Interesting finding on cancer lineage tracing for SCLC www.nature.com/articles/s41...

Nature’s Careers team spoke to a group of researchers about why they love LinkedIn, and how other scientists can use it to their advantage to harness its career-boosting and collaboration potential. #Academicsky 🧪

A pre-trained t-test transformer - www.nxn.se/p/a-pre-trai...

One thing that really bothers me with the new "virtual cell" terminology is that it is currently largely focused on a very narrow definition of models that can predict effects of trans perturbations (gene dosage, drugs etc) on gene expression. 1/

“SkinnyTok’s ruthless tone rings true to many women because they’re already being so ruthless toward themselves,” Annie Joy Williams writes:

Ultraprocessed foods have "contributed to high rates of chronic disease in the United States" They need to be regulated. @nejm.org today, the ways they can be reined in. www.nejm.org/media/doi/fu...

Let’s give a big round of applause to Jakob Jung, who has successfully defended his dissertation! 👏 Congratulations, @jabster93.bsky.social‬! The #HIRI family is celebrating with you! 🥳 Read more: www.helmholtz-hiri.de/en/newsroom/...

The deadline for the VIB.AI group leader positions is approaching - send in your CV and short research plan before 14th June to start your BioML research lab in Leuven or Ghent

Experiments in infrared photography. 📷 Bronica S2 & Nikkor-P 75mm f/2.8 🎞️ Ilford SPX 200

Personal news: I have been appointed by the rector of @helsinki.fi to a tenure-track associate prof position in Clinical Microbiology and Immunology! My affiliations are with the Faculty of Medicine and HiLIFE, Institute of Life Sciences @helsinki.fi . Humbled and excited to start this new journey!

Excited to be back at #eshg2025! Come by my poster today to check out fresh results on how rare high impact variants influence gene expression across immune cells—analyzed in 5,000 UK Biobank participants

A research team led from Stockholm University & @scilifelab.se has answered a long-standing question in cell biology, uncovering how the cell’s main energy currency, ATP, is transported into the endoplasmic reticulum (ER). The study is published in @nature.com.web.brid.gy www.su.se/department-o...

join us at ISMB iscb.bsky.social & @dreamchallenges.bsky.social - benchmarking foundation models w. @anshulkundaje.bsky.social @oldbap.bsky.social G. Stolovitzky @bowang87.bsky.social @mariabrbic.bsky.social K. Kalantar, J. Guinney supported by @ebi.embl.org @cziscience.bsky.social Tempus AI

Tissue-specific restriction of TE-derived regulatory elements safeguards cell-type identity https://www.biorxiv.org/content/10.1101/2025.05.13.653700v1

📷 Zorki-1 & Industar-22 50mm f/3.5 🎞️ Fujifilm Color 400

Please! No more UMAPs/t-SNEs 👇👇👇

📷 Minolta Autocord I & Rokkor 75mm f/3.5 🎞️ Eastman Kodak double XX 250

📷 Nikon-F2 & Voigtländer Nokton 58mm f/1.4 🎞️ CineStill D50

New preprint! My (now former) postdoc @kvastad.bsky.social led this integration of GWAS and spatial transcriptomics (ST) data to identify tissue structures with enrichment of disease-implicated genes = likely causal drivers of disease biology. www.biorxiv.org/content/10.1...

Single molecule imaging reveals extracellular signal-regulated kinases dependent signal responsive spatial regulation of translation in cardiomyocytes https://www.biorxiv.org/content/10.1101/2025.05.05.652192v1

The ERC welcomes the offer of substantial additional budget from @ec.europa.eu for the development of a new ERC funding instrument offering larger, longer-term grants, as announced by President Ursula Von der Leyen at the Sorbonne this morning. 👉 europa.eu/!NTYTTV

Europe’s choice is clear. To put science at the heart of its economy. To become the home of scientific freedom and collaboration. And to welcome talent from all over the world. I’m glad to present the first elements of our Choose Europe Initiative. → europa.eu/!TTbWbJ

Experiments on infrared 📷 Pentax Spotmatic & Carl Zeiss Jena Pancolar 50mm f/1.8 🎞️ Rollei Infrared 400

Půlka, the photogenic cat.

CALL FOR APPLICATIONS: The Sigrid Jusélius Foundation is announcing a global call for 1-3 positions as Sigrid Jusélius Professors in the fields of basic, clinical, or translational medicine. Read more on our webpage: sigridjuselius.fi/en/apurahat/...

