🚀 New Tool: rctd-py is here! We’ve ported the gold-standard RCTD algorithm to #Python & @pytorch.org. Deconvolve #spatial transcriptomics in minutes, not hours. 🔹 4x GPU speedup (L40S) 🔹 99.7% concordance with R spacexr 🔹 Native AnnData/Scanpy support 🔹 Works on CPU too 💻: tinyurl.com/ths57tfd

Calling #ETH & #UZH students! 🧬 Present your #OMICS research at FGCZ’s #StudentsOnStage this June. Best presentation wins a prize! 🏆 ⏳ Deadline: May 15, 2026 🔗 Submit abstract: tinyurl.com/3vejybk3

Kick off 2026 with a deep dive into single-cell science! 🚀 Join FGCZ & BD Biosciences on March 9 in Zurich for the BD Rhapsody™ Science Days. Featuring: 🔬 Dr. Simone Picelli (IOB, Basel) 🧬 @mylliabio.bsky.social 🩺 Dr. Marc Beyer (DZNE, Bonn) ✨ Dr. Luciano Martelotto (BD) 🔗 tinyurl.com/wbffw5an

Our proteomics experts Sibylle Pfammatter and Christian Panse attended HUPO 2025 in Toronto, presenting 3 posters on #glycosylation, #phosphorylation & integrative #PTM analysis. Great reconnecting with the community! #HUPO2025

First #Spatial #Proteomics course complete! 🎉 Hands-on #LCMS & #MALDI-MS training for young researchers 🔬👩‍🔬 Thanks to our instructors Sibylle Pfammatter, Antje Dittmann, Claudia Fortes as well as all students for joining. Stay tuned for future FGCZ training courses! 📢

🧬 Join us Nov 4, 14:00-16:30pm CET at FGCZ for a seminar on AVITI24™ sequencing! Discover Direct In-Sample Sequencing (no library prep!) & new multiomics applications. 🎤 Speaker: Wilfred van IJcken, PhD 📍 Y59-G30, FGCZ 🥐 Refreshments provided Details & registration: tinyurl.com/49bxkffy

🧪 FGCZ proteomics events this autumn ℹ️ Bruker Go Local Zurich (Nov 19) ℹ️ Quantitative Proteomics workshop (Nov 25, 3-5pm) ℹ️ Introduction to Proteomics Data Analysis course (Dec 16-18). Limited spots—first-come basis. Further info & registration at 🔗 fgcz.ch/news-and-eve...

FGCZ Seminars

Upcoming presentations & seminars being held at the FGCZ

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🧬 Exciting hybrid seminar at FGCZ! @singleronbio.bsky.social expert Baraa Altaha will present their cutting-edge single-cell tech - from tissue preservation to bioinformatic analysis. 🎁 Free kit lottery + sponsored lunch! 📅 Sep 30, 12-14:30 📍 UZH Irchel (Y59-G30) Register: tinyurl.com/3a98ec5d

🧑‍🏫 FGCZ course round-up! - DNA Next Gen #Sequencing (Sep 8-12) - #Spatial #Transcriptomics Analysis (Oct 6-9) - #Proteomics workshop: Interaction & Quantitative (Oct 14) - Spatial Proteomics with #MassSpec (Oct 27-30) Perfect for researchers wanting to level up their omics. 🔗 tinyurl.com/mr2aan5s

FGCZ Seminars

Upcoming presentations & seminars being held at the FGCZ

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🚀 FGCZ hosts 10x Genomics User & Tech Day! Join us to discover how single-cell, spatial, and in situ tech can advance your research and see cutting-edge applications. Free but registration required! 📅 Sep 17, Office hours 9-12, lunch & seminar 12-17 📍 UZH Irchel Y59-G30 🔗 tinyurl.com/vhypvnu3

🥩🧪 Major breakthrough in #lab-grown beef! @ethz.ch researchers led by Prof. Ori Bar-Nur cracked the code for producing thick, 3D muscle fibers in cow. Shoutout to former/current FGCZers @adhideb.bsky.social + @blauenkaiser.bsky.social for their contributions & congrats! 🔗 tinyurl.com/d84s9spv

On track to produce better lab-grown burgers

The cultivation of thick muscle fibres from bovine cells in the lab has long been a challenge for scientists. Researchers from ETH Zurich have now successfully tackled this issue – with the goal of on...

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🧬💻 Bioinformatics spotlight! Our Bioinformatics Unit brings together genomics, proteomics/metabolomics, and BFabric expertise. 🔬 What we offer: - IT infrastructure support - Omics data analysis tools & services - Custom apps & tailored analyses 🔗 Check out our video: tinyurl.com/y6t6enu7

🧪 #Metabolomics Week spotlight! Our Metabolomics Unit, led by @alaaothman.bsky.social, offers end-to-end metabolite analysis support - from experimental design to data interpretation. Services include #lipidomics, targeted & untargeted #metabolite analysis. 🔗 tinyurl.com/5a74hrpn

🧬 Proteomics Week spotlight! Our expert team led by @paolonanni.bsky.social offers complete #proteomics support - from experimental design to data analysis. Services include protein characterization, PTM analysis, interaction studies, spatial proteomics & more Watch our video: tinyurl.com/ezb8s2s6

🧬 Meet our #Genomics Unit! Led by @catharineaquino.bsky.social, our team specializes in #ngs, #single-cell transcriptomics, #spatial gene expression, #long-read sequencing & genome engineering. From DNA to RNA to protein to metabolites! Video 🔗 learn more about our services: tinyurl.com/zemh8bsy

🎉 New Illumina MiSeq i100 now live at Genome Engineering & Measurement Lab (GEML) at @ethz.ch Hönggerberg Ready for walk-up access - book via B-Fabric for amplicons, plasmids & small genomes 📍ETH Hönggerberg, HCI 🗓 Booking: fgcz-bfabric.uzh.ch/bfabric/ 📧 Questions: sequencing@fgcz.ethz.ch

Big thanks to Monica Manotas for visiting the @fgcz-en.bsky.social in your very first week as CEO of Tecan. Nothing like jumping straight into customer visits (starting with the nicest customer, of course 😇 ) and what a fantastic way to kick off the new role!

