Dom Somma

We built a containerised workflow that handles QC, doublet detection, CITE‑seq for scRNA‑seq data, and outputs a ready‑to‑use #Seurat object. One command, #reproducible results—ideal for labs without dedicated bioinformatics support.

#biology #assay cell migration

Original post: https://bsky.app/profile/did:plc:rxlho3dvaknfvlnbzgovjzfk/post/3mabafm6wfc2b

Discover the SIB Remarkable Outputs 2024 Eight outstanding data resources, software tools, and peer-reviewed publications from our members have been recognized as SIB Remarkable Outputs – an annual spotlight on the excellence and diversity...

Link seems broken, the correct one: https://www.sib.swiss/news/discover-the-sib-remarkable-outputs-2024
From: @SIB
https://mstdn.science/@SIB/115173743519750546

Super interesting talk from @azizaelmesmari.bsky.social, showing how to make and use human organoid synovial tissue to replace animal models for experiment and treatment validation!
#Eular2025

How to use multimodal datasets with #AI to make decision for patient treatment in #RA remission@stealivernini.bsky.social #Eular25

Another great talk from @laviac.bsky.social on Tenosynovium differences in pre-clinical RA #Eular2025

Amazing presentation from @stealivernini.bsky.social on metabolites in Ra remission and flare #Eular2025

Join us with "big data and small molecules, novel in RA mechanisms" in room F1 #Eular2025

Interesting hands-on workshop

Original post: https://bsky.app/profile/did:plc:tztfcpes6oi4fdoc2ls674kq/post/3lrfklm4s522d

Never seen a conference where they don't provide coffee to non-clinicians...we are human beings! 🤣🤣

#Eular #Eular2025 @eular.org

JOB: Japan Omics Browser (japan-omics.jp) provides integrative visualization of multi-omics data bmcgenomics.biomedcentral.com/articles/10.... 🧬🖥️🧪 github.com/ytakahashi-s...

Unicatt (@Unicatt@mastodon.uno) 0 Toot, 1 Seguiti, 2 Seguaci · Profilo UFFICIALE. L'Ateneo ha sede presso Milano, Roma, Brescia, Piacenza-Cremona. #Unicatt

After 10yrs @uofglasgow , I'm thrilled to start as Lecturer @Unicatt + Senior Research Associate at Gemelli Hospital. Grateful for Glasgow's brilliant colleagues and delighted to stay connected as Honorary Lecturer. New chapter, but Glasgow isn’t a goodbye!
#AcademicJourney

Today Mastodon is taking another step towards its founding ideals: independence and non-profit ownership. We're transferring ownership of key assets to a new, European not-for-profit entity, ensuring our mission remains true to a decentralised social web, not corporate control […]

That's all for this year, have a nice break!
#LabLife #HappyHolidays

Bravo for @fabricefrank.bsky.social

In-depth interview. Former biologist turned computer scientist, Fabrice Frank, passionate about science, has since Covid launched into the hunt for scientific fraud. He has revealed several scandals of national magnitude.

Congrats to our PhD student Jack Frew for the poster prize 🥳🥳!!

@drlucymac.bsky.social #EMDS2024

Finally, our paper studying synovial tissue # DC #DendtriticCells in joint health and #rheumatoidArthritis is out in Immunity!
#scRNAseq #spatialTranscriptomic
From: @ImmunityCP
https://mstdn.science/@ImmunityCP/113557582489769767

Has anyone ever come up with a #proteomics method for positively identifying transmembrane domains? I often run across predicted/calculated TMs that look like they are wrong, but there isn't much real data for validation of these hypotheses.

#EMDS conference ready to start

P.S. impressive venue

Just found out an app that allows me to follow both #mastodon and #bluesky timelines and post on them both.

#openvibe

"AI protein-prediction tool AlphaFold3 is now open source" ... almost.

"Anyone can now download the AlphaFold3 software code and use it non-commercially. But for now, only scientists with an academic affiliation can access the training weights on request"

Stop gatekeeping you priiiiickssss […]

https://www.nature.com/articles/d41586-023-03298-7
#research #postdoc #accademic #accademicchatter

🚀 Biologists, level up! Join the NGS Data Analysis Workshop (April 2-4, 2025) in Munich. Learn hands-on with real data. Perfect for beginners! 🔬

🌐 […]

[Original post on mastodon.social]

After analyzing more than 1k contracts, the verdict is in and it is clear:
"Our analysis demonstrates that research institutions seem to be 'trapped' in transformative agreements. Instead of being a bridge towards a fully #OpenAccess world, academia is stuck in the hybrid system. This endows […]

Oh don't tell me about that...

@Nature https://press.coop/@Nature/113192068858420521

💻 Struggling with sequencing coverage? Learn how to calculate it and optimize your NGS experiments for accurate results! 🧬

🔗 https://ecseq.com/support/ngs/how-to-calculate-the-coverage-for-a-sequencing-experiment

#NGS #Bioinformatics #Sequencing #Genomics #NGSdata

All VEuPathDB Genomics Databases Are Offline Current Status of VEuPathDB genomics databases NIH funding for the Eukaryotic Pathogen, Host & Vector Bioinformatics Resource Center (VEuPathDB) ended on 14 Sept 2024, as NIAID has chosen to take the BRC program in other directions. As a result, FungiDB, VectorBase, AmoebaDB, CryptoDB, GiardiaDB, MicrosporidiaDB, PiroplasmaDB, PlasmoDB, ToxoDB, TrichDB, TriTrypDB, and HostDB are currently inaccessible.

Ik im preaching to the choir on here, but I do genuinely get the pushback from cloudbrained ppl that "we don't need #p2p data infra because Amazon is giving it to us for free rn, and if they stop the NIH would step in because they dont want to lose all the […]

[Original post on neuromatch.social]

paraCell: A novel software tool for the interactive analysis and visualization of host-parasite single cell RNA-Seq data (without knowing programming) https://biorxiv.org/content/10.1101/2024.08.29.610375v1 . Interested in the datasets? Here: http://cellatlas.mvls.gla.ac.uk

#scRNAseq #parasites

https://www.nejm.org/doi/full/10.1056/NEJMsb2408466

The discussion on the 2024 definition of #LongCovid

#covid #Covid19 #review