Finally, the set up is complete! 🎧🎶🎻🎺🎷

Fine-Tuning Protein Language Models Unlocks the Potential of Underrepresented Viral Proteomes https://www.biorxiv.org/content/10.1101/2025.04.17.649224v1

As part of my attempt to make academia more transparent, here is a brief analysis of my papers and their rejections: 🔥 If At First You Don’t Succeed… — Counting Paper Rejections 🔥 #AcademicBlogging #AcademicSky #MachineLearning bastian.rieck.me/blog/2025/re...

📷 Nikon-F & Nikkor-S Auto 50mm f/1.4 🎞️ Kodak Gold 200

SFI’s Complexity podcast is up for a Webby Award! Nominated in the Science & Education category, Episode 2 of the most recent season explores the relationship between language and thought with guests Evelina Federenko, Steve Piantadosi, and Gary Lupyan. vote.webbyawards.com/PublicVoting...

Very proud of two new preprints from the lab: 1) CREsted: to train sequence-to-function deep learning models on scATAC-seq atlases, and use them to decipher enhancer logic and design synthetic enhancers. This has been a wonderful lab-wide collaborative effort. www.biorxiv.org/content/10.1...

Quanta’s mission is to illuminate basic science and mathematics. Help us get recognized among the internet’s best in the The Webby Awards. Vote here: vote.webbyawards.com/PublicVoting...

Can a stem cell change its epigenome while proliferating? In collaboration with the lab of Amos Tanay, we demonstrate that yes, the epigenome of neural stem cells (NSCs) is continuously remodeled, across multiple layers, during mouse corticogenesis. 1/14 www.biorxiv.org/content/10.1...

Defining effective strategies to integrate multi-sample single-nucleus ATAC-seq datasets via a multimodal-guided approach https://www.biorxiv.org/content/10.1101/2025.04.02.646871v1

A new spatial transcriptomics approach eliminates the need for time-intensive imaging with specialized equipment, making the technique accessible to more researchers around the world. @naturebiotech.bsky.social

Are you an established (”distinguished”) researcher outside Europe? Thinking of moving here for some reason? Grant opportunity just dropped: www.vr.se/english/appl...

It’s time to introduce slugs! These slimy creatures are now taking over @svobodalab.bsky.social lab and I am in part responsible for keeping them alive. Why do we have them in the lab? I’ll try to explain in this thread.

Can’t wait to shoot infrared again 📷 Pentax Spotmatic & Carl Zeiss Jena Pancolar 50mm f/1.8 🎞️ Rollei Infrared 400

We are delighted to announce a new collaboration between HCA and @UNESCO.org to help advance open science, global capacity and ethical frameworks to deliver the benefits of genomics at a global scale. www.humancellatlas.org/news/the-hum...

Super excited to see NicheCompass out! Want to take a closer look at what those cells in your spatial data are doing? Go and play with NicheCompass and its interpretable framework to understand cellular collectives and dynamics: www.nature.com/articles/s41... @sebastianbirk.bsky.social

📄 Update on our preprint about Gene Regulatory Net (GRN) benchmarking 📄 We have included the original and decoupled version of SCENIC+, added a new metric and two more databases. Dictys and SCENIC+ outperformed others, but still performed poorly in causal mechanistic tasks. doi.org/10.1101/2024... 👇

NEW 🧵 Is human intelligence starting to decline? Recent results from major international tests show that the average person’s capacity to process information, use reasoning and solve novel problems has been falling since around the mid 2010s What should we make of this? www.ft.com/content/a801...

It's time for individuals and organizations in Europe and other democratic countries to move mission- or life-critical IT services and infrastructure outside the reach of the US government; noting that US tech companies have already largely subordinated themselves. www.huber.embl.de/group/posts/...

A pre-trained SCVI model of our Tahoe-100M cell atlas is now available as a HubModel! It can be used for gene expression visualization, differential expression, or cell clustering. Available at Hugging Face with instructions on how to load it (see thread)

Xenium product updates : RNA and protein multiomics workflow @10xgenomics.bsky.social #AGBT2025 #AGBT25

FOMO on all the cool science & tech at #AGBT25. on Feb 28th, we’re spilling all the beans on our fave developments in #ngs #spatial #multiomics #singlecell. Register: www.genengnews.com/multimedia/g... @jlemieux.bsky.social @biomath.bsky.social @catharineaquino.bsky.social @jessie-no.bsky.social

📝 FeatureForest: the power of foundation models, the usability of random forests. Nomen est omen! We use features of the biggest models and train a handy random forest based pixel classifier with them. 👍 Hit bioRxiv recently… check it out! www.biorxiv.org/content/10.1...

Best practices for single-cell analysis across modalities go.nature.com/4gJkk3c #ExpertRecommendation by @lukasheumos.bsky.social et al. (from the @fabiantheis.bsky.social lab) - now nearing 250k accesses! Free to read here: rdcu.be/eabUB