Schematic overview of NEP analysis steps (Neighborhood definition, Quantification and NEP score) and the systematic method performance comparison using simulated data for cohort distinction.

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Ever wondered how to best quantify cell-cell neighbor preferences in tissues?
We compared 9+ neighbor preference (NEP) methods for analysing spatial omics data and propose a novel approach that combines the most relevant analysis features which we call COZI 🔬✨

Read more: doi.org/10.1101/2025...

The first version of NetworkCommons is now published in Bioinformatics. Next, we’ll focus on involving more of the network biology community.
academic.oup.com/bioinformati...
In parallel, we’ll continue expanding benchmarks and developing new applications.
Interested in contributing? Reach out! ⬇️

We are very happy to present our work on N-glycoproteomics!🍬 Our method enables the selective enrichment and precise quantification of intact N-glycopeptides to explore the dynamics of glycosylation microheterogeneity.
www.nature.com/articles/s41...

Lol

GRETA graphical abstract

We present Gene Regulatory nETwork Analsyis (GRETA), a framework to infer, compare and evaluate gene regulatory networks #GRNs. With it, we have benchmarked multimodal and unimodal GRN inference methods. Check the results here 👇
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta

1/11 - With Karin Mitosch and Clément Potel + colleagues in Savitski lab and @typaslab.bsky.social @embl.org, I’m very happy to share our discovery of a hyper-promiscuous phage protein kinase (T7K) which broadly deactivates bacterial defenses! 🦠
www.biorxiv.org/content/10.1...

Multi-Omics Factor Analysis (MOFA) has become pretty widely used as a first-line tool to look at multi-modal (omics) data from multiple samples.
The method's algorithm is clearly valuable, but I'm starting to realize that for many users, just as valuable is ... (1/2)
biofam.github.io/MOFA2/

A meme of TinTin speaking to Captain. Captain, looking defeated, says "2020 has been a hell of a year" TinTin replies "Captain, it's almost 2025”

🚨🦠🧬Less than one month to register with an Early Birth rate!! Join us next year to discuss all things ancient pathogen genomics in beautiful Querétaro 🪅🇲🇽
liigh.unam.mx/apg

We have created a starterpack to make it easier to follow current members and alumni from our lab, check it out 👇 (DM us if we forgot about you)
Also juliosaezrod.bsky.social has recently joined Bluesky
go.bsky.app/5ZtPHPz

Hi everyone!

Here's a starter pack of genomics scientists trained in Mexico 🇲🇽 including from #LCG-UNAM #LCG-EJ-UNAM undergrads, #RMB / #NNB-UNAM / @cdsbmexico.bsky.social workshops, and more

It's in an early stage and I'm trying to get more to join us here at #AcademicSky

go.bsky.app/5bWBN5V