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Mihaela Zavolan

@mihaelazavolan.bsky.social
187 followers 61 following 42 posts

Regulation of and by RNAs Former @ZavolanLab on X

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Mihaela Zavolan @mihaelazavolan.bsky.social · 06/09/2026
Very interesting indeed, and so many questions to follow up on. As the relative abundances of RNA species don't seem to change, do overall protein concentrations decrease? Rates of cellular processes? Is the number game why expression variability of individual genes seems to increase with age?
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Mihaela Zavolan @mihaelazavolan.bsky.social · 29/08/2026
For folks interested in isoform variation in human disease, a new doctoral network will be kicking off in 2027! Check out available positions: euraxess.ec.europa.eu/jobs/461377
euraxess.ec.europa.eu
EUROPE: 15 PhD positions in the MSCA Doctoral Network DECODES: Deciphering the Splicing Code in Human Disease
EUROPE: 15 PhD positions in the MSCA Doctoral Network DECODES: Deciphering the Splicing Code in Human Disease Grant Agreement No. 101312753
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Erik van Nimwegen @erikvannimwegen.bsky.social · 21/08/2026
Remember this? bsky.app/profile/did:... Rigorous visualization of the structure in your high-dimensional data. Fantastic work by @dhdegroot.bsky.social With help of the reviewers of Nat Biotech it is now updated, extended an officially published here: www.nature.com/articles/s41... 1/n
nature.com
Bonsai reconstructs tree representations for distortion-free visualization and exploration of high-dimensional data - Nature Biotechnology
High-dimensional data are visualized through representation on tree structures.
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Biozentrum, University of Basel @biozentrum.unibas.ch · 21/08/2026
How do you visualize highly complex data without losing important information? Prof. Erik van Nimwegen’s team developed a new tool, Bonsai, that provides a faithful picture of the structure in the data. @erikvannimwegen.bsky.social @unibas.ch @dhdegroot.bsky.social @imbavienna.bsky.social
biozentrum.unibas.ch
Seeing the Unseen: A new tool for exploring complex biological data
Modern biology research can now generate valuable data on an unprecedented scale. But there is one major obstacle: making sense of these complex high-dimensional datasets. Prof. Erik van Nimwegen’s te...
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Maria Hondele @mariahondele.bsky.social · 03/08/2026
🚀 New preprint 🥳 Fantastic work by our recent PhD graduate Daan ! How are mRNPs remodeled as they exit the nucleus? We identify PAIP1 as a factor that promotes exchange of the nuclear poly(A)-binding protein PABPN1 for cytoplasmic PABPC1, coupling mRNA export to cytoplasmic mRNP maturation.
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Dr. Julie Claycomb @farmgirlphd.bsky.social · 15/05/2026
Today (May 15) is the last day to get your special edition @rnacanada.ca RNEh? tshirts to celebrate your Canadian RNA pride at #RNA2026 @rnasociety.bsky.social. Order here: gametime.gearware.com/stores/rna! Delivery ONLY to RNA2026 in MTL/no shipping. Image design by Jasmine Tsang.
gametime.gearware.com
RNA Canada Pop-Up T-shirt Shop
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RNA Canada @rnacanada.ca · 13/05/2026
RNA Canada ARN is excited to be at the 2026 RNA Society Meeting. We will be set up at a table in the exhibition hall! Stop by to talk with RNA Canada members, grab some free swag, and sign up to renew your membership. !
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Spang Lab @spanglab.bsky.social · 01/05/2026
The small GTPase Arf1 regulates TORC1 in two different ways! Great work by Ludovic Enkler and a great collaboration with @mihaelazavolan.bsky.social . Check out our preprint! www.biorxiv.org/content/10.6...
biorxiv.org
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Mihaela Zavolan @mihaelazavolan.bsky.social · 01/03/2026
And there's more meetings.embo.org/event/26-gen...
meetings.embo.org
RNA-guided genome protection
The genome carries information across generations, ensuring species survival. To preserve faithful transmission of genetic information, RNA-directed mechanisms safeguard the genome integrity in diver…
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Mihaela Zavolan @mihaelazavolan.bsky.social · 01/03/2026
Lots of things RNA going on early summer 2026 and I'm looking forward to Montreal! www2.rnasociety.org
www2.rnasociety.org
RNA Society
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Mihaela Zavolan @mihaelazavolan.bsky.social · 13/02/2026
How does a major liver function, protein synthesis, change when the organ can't cope anymore with challenges and cancer develops? Here's what we found: www.biorxiv.org/content/10.6... Another productive collaboration with Salvatore Piscuoglio. Thanks to my great team - Asier, Meric, Aleksei & co!
