iiinova — where your digital self keeps evolving

Giovanni Palla @giopll.bsky.social · 06/12/2025

I'll be at the AI Virtual Cells and Instruments: A New Era in Drug Discovery and Development. Stop by to chat about generative models and virtual cells! I'll be presenting our work @biohub.org on a scalable latent diffusion model for single-cell gene expression data.

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Giovanni Palla @giopll.bsky.social · 27/11/2025

As more single-cell perturbation data become available, it is crucial to establish a consensus on measures of success for perturbation prediction models. I reviewed recent literature and collected some thoughts on the current state of affairs. open.substack.com/pub/giovanni...

open.substack.com

Virtual Cell Perturbation Metrics Reloaded

Thoughts on metrics for perturbation prediction models

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Giovanni Palla @giopll.bsky.social · 07/11/2025

Yesterday, we released a new paper on a novel architecture for single-cell genomics. We call it scLDM to hint at the Latent Diffusion Model paradigm, a generative modeling framework that has been very successful across various domains.

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Reposted by Giovanni Palla

Lukas Heumos @lukasheumos.bsky.social · 06/11/2025

Excited to see a home for MCP servers in bioinformatics emerge! The community needs a central hub for developing MCP servers for key bioinfo tools. At @scverse.bsky.social we're contributing to this effort - can't wait to share what we're building

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Giovanni Palla @giopll.bsky.social · 03/10/2025

Fantastic lineup of panelists to discuss everything agentic coding in bioinformatics, still time to register here: www.eventbrite.com/e/scverse-co...

eventbrite.com

Scverse Conference 2025

From the foundational open-source software in the life sciences — to its large community coming together

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Reposted by Giovanni Palla

mariuslange.bsky.social @mariuslange.bsky.social · 28/03/2025

Happy to share CellAnnotator, a lightweight Python package to query OpenAI models for initial cell type annotations: github.com/quadbio/cell... Inspired by ideas in www.nature.com/articles/s41... and github.com/VPetukhov/GP..., implemented as an scVerse ecosystem package with docs and tutorials.

github.com

GitHub - quadbio/cell-annotator: Automatically annotate cell types, consistently across samples.

Automatically annotate cell types, consistently across samples. - quadbio/cell-annotator

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Reposted by Giovanni Palla

Luke Zappia @lazappi.bsky.social · 18/03/2025

Our paper benchmarking feature selection for scRNA-seq integration and reference usage is out now www.nature.com/articles/s41...! Keep reading for more about how we did the study and what we found out 🧵 👇 1/16

nature.com

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Reposted by Giovanni Palla

Valentine Svensson @nxn.se · 06/03/2025

A pre-trained SCVI model of our Tahoe-100M cell atlas is now available as a HubModel! It can be used for gene expression visualization, differential expression, or cell clustering. Available at Hugging Face with instructions on how to load it (see thread)

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Giovanni Palla @giopll.bsky.social · 10/02/2025

🚨 Deadline Approaching! 🚨 Only 3 days left to submit your tiny or full workshop papers! 📝✨ Don’t miss out—deadline is February 12, 2025, at 11:59 PM AoE. 👉 Submit your work here: openreview.net/group?id=ICL...

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Reposted by Giovanni Palla

Kristina Ulicna @kristinaulicna.bsky.social · 06/02/2025

We have a date! 📅 #LMRL2025 is coming to 🇸🇬 on 28th April 2025 @iclr-conf.bsky.social to bring life into AI 🌱😜 Biological of biomedical, any bio domain helping to bring *meaningfulness* into the world should be represented at this workshop 🌏 It's not late until 12th Feb AoE to submit! 📝

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Reposted by Giovanni Palla

Kristina Ulicna @kristinaulicna.bsky.social · 06/01/2025

📢 Calling all researchers! The #LMRL workshop is now accepting paper submissions! 🧬✨ 🎯 Showcase complete works / early-stage ideas 💡 via your chance to inspire & connect with a non-traditional AIxBio #ICLR2025 audience 🌍 👉 Help us spread the word of lmrl.org 🙌

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