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Announcing TopOMetry, a dimensional reduction (DR) tool to learn #SingleCell data phenotypic topology. Finds >100 CD4 #Tcells in public blood data with very specific marker genes. You can use any method for visualization, such as MDE (Akshay Agrawal): #bioinformatics 🧵1/16

Comparison of two or more scRNA-seq panels is becoming increasingly common. Based on our experience we've put together Cacoa - an R package to carry out statistical tests, exploration, and visualization of scRNA-seq panel contrasts. 1/n biorxiv.org/content/10.110…

Been wondering how to best do CUT&Tag and how it compares to ChIP-seq? We've got you covered! 📢 New preprint led by @dihuscientistdj and Leyla Abbasova, where we optimised and benchmarked CUT&Tag: CUT&Tag recovers up to half of ENCODE ChIP-seq peaks biorxiv.org/content/10.110…

Experienced Bioinformaticians: Comment below the one thing you'd like to tell junior Bioinformaticians. New Bioinformaticians: Read below for an awesome list of career tips.

Any immunology peep should check out David E Sanin's recent publication in Science Immunology using meta-analysis and machine learning to create a common typification of monocyte-derived macs across 12 tissues and 25 biological conditions! science.org/doi/10.1126/sc…

SOAR: a spatial transcriptomics analysis resource to model spatial variability and cell type interactions biorxiv.org/content/10.110…

The analysis of single-cell RNA-seq data begins with "normalizing" counts. In a preprint with sina, ingileif & Angel Galvez Merchan, we examine the assumptions and challenges of normalization, benchmark methods, and motivate solutions: biorxiv.org/content/10.110… 🧵 1/

(I swear we didn’t vandalize a wall) Great time at SIICA Immunologia in Naples! Renato Ostuni Marco Genua nicoletta caronni Federica Laterza

📢📢📢 IT'S OUT Nature Immunology !!! By profiling controls, G-CSF-treated, HSC-T, PDAC, and COVID-19 patients we uncover a MASSIVE diversity of human neutrophils - at the phenotype, functional and transcriptional levels. nature.com/articles/s4159…

📢📢📢Wait is over!!!! SUPER PROUD we were awarded an #ERCCoG to investigate mechanisms of tumor inflammation🔥🔥🔥 - stay tuned (or better join us) for some cooool science! European Research Council (ERC) Università Vita-Salute San Raffaele Ospedale San Raffaele @Telethonitalia

Huge congrats to our very own Francesco Vittoria for winning the best poster presentation award at the Fondazione Pezcoller Symposium! Cool stuff coming out on macrophages in pancreatic cancer - stay tuned! #Pezcoller23 Università Vita-Salute San Raffaele Ospedale San Raffaele @Telethonitalia (btw, the Renato Ostuni rocks🔥)

So excited to see our work on IL-1b+ macrophages in pancreatic cancer published in nature! Proud to be part of this amazing team Renato Ostuni nicoletta caronni Check it out 🔥👇

Nature research paper: IL-1β+ macrophages fuel pathogenic inflammation in pancreatic cancer go.nature.com/40oH0PI

🌟 Thrilled to have our latest research results now live in nature! Proud of our incredible team Renato Ostuni @FrancescoVit Federica Marco Genua! Dive into the world of macrophages, and enjoy the findings! 🔥🔬🥳 #NatureJournal #Macrophages nature.com/articles/s4158…

E stato per me un grande onore potere raccontare a Che Tempo Che Fa ospite di Fabio Fazio sul NOVE di questo bellissimo e rivoluzionario lavoro di Renato Ostuni svolto a Università Vita-Salute San Raffaele Ospedale San Raffaele Gruppo San Donato. Un passo decisivo contro un nemico terribile.

OBS #Cancer #Immunology Seminar 📆 Tu, Dec 12, 11 am ET/17 h CET 🎙️ Nicoletta Caronni nicoletta caronni Renato Ostuni Ospedale San Raffaele 📝 IL1beta+ macrophages fuel pathogenic inflammation in pancreatic cancer nature ✍️ us02web.zoom.us/meeting/regist… #openscience #macrophages #pancreas

📢Job Alert 📢 We are looking for a Senior Computational Biologist. Work with us to unravel the organization of human cancer with spatial transcriptomics & much more! Competitive contract, salary and benefits in beautiful Milan Ospedale San Raffaele 🇮🇹. Apply now and/or please RT!

Big thanks to EACR for featuring our study on the PGE2/IL1b axis in pancreatic cancer alongside the fantastic work of our friends Melissa Ng Lai Guan NG on tumor-infiltrating neutrophils! Dive into the details and explore our works! #PancreaticCancer Renato Ostuni