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Pietro Andrei

@pedrandrei.bsky.social
122 followers 302 following 1 posts

PhD student at Barts Cancer Institute / visiting student at the Francis Crick Insitute / interested in Spatial Omics and colorectal cancer 💻 🧬

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Reposted by Pietro Andrei
Oded Rechavi @odedrechavi.bsky.social · 15/10/2025
BIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)
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Nature @nature.com · 12/06/2025
Nature research paper: Metabolic adaptations direct cell fate during tissue regeneration go.nature.com/4l4GP5c
go.nature.com
Metabolic adaptations direct cell fate during tissue regeneration - Nature
Metabolic enzymes of the tricarboxylic acid cycle, such as 2-oxoglutarate dehydrogenase, are differentially expressed in absorptive and secretory lineages, guiding cell fate establishment and offering insights for targeted regenerative therapies.
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Stegle Lab @steglelab.bsky.social · 18/03/2025
1/ New preprint! 🍳 @elihei.bsky.social and our team at @embl.org , @dkfz.bsky.social, and @mskcancercenter.bsky.social built #segger - a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins! doi.org/10.1101/2025...
Segger logoMessage passing intuition behind the segger’s link-prediction model and the network architecture
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Dylan Burnette @mag2art.bsky.social · 21/02/2025
I am excited to finally be able to share with you our work reporting the first Extracellular Vesicle with a personality! This video does not show a cell, it is a Blebbisome! #CellBiology www.nature.com/articles/s41...
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Francesca Ciccarelli @ciccarellilab.bsky.social · 19/02/2025
We have two open positions for #computationalbiologists to work on: 1. Early cancer initiation following our work in #NatureCancer (Ref 5028) 2. Response to cancer immunotherapy following our work in #CancerCell (Ref 5073) To apply use the provided reference numbers: www.qmul.ac.uk/jobs/vacanci...
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Francesca Ciccarelli @ciccarellilab.bsky.social · 16/01/2025
New paper from our lab just out in @cp-cancercell.bsky.social! Integrating spatial omics, cell co-cultures and staining of clinical trial samples, we show that CD74 marks the right local microenvironment for #immunotherapy response. Excitingly, this may increase the number of treatable patients!
sciencedirect.com
A constitutive interferon-high immunophenotype defines response to immunotherapy in colorectal cancer
Fewer than 50% of metastatic deficient mismatch repair (dMMR) colorectal cancer (CRC) patients respond to immune checkpoint inhibition (ICI). Identify…
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Francesca Ciccarelli @ciccarellilab.bsky.social · 03/01/2025
Best start of 2025: our study on the dual role of CDKN2A in cancer evolution (rdcu.be/d5pty) is out in @naturecancer.bsky.social! Big thanks to Piyali Ganguli who led it, all coauthors and @cancerresearchuk.org archuk.org @crick.ac.uk @qmbci.bsky.social bci.bsky.social for support! Summary below
rdcu.be
Context-dependent effects of CDKN2A and other 9p21 gene losses during the evolution of esophageal cancer
Nature Cancer - Ganguli et al. show that CDKN2A loss in Barrett’s esophagus prevents esophageal adenocarcinoma initiation by counterselecting subsequent TP53 loss and report context-dependent...
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Sarah Ross @sarahhross.bsky.social · 19/12/2024
#Immunology by First release now @science.org Identification of APCs in the gut that promote Treg differentiation and how tolerance to food antigens is influenced by helminth infection buff.ly/3DjNQ1e By Maria Canesso, @danmucida.bsky.social , @victora.bsky.social and colleagues.
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Santiago Carmona 🧬 🖥️ 🧑🏾‍🔬 @carmonation.bsky.social · 06/12/2024
Sub-cellular Imaging of the Entire Protein-Coding Human Transcriptome (18933-plex) on FFPE Tissue Using Spatial Molecular Imaging www.biorxiv.org/content/10.1... With clear explanation of how this amazing technology achieves RNA (ISH) probe decoding at Hamming Distance of 4
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Dominic Grün @dominicgrun.bsky.social · 06/12/2024