🔬Ever wondered what goes on inside one of Switzerland's leading #omics core facilities? Join us for an exclusive behind-the-scenes tour of the Functional Genomics Center Zurich! Supporting researchers from @ethz.ch, UZH, and beyond across #genomics, #proteomics & #metabolomics. 🔗 fgcz.ch

🎉 Second Student-on-Stage event was a huge success! Congrats to: 🥇 Priska Flury 🥈 Emma Alessandri 🥉 Andrea Roggo & all other brilliant presenters who delivered amazing talks! Thanks to organizers Sibylle & Martina, jury & helpers. Already excited for year 3! 🔬✨ We hope to see you then. 🔍

🚀 Students on Stage event next week! 📆Wed June 11, 8:30-14:30 📍FGCZ (UZH Irchel, Y59) Students presenting cutting-edge research from #spatialtranscriptomics to #cancer #therapeutics. Register: tinyurl.com/unead4e8 Thanks to sponsors Nikon & Felfel! #Science #Research

🧬 New study in Gen. Bio.! We tested how RNA input & PCR cycles affect duplication rates across 4 sequencers. ↘️ RNA = ↗️ duplicates = ↘️ diversity. Key for optimizing RNA-seq protocols! Thanks + congrats to @catharineaquino.bsky.social @nataliazajac.bsky.social + collaborators! 🔗 tinyurl.com/bdcuen59

🧬 FGCZ 10X Genomics Workshop Single-cell analysis on the 10x Cloud Analysis platform: from CellRanger to Loupe to community tools! Discuss with 10x Applied Bioinformatics team + FGCZ bioinformaticians. 📆June 12, 9:00-15:30 📍UZH Irchel Y59-G30 Limited spots—register now! tinyurl.com/4wb3rxj5

10x Genomics single cells data analysis day: Don't miss this hands-on workshop!

Title: Hands-on workshop of the single-cell analysis, from Cloud to Loupe to Community-Developed Tools Date: Wednesday 11th and Thursday 12th June 2025 Time: 9.00 to 15.30 Make your choice: Geneva...

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🔬 Exciting news! Our #metabolomics team led by Dr. Alaa Othman has published another paper! Prof. Kopf's lab at ETHZ discovered a new metabolic role for #peroxisomes that could lead to treatments for rare diseases. Read the paper: tinyurl.com/yc7u5cu9 Our services: tinyurl.com/5yfdcdc9

Peroxisomes are critical for a unique metabolic demand and survival of alveolar macrophages

Tissue-resident macrophages (TRMs) populate throughout various tissues, and their homeostatic metabolism is heavily influenced by these microenvironme…

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📢 Announcing our GEO Uploader tool! Simplifies deposition of sequencing data to GEO repository by automating aggregation, upload & metadata entry in one place. Use it now for FGCZ-generated data: geo-uploader.fgcz.uzh.ch And stay tuned: we will be open-sourcing the code soon.

New preprint! How S. aureus copes with inhibitory compounds secreted by P. aeruginosa. By @schluk.bsky.social. Great collaboration with @fgcz-en.bsky.social www.biorxiv.org/content/10.1...

📣 Collaborative Proteomics Publications 🧪 New 2025 studies from FGCZ Proteomics team + research partners: tinyurl.com/yfy7umph (w/ Schnyder group) tinyurl.com/ah8mncf4 (w/ Visentin lab) tinyurl.com/yrj2pdpp (w/ Lösle) Congrats to all involved! If you, too, want to work with us, check out the link:

Join EuPA Open Lab Days! Virtual tour of 8 European #proteomics #core facilities in #Proteopolis. Discuss lab management, protocols, data analysis & more. Register now! 🔗 tinyurl.com/EuPACore4Life 📅 25/02/2025, 15:00 CET

Just published in J. Proteome Research: "prolfquapp", a new #opensource tool simplifying differential expression analysis in quantitative #proteomics. Developed by FGCZ for UZH & @ethzurich.bsky.social. TY to the amazing FGCZ team for their collaboration! #Bioinformatics tinyurl.com/4nd9jhj7

prolfquapp ─ A User-Friendly Command-Line Tool Simplifying Differential Expression Analysis in Quantitative Proteomics

Mass spectrometry is a cornerstone of quantitative proteomics, enabling relative protein quantification and differential expression analysis (DEA) of proteins. As experiments grow in complexity, invol...

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We're excited to announce our NEW #Omics in #Oncology course, aimed to foster interaction within the oncology community between Switzerland and the Netherlands! 🔬FGCZ/Utrecht University 📅 Feb-Apr 2025 🌍 Online collab 🧬 Omics & bioinformatics Info: tinyurl.com/bdes8sm6

Check out our latest publication "A Multiyear Longitudinal Harmonization Study of #QualityControls in #MassSpectrometry #Proteomics #CoreFacilities"! Over 4 years, we built a #QC framework across the Core4Life proteomics cores, gathering 9000+ files from 30 LC-MS systems. tinyurl.com/fnb93th3

A Multiyear Longitudinal Harmonization Study of Quality Controls in Mass Spectrometry Proteomics Core Facilities

Quality control procedures play a pivotal role in ensuring the reliability and consistency of data generated in mass spectrometry-based proteomics laboratories. However, the lack of standardized quali...

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