🚀New paper out in @Annals_Oncology! 🔝An aggressive childhood cancer case opens new avenues for advanced cell therapies A research led by CNAG (@hoheyn, Inés Sentís), @IRBBarcelona - @IRSJD_info (@AAvgustinova), with the collaboration of @OmniscopeAI 📎cnag.eu/news/aggressive-chil…

⭐ Please consider joining our Single Cell Genomics group as Computational PhD Student! ♦️ We are hiring 2 Computational Biology PhD students to lead projects in immuno-oncology (IO) and immune-mediated inflammatory diseases (IMID), respectively. In #IO, we aim to delineate mechanisms and dynamics of immune cell infiltration and plasticity in tumors, to provide precise prediction of therapy success. In #IMID, we seek to identify inflammatory disease-specific biomarkers to understand mechanisms driving disease progression and response to treatment across large acute and chronic patient cohorts. While applying single-cell and spatial genomics tools to delineate the complexity of tumors or inflamed tissues, a particular focus lies on the use of blood samples as a liquid biopsy tool for repeated, longitudinal studies. This will allow us to build predictive models for patient outcome and, eventually, foundation models for immune cell plasticity and natural/clinical perturbations. Apply here: 👇 cnag.eu/jobs/phd-student-com…

The FUTURE is NOW! 🚨 Whole-Transcriptome Spatial Genomics with OUT-OF-THE-BOX analysis starring @helucro. 🔬 Spatial genomics has now reached FULL-transcriptome resolution, enabling spatially resolved single-cell analysis at million cell scale. With this, we’re rethinking how single cells connect across spatial hierarchies — from, cells to local niches and whole-tissue architecture. 🧬 We combined #CosMx SMI® (@brukerspatial), snPATHO-seq, and digital histopathology across matched human CRC samples (normal tissue, polyps, tumor, lymph node mets) — a unique setup enabling single-cell spatial trajectory reconstruction of epithelial transformation. 📍 Our study bridges classical histopathology and single-cell omics, powered by transcriptome-wide imaging of ~3.5 million cells. This allowed us to map the evolving cellular ecosystem and structural remodeling during colorectal cancer (CRC) initiation and progression. 💡 Highlight: - Defined rare ‘transition crypts’, shedding light on localized transformation. - Identified distinct epithelial transformation paths (🔹LGR5⁺ stem-like cells in tumor cores AND 🔹MMP7⁺ fetal-like cells at invasive fronts). - Discovered concentric tumor microenvironments aligning with malignancy grades. - Traced MMP7⁺ tumor cells and FAP⁺ CAFs to invasion sites and metastases. A shout out to the @cnag_eu Spatial Team led by Pascual Pascual AND our fantastic collaborators at @bruker led by @joebeechem AND the KU Leuven team led by Sabine Tejpar. 📢 NOW out @BioRxiv! Check out the Preprint here: biorxiv.org/content/10.1101/…

Join #STAMP Spanish base, @EmanuelePitino1, @pascual_reguant and @hoheyn , on the first webinar showcasing our first attempt to democratizing Sc Omics with Single-Cell Transcriptomics Analysis and Multimodal Profiling (STAMP)—an approach that enables ultra-low, ultra-high-throughput, multi-sample, RNA and protein profiling at the lowest cost possible yet. Register 👇 go.brukerspatialbiology.com/… @cnag_eu @StJudeResearch @ACEpigenetics @SAiGENCI

📢 SUPER EXCITED to share our latest preprint: "Decoding the immune response in leptomeningeal disease through single-cell sequencing of cerebrospinal fluid" Incredible work and collaboration from @jc_nietos @piazeiner @hoheyn and others. biorxiv.org/content/10.1101/… @cnag_eu

Postdoc opportunity (18 mos) Join our team to develop pipelines for single-cell seq data in an @AIRC_it funded project! Looking for bioinformaticians and data scientists passionate about cutting-edge research (and fun too!) Apply by Dec 3rd: unimib.it/ateneo/gare-e-conc… please RT!

The 24 #NobelPrize in physics and chemistry are de facto prizes to #AI On Friday 15, @MarcoxaShowlow and the Science School of @unimib will host a day-long symposium in which experts will explain where it all started and what to expect next Registration: sites.google.com/unimib.it/n…

JOB ALERT: Please consider joining our #singlecell and #spatial Genomics group @cnag_eu in beautiful #Barcelona as Computational Biologist. #lifeisbetteratthebeach cnag.eu/jobs/computational-b…

Welcome back to Europe #Cosmx ⁦@nanostringtech⁩! European UPC Court of Appeal Overturns Injunction Impacting NanoString’s CosMx Products, Company to Immediately Resume Sales in 16 EU Countries | Business Wire businesswire.com/news/home/2…

Glad to present the 2024 ed of the Milan #NGS meeting, to be held on April 17 at @unimib An informal event for researchers working in the generation and analysis of #sequencing data, that has become a tradition! Registration is free, as is the coffee ☕️ dcb.disco.unimib.it/2024/02/…

Look at the figures in this paper. Seems that they are generated (badly) with AI: frontiersin.org/articles/10.… @FrontiersIn how could this have been published?

🚀Today, @tv3cat has visited #CNAG! 📺Really excited to see the report on tv (#Telenotícies), lead by @martarrufat & Oriol Esteve 👨‍🔬👩‍🔬With the participation of part of our super team from #CNAG: @jc_nietos, Ginevra Caratù, @saguilarfer, Javier Gutiérrez & Cristina Zamorano

Another BIG #spatial day @cnag_eu, further establishing Barcelona as Genomics Hub! #lifeisbetteratthebeach CNAG’s Spatial family: CosMx @nanostringtech Xenium @10xGenomics Stereo-seq @BGI_Genomics Stay tuned…

Excited to share our latest effort! Combined variational autoencoder & interpretable ML to unveil the inflammation landscape of PBMCs in 18 diseases. Big thanks to @ljimenezgracia @saguilarfer @fcraighero @JuanCNieto1, and @hoheyn. Grateful to be part of such an amazing team!

👉Follow our work at the Cell Discovery Network @celldiscovnet in our efforts to build single cell closer to the clinical setting!! 🏥

Are there any privileged routes of acquisition of #driver alterations in #cancer? Can they be used to #predict the outcome of treatments at diagnosis? In our latest work, out in @NatureComms, we show that such routes do exist for most cancer types! nature.com/articles/s41467-0… 1/6

PLEASE consider joining our #singlecell #spatial genomics group @cnag_eu in beautiful Barcelona! #lifeisbetteratthebeach Senior Laboratory Technician cnag.cat/jobs/single-cell-ge… Postdoctoral Computational Biologist cnag.cat/jobs/single-cell-ge… Please RT.

JOIN OUR TEAM @cnag_eu! WANTED: Spatial Genomics Team Leader. Help us bringing #singlecell research to the next level! Projects: @humancellatlas #immunooncology #autoimmune Technology: @nanostringtech @10xGenomics @BGI_Genomics @bruker Apply: cnag.eu/jobs/spatial-genomic…

Glad to present our latest work, in which we show the effectiveness of #ensemble approaches for the detection of #adversarial examples in deep networks Great effort led by @fcraighero, which we hope will impact the future best practices in the field doi.org/10.1016/j.neucom.202… 1/n

💥The protocol for the FixNCut workflow is finally out on @protocolsIO!💥 Stay tuned! We're working on a new version (v2) that will be available soon... 👇👇👇