biorxiv.org
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Erik van Nimwegen @erikvannimwegen.bsky.social · 13/01/2026
Context: Gene expression noise has been observed to decrease with growth rate in E. coli. journals.plos.org/plosbiology/... Consequently, fast growing cells are more phenotypically stable, and this has major implications for phenotypic adaptation www.pnas.org/doi/10.1073/... 2/n
journals.plos.org
Genome-wide gene expression noise in Escherichia coli is condition-dependent and determined by propagation of noise through the regulatory network
Genome-wide flow cytometry measurements reveal that gene expression noise in bacteria is highly condition-dependent; while absolute noise levels of all genes decrease with growth-rate, theoretical mod...
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Erik van Nimwegen @erikvannimwegen.bsky.social · 13/01/2026
What are the main sources of gene expression noise in bacteria, and why do slower growing bacteria exhibit more expression noise? TLDR: we found growth-rate fluctuations are a key driver of gene expression noise that increase as average growth rate decreases. www.biorxiv.org/content/10.6... 1/n
biorxiv.org
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Mihaela Zavolan @mihaelazavolan.bsky.social · 02/12/2025
Sad day... way too soon
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Mihaela Zavolan @mihaelazavolan.bsky.social · 25/09/2025
Is this f*g real? The comedic tragedy we're living in.
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Erik van Nimwegen @erikvannimwegen.bsky.social · 18/09/2025
Are you excited to pursue your own research interests and contribute to our group’s experimental research in the quantitative biology of microbes? We have an opening for a potentially permanent position as research associate. Please repost and notify potential candidates!
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Erik van Nimwegen @erikvannimwegen.bsky.social · 17/09/2025
What novel biological dynamics might be hiding under the measurement noise of your time-lapse fluorescence microscopy data? Try our new RealTrace tool to find out! Fantastic work by Bjoern Kscheschinski and others. Tweetorial follows. 1/n www.biorxiv.org/content/10.1...
biorxiv.org
RealTrace: Uncovering biological dynamics hidden under measurement noise in time-lapse microscopy data
One of the most powerful approaches for identifying the mechanisms underlying complex biological phenomena is not just to measure bulk populations, or even take single-cell snapshots, but to directly ...
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SIRD - Swiss Initiative for RNA & Disease @swissinitiativerna.bsky.social · 03/09/2025
Publication by the Becskei & Zavolan labs w/ co-1st authors Asier González, Muskan Pandey & Niels Schlusser "Multi-omic assessment of mRNA translation dynamics in liver cancer cell lines" in Scientific Data buff.ly/WYwzw5V @mihaelazavolan.bsky.social @biozentrum.unibas.ch
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Mihaela Zavolan @mihaelazavolan.bsky.social · 30/08/2025
Hey there, #mRNAtranslation buffs! Our latest multi-faceted dataset from liver cancer cell lines is out in #ScientificData: RNA-seq, ribosome run-off/ribo-seq, polysome-seq, pSILAC. rdcu.be/eC86H. Great team effort spearheaded by Asier Gonzalez Sevine and Niels Schlusser. Happy data crunching!
rdcu.be
Multi-omic assessment of mRNA translation dynamics in liver cancer cell lines
Scientific Data - Multi-omic assessment of mRNA translation dynamics in liver cancer cell lines
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Carolyn Bertozzi @carolynbertozzi.bskyverified.social · 27/08/2025
Spread the word - we at @stanford-chemh.bsky.social are searching to fill a new junior faculty at the interface of molecular and computational science. See link below!
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David Brückner @davidbrueckner.bsky.social · 25/08/2025
🤔 Can migrating cells 'remember' their past trajectories? In collab w/ @sgabriele.bsky.social & @kyohalie.bsky.social, we address this question: Confined cells undergo geometry-sensitive morphology switches, and these switches depend on the past migration history! www.nature.com/articles/s41...
nature.com
The actin cortex acts as a mechanical memory of morphology in confined migrating cells - Nature Physics
Cells often navigate through confined spaces. Now it is shown that cells retain a mechanical memory of previous confinement events, which makes them more efficient at migrating through narrow microenv...
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Mihaela Zavolan @mihaelazavolan.bsky.social · 13/08/2025
The key point here is rather "who would your rather trust"? Because what is offered is not for anyone to decide for themselves, but rather one is coerced to go along with decisions made by few. People are expected to follow the orders of someone who understands nothing.
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Darth Putin @darthputinkgb.bsky.social · 06/07/2025
OTD in 1949 Soviets forcibly deported 30,000 people from Moldova, after we had "liberated them from fascism". Imagine mass deportations happening today...
