☎️ Berlin Calling: Your Research. Our City. A Perfect Match. The Einstein Postdoctoral Grant for early career researchers or the Einstein Visiting Fellowship for distinguished scholars – our funding opportunities offer pathways into Berlin’s research landscape. berlincalling.einsteinfoundation.de

To evaluate computational models, we rely on trusted benchmark data and metrics So what if a metrics is widely used… but plain wrong? It means that evaluations in dozens of papers are meaningless. This has happened in single cell genomics… (1/)

20 year lab anniversary and local reunion last Friday!

Finally!! “No government — regardless of which party is in power — should dictate what private universities can teach, whom they can admit and hire, and which areas of study and inquiry they can pursue” Harvard president Alan M. Garber www.nytimes.com/2025/04/15/u...

Destroying things takes days. Rebuilding things takes decades. There is only the present moment to prevent the worst.

A friend at NIH received notice that the National Library of Medicine is terminating its bioinformatics program

PLOS has issued a statement on recent US Executive Orders and scientific integrity. We are determined to stand firmly behind our mission, our values and our principles, and against any attempt at censorship or undermining of the core principles of scientific inquiry. plos.io/3D4O8cH

European Federation of Academies of Sciences and Humanities ALLEA Statement Responding to Recent U.S. Restrictions on Academic Freedom: allea.org/allea-publis...

❓ What do you think about nf-core ❓ 🤔 We want your thoughts on the initiative, whether you are a user, developer, newcomer or veteran. ✏️ Fill out this short and anonymous <5min survey to help us guide the community! seqera.typeform.com/2025-nf-core #bioinformatics #nextflow #nfcore #pipelines

Many of the NCBI resources and eRA Commons were run by contractors. However, many of these folks were apparently converted to Fed positions at the end of last year to protect them. This means that many of them were probationary NIH employees... Trying to run this down... 2/n

Will share the occasional piece of music that I am listening to. Who knows, maybe someone will discover a new favorite this way… youtube.com/watch?v=hov0...

This cause is close to my heart - please sign: weact.campact.de/petitions/sa...

Im Podcast "In aller Ruhe" mit @emcke.bsky.social habe ich über Forschung, Fakten & politische Verantwortung gesprochen – und drei Vorschläge für die nächste Bundesregierung gemacht. 🎙️👇 www.sueddeutsche.de/meinung/podc...

Deadline in 10 days!! @mdc-berlin.bsky.social

In which employees of a private company gain total access to files of every citizen, and government offices are stacked with ‚loyals‘. It makes me wonder, dear friends in the US: do you see it differently? Because from here, it does look like a coup. With a lot of added noise for distraction. 2/2

Tonight, the US correspondent of Austrian public broadcasting expressed consternation at the laissez faire of the American public that they are essentially victims to a coup. Not a military coup but one in which a billionaire‘s employees take over the government and fire public servants at will. 1/

Klingt dieses Video etwas zu aufgeregt? Für mich ja. Ist es höchste Zeit, das von den Rechten gelenkte Narrativ gerade zu rücken? Absolut. youtube.com/watch?v=RbxT...

Important study from Pia @prauten.bsky.social in the lab: some popular evaluation metrics for #singlecell analysis #benchmarking are intrinsically flawed and report near optimal scores even when methods completely fail. This issue is found in dozens of papers. Read her thread for the whole story!

This is an amazing opportunity for graduate students in #PlantScience who consider a postdoc. 3-day, all-expenses-paid program from July 23-25, 2025 in San Diego! Check it out and spread the word! www.salk.edu/about/our-co...

So. the cowardly abandonment of fact checking and content moderation at #Meta makes it more urgent - how can we let our children use any social media? How can we educate to make use of the good things and support facts while not promoting fascism, autocrats, xenophobia, lgbtqia+phobia etc?

Happy to have you visit! For anyone in Berlin - the seminar is Tues 14th at 4pm.

“Onconaut,” an #AI-based online tool that #mdcBerlin's @al2na.bsky.social has developed, helps oncologists and patients to find the most up-to-date and tailored treatment possible. @helmholtzai.bsky.social has now recognized it as the “Best digital resource.” More: www.mdc-berlin.de/news/news/na...

Our institute wide grad school recruitment 2025 is open! We’d love to see more #computerscience #bioinformatics #machinelearning applicants. Behind the broad biomedical topics below you will find lots of exciting #datascience projects!!

We are looking for new group leaders. If RNA is your thing, and/or computational biology and you want to start your own group, check out these links. Feel free to contact me about these! And, please help me spread this. Thanks! www.imb.de/jobs/jobdeta... www.imb.de/jobs/jobdeta...

