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Changes in RNA abundance are most often attributed solely to changes in RNA production (transcription). Remember RNA degradation. Changes in RNA abundance also reflect changes in RNA degradation.

We should aspire to do much more than build new atlases with this type of data

How are proteins regulated across single cells of human tissues ? We developed a Bayesian model (BayesPG) for inferring protein regulation from single-cell protein & RNA data. For 28 % of proteins, abundance differs significantly from ... 🧵 biorxiv.org/content/10.110…

I am pleased to share that our paper entitled "Translation regulation by RNA stem-loops can reduce gene expression noise" has been published in BMC Bioinformatics (BMC). Enjoy reading it freely at: bmcbioinformatics.biomedcentral.com/articles/10.11…

🧵 A Thread on “Julia for Biologists” 🧵 1/ Introduction to Julia A 2023 perspective in Nature Methods highlights #Julia as a powerful programming language for computational biosciences! 🔗 Full article: nature.com/articles/s4159…

From abortion to immigration, here’s what’s at stake if Trump wins the election theguardian.com/us-news/ng-int…

When did the deep learning crowd first start callling prediction (i.e., forward pass) "inference"? And what should we now call traditional inference (i.e., *inverting* a forwards process)? Should I just call it "posterior inference" (or "statistical inference" if frequentist).

SynBio Turing patterns in E.coli. I've seen this amazing project progress over the last few years at Imperial and excited that it's now published. Well done to all involved! cell.com/cell-systems/f…

Half the reason mRNA levels may differ from protein levels

With José R Penadés, we challenged AI co-scientist Google AI to generate hypotheses. In just 2 days, it recapitulated our unpublished, experimentally confirmed mechanism for how cf-PICIs spread between bacterial species! 🤯 Imperial College London Fleming Initiative tinyurl.com/3byyaeh2

EFL-3/E2F7 modulates Wnt signalling by repressing the Nemo-like kinase LIT-1 during asymmetric epidermal cell division in C. elegans Read this Review Commons transfer article by Mar Ferrando Marco & Barkoulas Lab Imperial College London: journals.biologists.com/dev/article/15…

Diffusion models generalize *really* well: if you give them a million pictures of cats, they'll learn to generate reasonable-looking cats no one's ever seen before. But the weird thing is that no one knows why they work! In a theory paper accepted to #ICLR2025, I dug into this.

Two years ago, I've reoriented my research to try to make AI safe by design. In this TIME op-ed, I present my team's direction called "Scientist AI"; a practical, effective and more secure alternative to the current uncontrolled agency-driven trajectory. time.com/7283507/safer-…

One thing that really bothers me with the new "virtual cell" terminology is that 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/

Nature research paper: Axonal injury is a targetable driver of glioblastoma progression go.nature.com/4fHl6hY

Damage to axons in white matter by early glioblastoma (GBM) cells drives progression & spread of this aggressive, incurable brain tumour #GBM 📹 Melanie Clements, Wenhao Tang, Zan Florjanic Baronik, Holly Simpson Ragdale et al UCL Cancer Institute in nature ➡️ bpod.org.uk/archive/2025/8…

The big one is finally out!! In this paper, we set out to provide insight into the fundamental question; How do the individual cells from complex tissues regulate their proteomes? Brief summary of our findings 👇 biorxiv.org/content/10.110…