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Mihaela Zavolan @mihaelazavolan.bsky.social · 28/06/2025
Right! Maybe these folks who like to push others into various spheres of influence should try living there.
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Mihaela Zavolan @mihaelazavolan.bsky.social · 22/06/2025
Really nice to see some fresh initiatives on the Romanian science scene 1health.ro/biotech-boot... kudos to the biomentorhub.ro and all those who made this possible.
1health.ro
Biotech Bootcamp 2025 – One Health Incubator
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Mihaela Zavolan @mihaelazavolan.bsky.social · 22/06/2025
Back to reality www.brainonllm.com. Now imagine the cognitive debt on stuff that involves some abstraction...
brainonllm.com
Your Brain on ChatGPT: Accumulation of Cognitive Debt when Using an AI Assistant for Essay Writing Task
Your Brain on ChatGPT: Accumulation of Cognitive Debt when Using an AI Assistant for Essay Writing Task
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RNA Society Journal @rnajournal.bsky.social · 09/06/2025
RNase L cleaves most tRNAs in the anticodon loops into various tRNA-derived RNAs (tDRs) including 5'-tDRAla that shows a translation inhibitory effect. Some tRNAs are also cleaved in variable loops bit.ly/3YTwlNq
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Matthew Palmer @so3brocktree.bsky.social · 30/05/2025
'Data analysed by the BBC show that Ukraine's Western allies have paid Russia more for its hydrocarbons than they have given Ukraine in aid.' What a bleak set of statistics.
bbc.co.uk
How the West is helping Russia to fund its war on Ukraine
Data shows that Russian fossil fuel revenues are three times higher than aid allocated to Ukraine.
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Mihaela Zavolan @mihaelazavolan.bsky.social · 19/05/2025
It's really happening: AI-enabled noise injection in scientific information, from which models are trained, for more automated noisy inferences... journals.plos.org/plosbiology/...
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Daan de Groot @dhdegroot.bsky.social · 09/05/2025
Bonsai is out! Finally, we can visually explore high-dimensional data in a distortion-free way. Try it out! It works from scRNA-seq data (bonsai.unibas.ch/bonsai-scout...) up to football statistics (bonsai.unibas.ch/bonsai-scout...). 
Ever wondered why low-dimensional embeddings like t-SNE
bonsai.unibas.ch
First select a node by clicking in the tree, then click the below buttons to indicate if that node is the ancestor or a downstream node of the subtree.
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Slavov Laboratory @slavovlab.bsky.social · 09/05/2025
An alternative to tSNE & UMAP for more accurate data visualization: Tree representations for distortion-free visualization and exploratory analysis of single-cell omics data. The trees are constructed to accurately represent true distances between the objects in the high-dimensional space.
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Mihaela Zavolan @mihaelazavolan.bsky.social · 09/05/2025
Amazing tour-de-force through the representation and analysis of scRNA-data analysis from @dhdegroot.bsky.social @erikvannimwegen.bsky.social‬, with strikingly deep implications. Oranje boven! 😂
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Kurianlab @kurianlab.bsky.social · 09/05/2025
www.biorxiv.org/content/10.1...
biorxiv.org
Integrative analysis of RNA binding proteins identifies DDX55 as a novel regulator of 3′UTR isoform diversity
The 3′ untranslated regions (3′UTRs) of mRNAs play a critical role in controlling gene expression and function because they contain binding sites for microRNAs and RNA binding proteins (RBPs) that alt...
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University of Basel @unibas.ch · 08/05/2025
Bacteria have a simple yet potent mechanism that controls their sensitivity to environmental stimuli. A new study by researchers led by @erikvannimwegen.bsky.social @biozentrum.unibas.ch shows: the slower cells grow, the more sensitively they respond to their environment.
unibas.ch
Slow-growing bacteria respond more sensitively to their environment
Bacteria have a simple yet potent mechanism that controls their sensitivity to environmental stimuli. A new study by researchers at the Univer...
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Mihaela Zavolan @mihaelazavolan.bsky.social · 04/05/2025
This is how you do it!
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SIRD - Swiss Initiative for RNA & Disease @swissinitiativerna.bsky.social · 02/05/2025
📢 We are pleased to announce the Molecular Mechanisms of RNA in Disease – The NCCR RNA & Disease Final Symposium Jan 26-29, 2026, in St. Moritz! 🔗 Details & updates: finalsymposium.nccr-rna-and-disease.ch @snf-fns-ch.bsky.social @unibe.ch @ethzurich.bsky.social
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Mihaela Zavolan @mihaelazavolan.bsky.social · 01/05/2025
Surreal!
