Thiago Britto-Borges

We're excited to announce the launch of NMDtxDB, a database dedicated to advancing our understanding of the Nonsense-Mediated mRNA Decay (#NMD) pathway and its targets.

Now published in Algorithms for Molecular Biology: link.springer.com/article/10.118…. Key message: a tiny CNN model with 7k parameters can capture main splice signals across vertebrates+insect and halves the minimap2 & miniprot junction error rate. I always use this new feature now.

@LyalinDotCom @geminicli Gemini skills when :)

I hope you're all following @geminicli, we're going to get a lot louder here.

@HamelHusain Tried Claude with marimo while using the --watch flag. I only had to add "dont forget to run `uvx marimo check <nb path>" to my agents file and it worked out of the box. Can see notebook update live and it works.

@MariosGeorgakis yes

I increasingly hear that pitching manuscripts to editors before submission has become mainstream for high-impact journals. Is this really a thing people regularly do now?

OpenSpliceAI: An efficient, modular implementation of SpliceAI enabling easy retraining on non-human species: elifesciences.org/reviewed-prepr…

@james_y_zou @ElanaPearl Congrats to both of you. I would love to read the final version of the manuscript. Do you have an author's link?

2/n Awesome work by @ElanaPearl! 📰 nature.com/articles/s4159… 🌐 github.com/ElanaPearl/int… Interactive viz: InterPLM.ai

How do protein language models (PLM) think about proteins?🧬 We answer this w/ #InterPLM, just published in @naturemethods! Using sparse autoencoders + LLM agent, we identify 1000s of interpretable concepts learned by PLMs, pointing to new biology 🧵

@ramalhoorg um grande sucesso ja no primeiro dia, parabens!

🦎Lancei HOJE «Python Fluente» 2ª edição em 3 volumes, a partir de R$ 99 o volume 1: catarse.me/pythonfluente Depois da campanha no Catarse, será vendido nas lojas, mas durante a campanha de pré-venda é mais barato e tem recompensas muito especiais. 🦎🦎🦎

@yoakiyama @ZhidianZ @sokrypton I will read the manuscript once I have time, but what is the input database?

Excited to share work with @ZhidianZ, Milot Mirdita, Martin Steinegger, and @sokrypton biorxiv.org/content/10.110… TLDR: We introduce MSA Pairformer, a 111M parameter protein language model that challenges the scaling paradigm in self-supervised protein language modeling 🧵

@jakescottMD Can you follow me so I can message you about this project?

If anyone claims vaccines haven’t been properly studied, show them this: We’ve now logged 500 randomized, controlled vaccine trials into our dataset with ~7.2M participants. The vast majority of trials reported safety outcomes. Many more trials to come. bit.ly/4le8z7D

Registrations to the 2025 AI for Protein Design, sponsored by @EMBO, @RosettaCommons, @ProteinSociety, @Kurabiotech and @AI_Proteins, being held in Puerto Varas, Chile, are now OPEN! More info, deadlines & attendee selection process: meetings.embo.org/event/25-ai-pr… #EMBOaiProteinDesign

More than 2700 3′UTRs are highly conserved. These 3′UTRs are essential components in mRNA templates, as their deletion decreases protein activity without changing protein abundance. Highly conserved 3′UTRs help the folding of proteins with long IDRs. biorxiv.org/content/10.110…

We have an opening for a Junior Professor in Artificial Intelligence in Medicine at the Institute of Bioinformatics at University Medicine Greifswald. Interested candidates can contact me directly via Email. Please find the job advertisement here: academics.de/jobs/w1-junior…

Covid vaccines saved lives at the height of the pandemic whether that fits your narrative or not They just did

I'm thrilled to see @math_rachel's interesting new article, on a recent deep learning microbiology paper, getting the attention it deserves -- check it out if you haven't seen it yet! rachel.fast.ai/posts/2025-06-…

Maarten van den Hoogenhof found a specific way to improve cardiac function in RBM20 cardiomyopathy. CAMK2 inhibition might become the first tailored therapy for a Dilated Cardiomyopathy (after mavacamten for Hypertrophic Cardiomyopathy): biorxiv.org/content/10.110…

You can set `UV_TORCH_BACKEND=auto` and uv will automatically install the right CUDA-enabled PyTorch for your machine, zero configuration

Our new paper is now live in Bioinformatics Advances! @BioinfoAdv @emblebi @ebi_jdispatcher academic.oup.com/bioinformatics…

@Tuliodna Can you please post the link to the paper?

Exciting news from CERI at Stellenbosch University! Our team has introduced cutting-edge AI techniques and software that can swiftly and precisely categorize thousands of genome sequences within seconds. Read about it at the gem - issuu.com/the.gem/docs/t…

@xbresson btw, to you have a website with all the slides links?

Someone is selling my deep learning course -- without my consent ! I don’t know who you are.. but what I do have are a very particular set of skills.. I will look for you, I will find you and.. I will ask for 50% of the revenue! 😄