconstructs biomolecular transition pathways from endpoint structures alone. Protein folding, allostery, membrane transport. Now in Nature. @nature.com @springernature.com
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Ylva Ivarsson @ivarssonlab.bsky.social · 11/09/2026
Do you want to be my colleague? We are recruiting a tenured #Associate #Professor in #Biochemistry to the Department of Chemistry for Life Sciences at #Uppsala University. Deadline for application November 20. www.uu.se/en/about-uu/...
uu.se
Associate Professor in Biochemistry - Uppsala University
Associate Professor in Biochemistry, Department of Chemistry for life sciences, Uppsala University
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Reposted by Ylva Ivarsson
Arne Elofsson @handle.invalid · 07/09/2026
enews.embo.org?EventID=pc27... Registration is now open This EMBO Practical Course will provide an up-to-date overview of integrative modelling strategies with a focus on biomolecular dynamics. Special attention will be given to challenging systems where dynamics are essential for function
enews.embo.org
EMBO Practical Course on Integrative modelling of biomolecular interactions
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Katja Luck @katjaluck.bsky.social · 26/08/2026
In an amazing collaboration with the Steinegger lab we developed Foldseek-Interface and clustered the resolved protein interface universe revealing structural bias, pathogen mimicry and novel interface structures in predicted protein complexes. doi.org/10.64898/202...
doi.org
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danlarsson.bsky.social @danlarsson.bsky.social · 20/08/2026
Also check out another paper from the Selmer Lab in the same issue of NAR @narjournal.bsky.social Adrian and Maria managed to get the first high-resolution structure of RRF and EF-G on the 70S ribosomes. This is a key step in protein synthesis. doi.org/10.1093/nar/...
doi.org
Structural characterization of ribosome recycling and fusidic acid inhibition in Staphylococcus aureus
Abstract. During bacterial ribosome recycling, 70S ribosomes are split into subunits by ribosome recycling factor (RRF) and elongation factor G (EF-G). The
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danlarsson.bsky.social @danlarsson.bsky.social · 20/08/2026
Ribosomal RNA is modified at key locations. Not much happens when you remove them one by one, but what about removing them en masse around the catalytic center? The catalytic efficiency drops and the RNA forms misfolded conformations. Collaboration with the Remme Lab. @narjournal.bsky.social
doi.org
23S rRNA modifications stimulate catalytic activity and prevent the formation of alternative structures
Abstract. Ribosomal RNA (rRNA) modifications cluster around the peptidyl transferase centre (PTC), the catalytic centre of the ribosome, yet their collecti
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Ylva Ivarsson @ivarssonlab.bsky.social · 06/07/2026
Excited to share our preprint introducing ASHI: the Atlas of SLiM-mediated Human protein-protein Interactions. By screening 800+ domains against the human intrinsically disordered regions, we map 20,000 SLiM-mediated interactions. Many thanks to everyone involved! www.biorxiv.org/content/10.6...
biorxiv.org
An Atlas of Short Linear Motif-Mediated Human Protein-Protein Interactions
Short linear motifs (SLiMs) within intrinsically disordered protein regions mediate transient interactions crucial for cell physiology. However, the global interaction landscape of human SLiMs remains...
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Katja Luck @katjaluck.bsky.social · 31/07/2026
Check out our new article if you are interested in disorder-mediated protein interactions, AlphaFold-based structural modeling and variant characterization: rdcu.be/fw2oz Dx.doi.org/10.1038/s41594-026-01846-z
dx.doi.org
Variant characterization in the intrinsically disordered human proteome - Nature Structural & Molecular Biology
Proteome-wide prediction and structural modeling of disordered protein interaction interfaces advance characterization of disease-associated variants in disordered protein regions.