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Mihaela Zavolan @mihaelazavolan.bsky.social · 01/05/2025
Yeah, missing metadata in SRA was a motivation for academic.oup.com/bioinformati...
academic.oup.com
HTSinfer: inferring metadata from bulk Illumina RNA-Seq libraries
AbstractSummary. The Sequencing Read Archive is one of the largest and fastest-growing repositories of sequencing data, containing tens of petabytes of seq
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Sebastian Andreas Leidel @mcm5s2u.bsky.social · 01/05/2025
tRNA modification and m6A functionally interact in tuning decoding and mRNA decay. Great collaboration with the Steinmetz lab! Now out in Cell. Submission date still 2023... www.sciencedirect.com/science/arti...
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Ben Hodges @general-ben.bsky.social · 27/04/2025
I agree with Minna…she’s smart and she’s right. Ukraine should not take a bad deal that doesnt meet their interests. They are actually winning on the battlefield, according to SACEUR Cavoli’s testimony in front of HASC and SASC…and the Russians will never live up to any agreement unless compelled.
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Erik van Nimwegen @erikvannimwegen.bsky.social · 29/04/2025
The most profound insights are often also the most simple: growth-rate, by setting the dilution rate of intra-cellular molecules, controls the sensitivity of gene regulatory circuits. In retrospect it seems crazy that this effect seems to have been overlooked so far. www.science.org/doi/10.1126/...
science.org
Growth rate controls the sensitivity of gene regulatory circuits
Through the simple effect of dilution rate, regulatory circuits systematically change their sensitivity with growth rate.
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Jon Cooper @joncooper-us.bsky.social · 20/02/2025
“Zelensky survived a dozen Russian assassination attempts including a special forces assault on his presidential complex.He stood up to Trump. I’m sure he’ll be deeply impressed to learn our Congressional Republicans live as terrified hostages of their own party leader.” ~ @michaeldweiss.bsky.social
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Darth Putin @darthputinkgb.bsky.social · 25/04/2025
You don't believe our nuclear bluffs anymore. Yet you still let us kill with impunity.
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Mihaela Zavolan @mihaelazavolan.bsky.social · 21/04/2025
How about having a counter for how many times we need to reach this conclusion before acting on it? Here's one tick: genomebiology.biomedcentral.com/articles/10....
genomebiology.biomedcentral.com
Current limitations in predicting mRNA translation with deep learning models - Genome Biology
Background The design of nucleotide sequences with defined properties is a long-standing problem in bioengineering. An important application is protein expression, be it in the context of research or ...
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Christoph Handschin @c-handschin.bsky.social · 21/04/2025
What the is early stress response in exercised #muscle for? At least for Klf5, this seems important to shape lipid homeostasis in the acute (fatty acid metabolism) and chronic (lipid synthesis) settings. All this and more in our new paper: #myoblue www.sciencedirect.com/science/arti...
sciencedirect.com
Krüppel-like factor 5 remodels lipid metabolism in exercised skeletal muscle
Regular physical activity induces a variety of health benefits, preventing and counteracting diseases caused by a sedentary lifestyle. However, the mo…
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Harmit Singh Malik @harmitmalik.bsky.social · 19/04/2025
I have exhorted others to share positive news even in these uncertain times for US science. I am really excited that @tamanash.bsky.social’s first paper on the remarkable evolutionary gymnastics of dual-host viruses (even in single codons) is now online. Follow along here 🧪🧵
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Mihaela Zavolan @mihaelazavolan.bsky.social · 14/04/2025
Look what's been hanging out in Basel University's library (Nietzsche's literary opus) www.unibas.ch/de/Aktuell/N...
unibas.ch
UNESCO nimmt Friedrich Nietzsches literarischen Nachlass ins Weltdokumentenerbe auf
Der literarische Nachlass von Friedrich Nietzsche wird Teil des UNESCO-Registers «Memory of the World». Diese Auszeichnung würdigt die herausragende Bedeutung seines literarischen Schaffens für die in...
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Mihaela Zavolan @mihaelazavolan.bsky.social · 12/04/2025
The extent to which all these wannabe strong men bend over backwards to satisfy each other's delusions of grandeur has reached phantasmagorical proportions.
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Mihaela Zavolan @mihaelazavolan.bsky.social · 12/04/2025
Creativity and innovation are precisely what gets us out of crisis situations. Blind hits to these capacities do not.
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Mihaela Zavolan @mihaelazavolan.bsky.social · 08/04/2025
Issue is that it's not one man
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