Alejandro Montenegro

Single-cell nascent transcription reveals sparse genome usage and plasticity scFLUENT-seq is a single-cell method that sensitively captures nascent nuclear transcriptomes to reveal mRNA and ncRNA dynamics, heterogeneity across chromatin compartments, and transcriptional divers...

"Surprisingly, individual cells—from splenic lymphocytes to pluripotent stem cells—transcribe only ∼0.02%–3.1% of the genome, versus >80% in bulk, revealing limited genome engagement and profound cell-type and cell-to-cell heterogeneity"

www.cell.com/cell/abstrac...

We, editors, don't "count votes", and yes, we may make decisions that differ from your recommendation. And that doesn't mean we "are wrong".

Full text in links

Full text in links

Faculty positions in animal morphogenesis that may be filled at the Assistant or Associate Professor level in one of my favorite Departments" Cell and Systems Biology at the University of Toronto. 1/n
jobs.utoronto.ca/job/Toronto-...
jobs.utoronto.ca/job/Toronto-...

Thank you again for joining us 😊

very much enjoying @molbiosystems.bsky.social conference -very south of 🌎 in #Chile -outstanding selection of topics and models 🦚🦋🪴🐀🐢 -very refreshing -lots of new ideas and very collegial !

Thanks @aemonten.bsky.social for the invite - for putting this together

& for arranging the ☀️ on Osorno 👇

Really happy and thankful to @molbiosystems.bsky.social organization for inviting me to present our work in such special and stimulating environment. Lots of great science in Puerto Varas, Chile
@geneticsub.bsky.social
@sesbe-org.bsky.social
@sebioldev.bsky.social
#molbiosys2025

📷Cover image info: cshprotocols.cshlp.org/content/2025...

📒Full issue: cshprotocols.cshlp.org/content/2025...

A new issue of CSH Protocols is out!

The cover image highlights the work by Wallace et al.,who provide an overview of recent progress in the field of maize microbiome research.

⬇️Links below

We thank Scientific Reports (@natureportfolio.nature.com) and @peerj.bsky.social for their help and support on this initiative

At @molbiosystems.bsky.social, we are giving away waivers at two large, broad-scope journals, to help people and make it easier to share exactly this type of work

And quite often, plain wrong

So can I 😬😎

No more puns in titles, please 😭

two men in suits and ties are standing next to each other in an office ALT: two men in suits and ties are standing next to each other in an office

That moment when a speaker cancels a week before the conference...

Given that the editor of Curr Biology was at Nature, he might want it

But hey, can't hurt to ask in Science :)

The origins and development of free-electron lasers in the UK | Notes and Records: the Royal Society Journal of the History of Science This review article covers close to 45 years of free-electron laser (FEL) activity in the UK from the mid 1970s until 2022. Technical details of the projects are given together with personal insights provided by those who worked on specific projects. ...

this is the kind i had in mind royalsocietypublishing.org/doi/10.1098/...

One of the royal society journals, maybe?

Risks of AI scientists: prioritizing safeguarding over autonomy - Nature Communications AI scientists powered by large language models and AI agents present both opportunities and risks in automatic scientific discovery. Here, the authors examine the vulnerabilities of AI scientists, pro...

"This perspective examines vulnerabilities in AI scientists, shedding light on potential risks associated with their misuse, and emphasizing the need for safety measures"

www.nature.com/articles/s41...

At @molbiosystems.bsky.social , we agree

Conveying that message, so that people understand what peer review can do, and, importantly, what it cannot do, is important, as is fighting the notion that "published" means "true".

Peer review is not a "stamp of approval" or a certification of 'truth'; it's a pressure test, and the pressure applied varies by venue. And, ultimately, a paper published in a journal is just a reflection of what an editor thought would be *useful* to their community.

The gift that keeps on giving

You can blame @richardsever.bsky.social for persuading me to take on this 7 year task.

I did test the waters to see if other publishers were interested (they were), but @cshlpress.bsky.social were very easy to work with and clearly committed to supporting me, it was an easy decision.

bsky.app/profile/ferr...

Thank you for publishing your book with us at CSHL Press!

Peer-review works Clear Skies’ data analysis shows that peer-review rejects papers where we flag concerns.

"there is a step in the (...) process which is highly accurate. It’s slow, error-prone, and expensive, but it is spectacularly good at identifying problematic research: that step is called "peer review".

medium.com/@clearskiesa...

What's the German word for the joy you feel when you see your checked bag on the carousel?

La-Proteina: Atomistic Protein Generation via Partially Latent Flow Matching La-Proteina: Atomistic Protein Generation via Partially Latent Flow Matching

La proteina, La proteína, ya no puede caminar 🎶

research.nvidia.com/labs/genair/...