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Evangelia Petsalaki @epetsalaki.bsky.social · 14/07/2026
Our MASLD paper is finally out @naturemetabolism.bsky.social @ebi.embl.org @opentargets.org ! Fantastic collaboration with Toni Vidal-Puig's group in the IMS, UCam (co-led), Papatheodorou @earlhaminst.bsky.social and other coauthors, led by Ioannis Kamzolas and Thodoris Koutsandreas. Check it out!
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Reposted by Ylva Ivarsson
Pedro Beltrao @pedrobeltrao.bsky.social · 06/07/2026
My department @eth-dbiol.bsky.social at ETH Zurich is hiring for a tenured professor in mol cell bio and biochemistry (associate/full). The position is within the Institute of Biochemistry (www.bc.biol.ethz.ch) and it is fairly open within their scope of research. www.nature.com/naturecareer...
nature.com
Professor of Molecular Cell Biology and Biochemistry - Zurich, Switzerland job with ETH Zurich | 12861386
The Department of Biology at ETH Zurich invites applications for the above-mentioned tenured professorship at the Institute of Biochemistry
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Ylva Ivarsson @ivarssonlab.bsky.social · 06/07/2026
Excited to share our preprint introducing ASHI: the Atlas of SLiM-mediated Human protein-protein Interactions. By screening 800+ domains against the human intrinsically disordered regions, we map 20,000 SLiM-mediated interactions. Many thanks to everyone involved! www.biorxiv.org/content/10.6...
biorxiv.org
An Atlas of Short Linear Motif-Mediated Human Protein-Protein Interactions
Short linear motifs (SLiMs) within intrinsically disordered protein regions mediate transient interactions crucial for cell physiology. However, the global interaction landscape of human SLiMs remains...
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Reposted by Ylva Ivarsson
Yasin Dagdas @plantophagy.bsky.social · 29/05/2026
Heidelberg University Biochemistry Center @bzh-hd.bsky.social is looking for a #professor of #biochemistry. Please spread the word‼️ www.bzh.uni-heidelberg.de
bzh.uni-heidelberg.de
Universit�t Heidelberg - BZH
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Ylva Ivarsson @ivarssonlab.bsky.social · 29/05/2026
A fabulous day for Biochemistry at @uu.se celebrating the conferment of no fewer than seven PhDs in Biochemistry in one go. I’m especially proud to have served as main PhD advisor to two of these newly conferred PhDs. #Biochemistry #UppsalaUniversity #PhD #AcademicMentorship
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Ylva Ivarsson @ivarssonlab.bsky.social · 21/05/2026
Very much looking forward to visting #Toronto next week for the 20th anniversery symposium of the #Donnelly Centre. My postdoc stay there in 2012 helped lay the foundation for my independent lab. It will be wonderful to return and take part of the celebratation.
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Ylva Ivarsson @ivarssonlab.bsky.social · 18/05/2026
Just for fun, the illustration of topics we cover in the #Biochemistry research programme @uu.se
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Ylva Ivarsson @ivarssonlab.bsky.social · 13/05/2026
Happy to share that my #PhD student Maximilian Vieler nailed his thesis "Decoding the #ubiquitin system: charting and characterizing #motif-based interactions of #E3 ligases" today. Looking forward to the defense early June.
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Jorge Trojanowski @jorgetrojanowski.bsky.social · 27/04/2026
1/ ProPER - Our novel ligation-free proximity detection method for efficient multiplexed imaging of molecular interactions in situ. Among other things we use it to image the life cycle of RNA molecules and resolve differential kinetics of gene expression steps. New preprint: doi.org/10.64898/202...