Hugely deserved award for my colleague…

Check out this systematic benchmark of genome-wide, annotation agnostic DNALMs & strong baseline ab-initio models for biologically meaningful tasks in regulatory genomics 1/

Reminder #jobalert for a starting postdoc or PhD position (for someone with strong ML background)! Joint project with Gregoire Montavon’s lab at #BIFOLD @xtraexer.bsky.social - explainable AI for self supervised LLMs in gene regulation. Apply until Dec 13! www.bifold.berlin/about-us/opp...

We want to make JASPAR even better for our users! Please share your experience and ideas to help us enhance the database by taking a quick survey at nettskjema.no/a/467839. Your insights make a difference! Thank you so much for your participation.

#paperalert! In our new study, we ask the question: Can we predict RNA stability across conditions and protocols, based solely on experimental and/or computationally predicted RNA binding protein target sites? Read the paper to find out ! www.biorxiv.org/content/10.1...

On the way to #Dagstuhl for a week full of amazing RNA & ML - co-organizing w/ @igorulitsky.bsky.social #KathiZarnack #AnnalisaMarsico #GeneYeo. First time since 2019! www.dagstuhl.de/en/seminars/...

Our fantastic collaboration with the lab of Nils Blüthgen @molsysbio.bsky.social has been published: www.embopress.org/doi/full/10.... #RNASky #RNAbiology @mdc-berlin.bsky.social

Happy to share our perspective preprint on the state of explainable AI. XAI needs to shift from algorithm- to problem-driven development to make sure methods can serve meaningful purposes. We are looking forward to discuss, here or on alphaxiv.org/abs/2409.14590 .

First #jobalert on Bluesky! Postdoc (or PhD position with strong ML background), for a joint project with Gregoire Montavon’s lab at #BIFOLD #TU-Berlin . Topic is explainable AI /ML for self supervised LLMs in multi/spatial omics & gene regulation. www.jobs.tu-berlin.de/stellenaussc...

🧵 Bioinformatics faces a critical challenge: despite its importance, software quality often falls short due to the lack of proper development practices. In our latest paper, we advocate for improving software quality in bioinformatics through teamwork. academic.oup.com/bioinformati...

Janelia is recruiting AI scientists and theory fellows to collaborate with experimental scientists on hard biological problems - these positions have a considerable level of independence and very competitive salaries. Join our great community! Ai.hhmi.org janelia.org/theoryfellow #neuroscience #AI

Joanne Chory, 1955-2024

JOBS! JOBS!! JOBS!!! 3 open positions in my lab (PhD & 2Postdoc). 2 in collaborative projects. if you're interested in using synthetic genomics to program gene regulation (or in #HIV latency) & could imagine a working in #Berlin. Apply/DM/email me! Find details below - spread the word please

Let's make a thread of RNA-related conferences in 2025 🧵 (add missing!)

Re-Posting our recent preprint, the last one I wrote up on The X That Must Not Be Named: www.biorxiv.org/content/10.1... Targeted single cell CRISPR dissection of complex enhancer landscapes - among the most intricate wet lab work we have attempted so far:

At the Michael Sars Centre, 📢 We are hiring Group Leaders! 🌊 Come join our team @UiB to lead innovative research in molecular, cellular and organismal biology using marine/aquatic organisms! ⌛️ Application deadline Dec. 15. Share this exciting opportunity ⤵️ tinyurl.com/4bwn8u3n @embl @EMBRC_EU

Hello World.. ehm.. Bluesky! Great to find many familiar faces on here! Also nice to see the @biorxivpreprint.bsky.social presence … To get more traction - let’s get journals and conferences to move over here! @ritastrack.bsky.social #EMBL #keystone #GRC #cshl #wellcome

Reminder for newcomers that bioRxiv has Bluesky accounts in every subject category - great way to keep up (please re-skeet) connect.biorxiv.org/news/2023/09...

Hey all - trying to rebuild a network over here. Who is excited about #cancergenomics, #microproteins, #childhoodcancer? Reach out! @sebastiaanvheesch.bsky.social @thomasmartinez.bsky.social @uwe-ohler.bsky.social @kentsisresearch.bsky.social 🧪 💻+🧬 🔎 microproteins

I have updated the #PlantScience #StarterPack. You can now include 150 accounts, instead of the initial 50. I have tried to focus on active accounts. go.bsky.app/8Zfmwf7

Independent GroupLeader / PI position in AI in Genome Biology, Multimodal Omics at European Molecular Biology Lab (EMBL), Heidelberg! www.embl.org/jobs/positio... Looking in particular for researchers with quantitative/ methodological background who want to dive into leading edge biology research.