Davide Maspero

Postdoc fellow - Single Cell Genomics Team, CNAG - CRG, Barcelona
Developing spatial-transcriptomic data analysis methods

[CNAG @cnag_eu]

🚀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

📎https://t.co/rOK0QytFnU

[Holger Heyn @hoheyn]

⭐ 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: 👇
https://t.co/wM5UeDjfYo

[Holger Heyn @hoheyn]

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:
https://t.co/3rNhmMfjCW

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

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 👇

https://t.co/xiDE18gvT3

@cnag_eu
@StJudeResearch
@ACEpigenetics
@SAiGENCI

[Paula Nieto @paulanietog]

📢 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.

https://t.co/h6NKci7PJA

@cnag_eu

[Alex Graudenzi @AGraudenzi]

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: https://t.co/jbooKL4ume
please RT!

[Alex Graudenzi @AGraudenzi]

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: https://t.co/CH7uiznEjl

[Holger Heyn @hoheyn]

JOB ALERT: Please consider joining our #singlecell and #spatial Genomics group @cnag_eu in beautiful #Barcelona as Computational Biologist.

#lifeisbetteratthebeach
https://t.co/SQdSs04JCR

[Holger Heyn @hoheyn]

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 https://t.co/vAkNXaLauu

[Alex Graudenzi @AGraudenzi]

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 ☕️
https://t.co/Bs6BuLYP0h

[Davide Maspero @DMasper0]

Look at the figures in this paper. Seems that they are generated (badly) with AI: https://t.co/e54xp9S8oR

@FrontiersIn how could this have been published?

[CNAG @cnag_eu]

🚀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

[Holger Heyn @hoheyn]

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…

[Davide Maspero @DMasper0]

@SerenaDiazzi @trendscancer @AblainLab Congratulations, well deserved!

[Davide Maspero @DMasper0]

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!

[Laura Jiménez Gracia @ljimenezgracia]

THRILLED to share “An Interpretable Inflammation Landscape of Circulating Immune Cells” from @hoheyn lab @cnag_eu .
~2M PBMC🩸, 356👤, 18 Diseases
ML for Biomarker Discovery & Patient Classification
https://t.co/vneVXfXT9c
Inflammation Atlas for @humancellatlas
#tweetorial (1/n)

[Marc Elosua-Bayés @elosua_bayes]

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

[Alex Graudenzi @AGraudenzi]

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!
https://t.co/laYWf8qjBZ
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[Holger Heyn @hoheyn]

PLEASE consider joining our #singlecell #spatial genomics group @cnag_eu in beautiful Barcelona! #lifeisbetteratthebeach

Senior Laboratory Technician
https://t.co/5qN8pZzTRT

Postdoctoral Computational Biologist
https://t.co/o8QzM5Rsjm

Please RT.

[Holger Heyn @hoheyn]

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: https://t.co/oiJds35t5C

[Alex Graudenzi @AGraudenzi]

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

https://t.co/W5ksEeKaqz
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