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Stephen Turner @stephenturner.us · 03/05/2026
Free and open-source images, icons, and tools for creating scientific illustrations doi.org/10.59350/5zt... 🧪
doi.org
Free and open-source images, icons, and tools for creating scientific illustrations
Phylopic, NIH Bioart, Bioicons, Scidraw, Open Science Art, Health Icons, Servier Medical Art, Biodiversity Heritage Library, the Noun Project, Segment Anything, Excalidraw, draw.io, Biographics
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Trends in Biochemical Sciences @cp-trendsbiochem.bsky.social · 28/04/2026
📝From 2025, the Review "The intersection of viral mimicry and nuclear entry" from David Jacques et al: www.cell.com/trends/bioch...
cell.com
The intersection of viral mimicry and nuclear entry
The nuclear pore complex (NPC) facilitates macromolecular exchange between the cytoplasm and nucleus; the selective nature of which is vital to proper cell functioning. Many DNA and some RNA viruses m...
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Ylva Ivarsson @ivarssonlab.bsky.social · 24/04/2026
Back in Uppsala after a marvelous yearly meeting with the EU MCS DC network IDPro. It is very rewarding to see how our #doctoral candidates develop and the amazing research they are doing. Stay tuned for the output to come on #intrinsically disordered #proteins during next year.
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PMC Protein Modules Community @pmc-modularity.bsky.social · 17/04/2026
Remember to catch out next online seminar on April 20, 3pm CEST!
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Cecilia Blikstad @cblikstad.bsky.social · 06/04/2026
Our new preprint on detailing the molecular mechanisms of how the carbonic anhydrase activates it's activity upon encapsulation into alpha-carboxysomes is now live. Congrats to Nikole and @guillawme.fediscience.org.ap.brid.gy !
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Benedetta Bolognesi @bennibolo.bsky.social · 30/03/2026
Our latest paper is out! We built a large-scale mutational map of amylin to understand how sequence drives #amyloid formation, a process linked to type 2 #diabetes🩸📈📉. It’s a step towards connecting molecular mechanisms with human genetic variation in a systematic way.
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PMC Protein Modules Community @pmc-modularity.bsky.social · 30/03/2026
Tune in to our next seminar on April 20 at 3pm CEST! We’ll hear from Prof. Tina Perica (@glukozica.bsky.social) and Isabella Menart (@isabellamenart.bsky.social) Register to attend: tinyurl.com/PMCseminar2 Previous seminars: www.youtube.com/@PMCModularity
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Evangelia Petsalaki @epetsalaki.bsky.social · 03/03/2026
Our preprint is published in MSB! This time with the correct preprint post below! link.springer.com/article/10.1...
link.springer.com
Integrative multi-omics defines melanoma drug response networks and ARID1A-dependent resistance mechanisms - Molecular Systems Biology
Resistance to BRAF/MAPK inhibitors is a significant challenge in melanoma treatment, driven by adaptive and acquired mechanisms allowing tumor cells to evade therapy. We explored early signaling respo...
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Mohammed AlQuraishi @moalquraishi.bsky.social · 13/03/2026
New OpenFold3 preview out! (OF3p2) It closes the gap to AlphaFold3 for most modalities. Most critically, we're releasing everything, including training sets & configs, making OF3p2 the only current AF3-based model that is functionally trainable & reproducible from scratch🧵1/9
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Ylva Ivarsson @ivarssonlab.bsky.social · 13/03/2026
Fabulous Friday is when your students tell you your course was great AND you get the message "we are pleased to inform you your manuscript is in principle accepted"..
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Nilsson lab @nilssonlab.bsky.social · 06/03/2026
Happy to see our work on defining a dependency map of short linear motifs out. We use base editing screens to install more than 80000 mutations into SLiMs in more than 4000 proteins to determine their contribution to cell fitness. www.nature.com/articles/s41...
nature.com
A proteome-wide dependency map of protein interaction motifs - Nature Structural & Molecular Biology
Ambjørn and Meeusen et al. functionally characterize all reported and a comprehensive set of predicted short linear motifs (SLiMs) using base-editing screens, identifying 450 reported and 264 predicte...
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Ylva Ivarsson @ivarssonlab.bsky.social · 22/09/2025
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...
biorxiv.org
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...
