Matthias Flotho

PBMCpedia: A Harmonized PBMC scRNA-seq Database With Unified Mapping and Enhanced Celltype Annotation #SingleCell 🧪🧬🖥️
https://www.biorxiv.org/content/10.1101/2025.08.06.668843v1

Agreed, papermills are for people with a small PNAS! Thanks for getting this big one out!

The title speaks for itself:

The entities enabling scientific fraud at scale are large, resilient, and growing rapidly

doi.org/10.1073/pnas...

📢New paper in @natecoevo.nature.com!
🦇Research reveals that bat wings form by reusing existing genetic programs

By @molgen.mpg.de, @mdc-berlin.bsky.social,
@cabd-upo-csic.bsky.social (@dariloops.bsky.social‬, @fany-real.bsky.social) & CNAG (@mamartirenom.bsky.social‬)

www.cnag.eu/news/flying-...

Our preprint is finally out for SingleRust:
doi.org/10.1101/2025...

Stay tuned: @singlerust.bsky.social, @ianfd.bsky.social
github.com/SingleRust

SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale https://www.biorxiv.org/content/10.1101/2025.08.04.668429v1

Cell Type Taxonomies A-Z: Webinar Series Webinar series covering everything and anything cell types starting in January 2024. Hosted by the Allen Institute.

Join us for an ABC Atlas office hour! 🧠📈

On Aug. 13 at 10am Pacific, product manager Elysha Fiabane and scientist Rachel Hostetler, PhD will be available to answer all of your questions related to new features and datasets in the Allen Brain Cell Atlas.

RSVP: alleninstitute.org/events/cell_...

🎉 scverse conference 2025 Registration & Call for Abstracts NOW OPEN! 🎉
We're excited to announce that registration and the call for abstracts are officially open for the scverse Conference 2025!
Details in thread!
🧵 1/3

The Virtual Lab of AI agents designs new SARS-CoV-2 nanobodies: a glimpse into agent-driven biology.
doi.org/10.1038/s415...
Sharing this as context for our MCPmed preprint: making biological data sources FAIR & ready for autonomous AI agent research.
doi.org/10.48550/arX...

#FAIRdata #MCPmed #MCP

This is brilliant!

A big round of applause from the SIC to Doctor Kalinina's Drug Bioinformatics group for a successful week at the #ISMBECCB2025 conference! 👏

1/ Ever watched your gene names quietly vanish in a spreadsheet?
You’re not alone.
Excel has silently corrupted genomic data in thousands of studies.
🧵 Let’s talk about the horrors of Excel in genomics:

That this is still a problem is simply insane ...

This week I presented DataSAIL at the #ISMBECCB2025 conference in #Liverpool
It has been an amazing chance and experience to meet many people working on information leakage. And getting great ideas to extend it

Nicely supervised by & colaborated with @dbblumenthal.bsky.social @ok55991.bsky.social

1/ The hardest part of bioinformatics isn’t only about the code.
It’s naming your damn files.
Let’s talk about the chaos in your final_v3.txt.

Chekout Johanna Bechers awesome work SIMoN Graph! (Also unrelated Simon Graf (@simongraf.bsky.social‬) next to SIMoN Graph)

#ISMB2025 #Knowledgegraph #RNAinteraction

🧬 New @emblebi.bsky.social service beta launched:
Perturbation Catalogue

🔎 Browse genetic perturbation datasets
🧠 Train models
🧬 Interpret variant function
🧭 Explore gene dependencies

Search, test APIs, suggest datasets, send feedback!
🔗 www.ebi.ac.uk/perturbation...

Funded by @opentargets.org

🎉 The revised version of CORNETO, our unified Python framework for knowledge-driven network inference from omics data, is published in peer reviewed form
🔗 Paper: www.nature.com/articles/s42...
📖 News & Views: www.nature.com/articles/s42...
💻 Code: corneto.org
🧵 Thread 👇

🔬 Ever wonder how your immune system ages?
📊 We used single-cell multi-omics (RNA + ATAC) + bulk ATAC on PBMCs to build a cell-by-cell map of aging.
🧠 Find out which genes fade, which chromatin gates clos and why some immune systems age slower.
👉 Poster C-482 #RegSys
#ISMBECCB2025 #Aging #Multiomics

SingleRust SingleRust has 9 repositories available. Follow their code on GitHub.

Check out today at #ISMBECCB2025 A92 Ians (@ianfd.bsky.social) awesome poster about #SingleRust.
Scalable and memory efficient single cell processing!

Stay tuned: @singlerust.bsky.social
github.com/SingleRust

Weltkarte in der die Länder in verschiedenen Rottönen gefärbt sind. Auf der Weltkarte sind sechs Viruspartikel in verschiedenen Größen verteilt.

Früherkennung von #SARSCoV2 Varianten: Das Team um HZI-Bioinformatikerin Alice McHardy hat das Tool #CoVerage entwickelt. Es erkennt besorgniserregende Virusvarianten, die große Infektionswellen verursachen können, bis zu 3 Monate vor der Einstufung als #VOC.
www.helmholtz-hzi.de/media-center...

✨ @anaisbaudot.bsky.social is opening #NetBio 2025 to a full conference hall here in Liverpool. Exciting to see many network enthusiasts in one room! 👏
#ISMBECCB2025 #NetworkBiology

⏳ The countdown is on! #NetBio at #ISMBECCB2025 kicks off in just 5 minutes!

The organizing team is thrilled to welcome you and share the exciting program. See you there!

Stop by our #ISMB2025 booth!

We’re here at ISMB/ECCB to tell you about our latest jobs, research, open data resources, training and more.

Our team is looking forward to meeting you, don’t hesitate to come say hello 👋

#bioinformatics

Liverpool, july 20th: #ISMBECCB2025 is about to start!

SingleRust SingleRust has 9 repositories available. Follow their code on GitHub.

Check out today at #ISMBECCB2025 A92 Ians (@ianfd.bsky.social) awesome poster about #SingleRust.
Scalable and memory efficient single cell processing!

Stay tuned: @singlerust.bsky.social
github.com/SingleRust

East Asian aerosol cleanup has likely contributed to the recent acceleration in global warming - Communications Earth & Environment Restrictions of atmospheric aerosol and precursor emissions in East Asia have contributed to the observed global surface warming acceleration since 2010, according to Earth System Model simulations isolating regional changes.

One of our top-rated articles on @altmetric.com this past week was: "East Asian aerosol cleanup has likely contributed to the recent acceleration in global warming". Published in @commsearth.nature.com. Read the OA article here: spklr.io/63326BER3E #GlobalWarming

Documentation maflot.github.io/demoviz/

Data for the plot was used from www.destatis.de

Check out my new #PyPI package for population visualization: demoviz lets you easily create scatter plots with human icons.
github.com/maflot/demov...
Happy for feedback — and GitHub ⭐️ always appreciated if you find it useful!

#DataViz #Demographics #OpenSource #DataScience #Python

How the electrocardiogram can identify previously undiagnosed structural heart disease with A.I. alone, better than cardiologists with A.I. support
@nature.com
www.nature.com/articles/s41...