Catalina Vallejos

Happy to share our new preprint! 📊

We benchmarked methods for locus-level transposable element quantification in short-read scRNA-seq, using both real datasets and simulations with read-level ground truth.

Huge thanks to @catavallejos.bsky.social and @antonio-scialdone.bsky.social!

#TEsky

scMET: Bayesian modeling of DNA methylation heterogeneity at single-cell resolution - Genome Biology High-throughput single-cell measurements of DNA methylomes can quantify methylation heterogeneity and uncover its role in gene regulation. However, technical limitations and sparse coverage can preclu...

In case you are interested, we extended a similar idea to single cell methylation data: link.springer.com/article/10.1...

Scalable inference of transcriptional variability with BASiCS BASiCS (Bayesian Analysis of Single-Cell Sequencing data) is an integrated Bayesian hierarchical model for the analysis of single-cell RNA sequencing …

Our work with Alan O'Callaghan now published!

Are you interested in how divide-and-conquer MCMC methods could speed up Bayesian inference for a high dimensional model (thousands of params) with "tall and wide" data (large p and large n)?

Read our paper:

www.sciencedirect.com/science/arti...

@catavallejos.bsky.social kicking off our @ellis.eu summer school on ML for biology and healthcare

Very nice blog post by @ibdnathan.bsky.social, sharing his experience as an IBD researcher and patient #WorldIBDday blogs.ed.ac.uk/institute-ge...

It was a pleasure to present our collaboration with PREDICT at #ECCO2025 last week. We demonstrate subgroups of IBD patients can be characterised by distinct FC and CRP profiles, validated independently in 🇩🇰. The preprint is available here: doi.org/10.1101/2024...

Where RNA Science Meets AI, May 4–8, 2025, Ascona. Invited speakers: @evamarianovoa.bsky.social @fabiantheis.bsky.social @rivaselenarivas.bsky.social, Sterling Churchman, Barbara Treutlein, Rahul Satijia,
Registration open www.rna-ai.org
@hagentilgner.bsky.social @quaidmorris.bsky.social

161 outstanding machine learning researchers accepted as new ELLIS Fellows & Scholars The ELLIS mission is to create a diverse European network that promotes research excellence and advances breakthroughs in AI, as well as a pan-European PhD program to educate the next generation of AI...

I am very honoured to have been elected as an ELLIS Health Scholar ellis.eu/news/161-out...

By popular demand, I have updated our starter pack in Stats, ML & Omics. Let me know if you'd like to be added. #ML #AI #singlecell #spatial #omics #statistics
go.bsky.app/73rcuJn

With @sokratiag.bsky.social, Kevin Couper and Hongpeng Zhou I'm offering a PhD opportunity at the University of Manchester, UK, on Multimodal AI methods for spatial omics data to characterise tumour microenvironments bit.ly/3Oub4E6

Thanks to all the speakers, session chairs, presenters and attendees. Thanks for a fantastic conference!!!!!!!!!!! See you back at CSHL for #biodata26 on November 3-7, 2026! #biodata24

me too please!