Joanna Krupka

What a big conference for #microproteins! Enjoying the #GRC Decoding Microproteins Across Evolution and Disease.

Also, I find this simultaneously fascinating and hard to believe.

Precision neuroscience Nature Biotechnology - Developers are recombining or sharpening established drugs, molecules and mechanisms to create a new generation of neurology therapies.

Research into regulatory "backbenches" proteins pays off: fewer adverse effects, higher specificity and the ability to target “undruggable” proteins. Examples: Nav1.7 channel regulator (Regulonix) and glutamate or acetylcholine receptor associated proteins (Rapport Therapeutics).

rdcu.be/ekP3N

For now, we’ll likely run LymphGen and DLBclass in parallel. We may see the integration of different modalities (e.g., transcriptional, microenvironmental, proteomic, epigenetic) reveal new subtypes or refine existing ones. 3/3

DLBclass subtypes 100% of cases, while LymphGen leaves ~40% unclassified. Forcing assignments risks diluting molecular purity affecting potential personalised clinical trials, but failing to assign a subtype may miss a therapeutic opportunity. 2/3

Class struggle in DLBCL In this issue of Blood, Chapuy et al report on the development of DLBclass,1 a probabilistic, neural network–based classifier that assigns individual cases

Is there a class struggle in DLBCL? How many subtypes are there? Do we need another classifier? Check out the commentary by Dan Hodson and me on the new probabilistic classifier for DLBCL, just published in @bloodjournal.bsky.social
ashpublications.org/blood/articl...
1/3

The DIRECT study: A roadmap for ctDNA-based risk prediction, molecular profiling and MRD detection in Diffuse Large B Cell Lymphoma DIRECT was a prospective, multisite study assessing the feasibility and utility of circulating tumor DNA (ctDNA) in 188 patients with aggressive B-cell non-Hodgkin lymphoma using a lymphoma-customized...

🚨NEW PREPRINT! Excited to share the results of the DIRECT study - a prospective, multisite study of ctDNA in 188 aggressive B‑cell lymphoma patients, involving pre‑treatment risk prediction, genetic profiling, and end‑of‑treatment MRD assessment via phased variants. www.medrxiv.org/content/10.1...

Proprietary software is important for funding tech development, but the availability of open-source drives innovation. Consider, for example, Linux, Llama, Android, or Darwin.

Below, the story of Netscape from Ben Horowitz's "The Hard Thing About Hard Things"

Increasing demand for novels in the 19th century in England correlated with improving literacy (60% of men, 40% of women in the 1800s vs. 97% by the 1900s). Reading was no longer an upper-class domain. It's ironic how an objectively positive change was criticized from a normative side.

From "The Novel and its Critics in the Early Nineteenth Century" by Michael Munday; Studies in Philology, Vol. 79, No. 2 (Spring, 1982)

Back in the early 1800s, when novels started taking off, they faced significant criticism. Some reviews from that era resemble today’s arguments against the widespread use of AI.

Biologist whose innovation saved the life of British teenager wins $3m Breakthrough prize Prof David Liu is among the winners of 2025’s ‘Oscars of science’, with honours also going to researchers for landmark work on multiple sclerosis, particle physics and ‘skinny jabs’

Human creativity at its best
www.theguardian.com/science/2025...

Something sweet for microproteins aficionados!

“More Lively Counterfaits”: Experimental Imaging at the Birth of Modern Science From infographics to digital renders, today’s scientists have ready access to a wide array of techniques to help visually communicate their research. It wasn’t always so. Gregorio Astengo explores the...

"The problem of efficient imaging was particularly felt during the early years of the Royal Society"(~1660s). Feeling less guilty about spending hours finding the right plot, colour palette, and composition - it's all at the heart of the Scientific Revolution. publicdomainreview.org/essay/more-l...

Astrology is booming, thanks to technology and younger enthusiasts Gen Z is full of stargazing users

"61% of Americans say that astrology provides comfort in uncertain times". People seek explanations and causality, escaping the anxiety of freedom and infinite possibilities. Science was thought to fill that role, but I guess it doesn’t help much with dating.
www.economist.com/culture/2025...

What an interesting statement! In principle, not observing something as a trend or event doesn’t preclude its existence. We can debate if truth-finding is overly hypothesis-driven (think, „can a biologist fix a radio”), but I agree, the thinking process remains broadly similar with good outcomes.

Last-minute trip to London to see Francis Bacon: Human Presence. A moving and unsettling exhibition at the National Portrait Gallery, exploring complex emotions and the fragility of human existence.

Orb 🏀

I really enjoyed this episode! I think biology as a cumulative science feels inefficient because hypothesis generation and exploration often depend on individual intellectual preparedness when interpreting data. Choosing one strategy over another reflects preference rather than methodological rigor.

Limits in the detection of m6A changes using MeRIP/m6A-seq - Scientific Reports Scientific Reports - Limits in the detection of m6A changes using MeRIP/m6A-seq

From 2020, but still highly relevant - common pitfalls in binding profile analysis. Focused on m6A changes, but similar issues apply to other RNA immunoprecipitation sequencing techniques. www.nature.com/articles/s41...

Unpopular opinion: Biomedical science is over-regulated, slowing progress by focusing too much on hypothetical risks. Many issues stem from sloppy research or individual irresponsibility, which regulations can’t fully prevent.

Our latest work is out in Nature today! Using smFRET, we directly visualized recruitment of the eIF4F complex to the 5' cap of eukaryotic mRNAs and formation of an activated mRNA. Our findings reveal new and surprising roles for each eIF4F component. 1/3 www.nature.com/articles/s41...

Fascinating paper on unannotated splicing junctions between exons and transposable elements (JETs). Pervasive, but very contextual expression increasing proteome diversity.

SM has become so dull lately. Over there, it’s mainly Elon rambling and trolls (is it me only?), while here, the feed still lacks momentum. I miss the old Twitter, where I could browse papers and enjoy some spicy cultural or political drama in the same time.

Transcriptome-scale RNA-targeting CRISPR screens reveal essential lncRNAs in human cells Massively parallel CRISPR-Cas13 screens in multiple human cell lines uncover universally essential and context-specific essential lncRNAs that exhibit dynamic expression during development and in spec...

Ok so I love this new Cell paper on lncRNAs.
and also it dovetails largely with the microproteins work on essential non-canonical ORFs that several groups have been studying including my own.

#RNAsky #microproteins #cansky folks

🧪
💻+🧬
🔎 microproteins

www.cell.com/cell/fulltex...

That's amazing! Thank you!

I would call for an advanced straight away!

Is there a starter pack of starter packs? A meta starter pack? 🤔

Joining right now! 🫡

The unfortunate reality is that this wouldn't be possible today. The UK chose not to participate as an associated third country in the new Erasmus+ program.