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IDPSeminars @idpseminars.bsky.social · 04/02/2026
IDPSeminas is back again TOMORROW! Talks from Lucia Strader (@luciastrader.bsky.social) and Heather Meyer! Sign up at idpseminars.com. Talks start at 1 pm EST / 7 PM CET!! Come learn about transcriptional adaptation and IDRs as environmental sensors and accuators!
Poster showing program for IDPSeminars on Feb 5th. Talks are:

Lucia Strader: IDR sequence features of activation domains
Heather Meyer: IDPs as environmental sensors and actuators in plants
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Timothy Caulfield @caulfieldtim.bsky.social · 21/01/2026
US science after a year of Trump "More than 7,800 research grants terminated or frozen. Some 25,000 scientists and personnel gone from agencies that oversee research." via @nature.com Dark Age 2.0
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Ylva Ivarsson @ivarssonlab.bsky.social · 07/01/2026
Very much looking forward to the next PMC seminar, featring Benjamin Turk and Giorgia Massacci: www.proteinmodules.org/online-semin...
proteinmodules.org
Protein Modules Community - Online seminars
Our new online seminar series explores the latest in protein modules research, featuring two talks on the second Monday of every month. Register to attend: tinyurl.com/PMCseminar2 Contact us for mo...
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Ylva Ivarsson @ivarssonlab.bsky.social · 16/01/2026
Not sure if Trump getting the Nobel Prize medal from Machado is more embarrassing for Trump, Machado, the Norwegian Nobel Committee, or the USA as a country.
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Pedro Beltrao @pedrobeltrao.bsky.social · 16/01/2026
This is such hard news to process. Such an amazing scientist and inspiration for so many of us. www.embl.org/news/embl-an...
embl.org
In remembrance of Peer Bork  | EMBL
EMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General.
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Ylva Ivarsson @ivarssonlab.bsky.social · 07/01/2026
Very much looking forward to the next PMC seminar, featring Benjamin Turk and Giorgia Massacci: www.proteinmodules.org/online-semin...
proteinmodules.org
Protein Modules Community - Online seminars
Our new online seminar series explores the latest in protein modules research, featuring two talks on the second Monday of every month. Register to attend: tinyurl.com/PMCseminar2 Contact us for mo...
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Nature Biotechnology @natbiotech.nature.com · 18/12/2025
Engineered base editors with reduced bystander editing through directed evolution - @geochurch.bsky.social @harvardmed.bsky.social @wyssinstitute.bsky.social go.nature.com/4qmupbv
go.nature.com
Engineered base editors with reduced bystander editing through directed evolution - Nature Biotechnology
Base editors are made more precise through deaminase and gRNA engineering.
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Bornberglab @bornberglab.bsky.social · 12/12/2025
Last week, we wrapped up our Volkswagen Foundation–funded project with a wonderful final meeting in Uppsala, hosted by Ylva Ivarsson’s group. The photo shows members of our lab together with colleagues from the groups of @ivarssonlab.bsky.social , @hlouchova-lab.bsky.social and Florian Hollfelder.
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PMC Protein Modules Community @pmc-modularity.bsky.social · 05/12/2025
Don't forget to catch out last seminar of the year on Monday Dec 8!
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Debora Marks @deboramarks.bsky.social · 24/11/2025
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:
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Alex Stark @alex-stark.bsky.social · 18/11/2025
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...
biorxiv.org
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Pedro Beltrao @pedrobeltrao.bsky.social · 11/11/2025
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/...
erc.europa.eu
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:
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Gogl lab @teamgogl.bsky.social · 28/10/2025
profaff.fr The new ProfAff database is up and running. Although there are still many things to improve, it is a major upgrade.
profaff.fr
ProfAffv2 - Protein Affinity Database
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Nilsson lab @nilssonlab.bsky.social · 23/10/2025
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...
candidate.hr-manager.net
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
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PMC Protein Modules Community @pmc-modularity.bsky.social · 21/10/2025
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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