NiCo is out! Our new algorithm for spatial transcriptomics data analysis predicts the crosstalk of cell types co-localized in tissue niches and sheds light on signalling mediators and downstream effects of cell-cell interactions by inferring covarying gene programs. www.nature.com/articles/s41...
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Stephanie Hicks @stephaniehicks.bsky.social · 05/12/2024
Excited to share a new algorithm that we have been working on over the last year. 💡 idea is to extend mutual nearest neighbors for #spatial data. We call it spatial mutual nearest neighbors (spatialMNN) 😄 Thank you @haowen-zhou.bsky.social @pratibha-panwar.bsky.social who led this work! 👏 🧬🖥️🧪
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Adam Gracz @graczlab.bsky.social · 05/12/2024
Signal boosting our recent manuscript in @dev-journal.bsky.social since it’s now in “official” journal formatting (🥰)! 1/x
journals.biologists.com
Lgr5+ intestinal stem cells are required for organoid survival after genotoxic injury
Summary: Primary intestinal organoids rely on Lgr5+ intestinal stem cells for survival following genotoxic injury induced by doxorubicin treatment, clarifying the cell types necessary for intestinal o...
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Christian Frezza @frezzalab.bsky.social · 04/12/2024
"Ageing limits stemness and tumorigenesis by reprogramming iron homeostasis" 🧪 www.nature.com/articles/s41...
nature.com
Ageing limits stemness and tumorigenesis by reprogramming iron homeostasis - Nature
Studies using mouse models of lung adenocarcinoma identify an association between age, iron homeostasis and tumour initiation potential that involves NUPR1 and lipocalin-2.
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Aakash Desai @adesaimd.bsky.social · 05/12/2024
Phase I Results AMG 193, PRMT5 inhibitor targeting MTAP-deleted solid tumors: @AnnalsOncology • 📊 ORR: 21.4% across 8 tumor types (incl. NSCLC, pancreatic & biliary) • 🛡️ Safety: minimal myelosuppression; nausea & fatigue • 🎯 MoA: Synthetic lethality in MTAP-deleted cells! @oncoalert.bsky.social
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Tomàs Montserrat Ayuso @tmontsay.bsky.social · 03/12/2024
Not checking nuclear markers like MALAT1 or intronic reads in your scRNA-seq data?🚨 We show their power to flag low-quality cells—even in top public datasets. It’s time to prioritize better QC for cleaner, more reliable genomics research! Read more: bmcgenomics.biomedcentral.com/articles/10.... 1/8
bmcgenomics.biomedcentral.com
High content of nuclei-free low-quality cells in reference single-cell atlases: a call for more stringent quality control using nuclear fraction - BMC Genomics
The advent of droplet-based single-cell RNA-sequencing (scRNA-seq) has dramatically increased data throughput, enabling the release of a diverse array of tissue cell atlases to the public. However, we...
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Luciano Martelotto @lgmartelotto.bsky.social · 29/11/2024
This is why we are all in this field…to see, and one day to be able to produce work like this. Patho-DBiT-seq www.cell.com/cell/fulltex...
cell.com
Spatially exploring RNA biology in archival formalin-fixed paraffin-embedded tissues
Patho-DBiT enables spatial profiling of a range of RNA species (i.e., mRNA, microRNA, tRNA, splicing isoform, etc.) all at once in clinical formalin-fixed paraffin-embedded tissue with high sensitivit...
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Renato Ostuni @ostunilab.bsky.social · 22/11/2024
IL-1 is SO RELEVANT in cancer 🔥 IL-1a released from dying tumor cells leads to myeloid cell recruitment and T cell suppression - targeting this pathway boosts efficacy of chemoTx and ICB Beautiful study by @ruffell-lab.bsky.social lab n Cancer Cell www.cell.com/cancer-cell/...
cell.com
Interleukin-1α release during necrotic-like cell death generates myeloid-driven immunosuppression that restricts anti-tumor immunity
Hänggi et al. investigate how tumor necroptosis regulates anti-tumor immunity and find an unexpected role for interleukin-1α (IL-1α) release by dying cells in promoting tumor growth by driving recruit...
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Nils Blüthgen @molsysbio.bsky.social · 21/11/2024
How long does an mRNA stay in the nucleus? How long does it stay in the cytoplasm? In an amazing collaboration with @landthalerm.bsky.social, we used metabolic labeling, cell fractionation and mathematical modeling to quantify mRNA flow through the cell. Finally out in MSB: doi.org/10.1038/s443...
Graphical abstract of the paper.
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