Erick Armingol
@eagut
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Chileno 🇨🇱 - @MSCActions Postdoctoral Fellow at @sangerinstitute https://t.co/K6ybFal1pG - PhD in Bioinformatics from @UCSanDiego @LewisLabUCSD
Joined July 2007
I’ll be talking at the #ISMBECCB2025 about scCellFie and how we can use single-cell and spatial transcriptomics to study metabolism. If you are interested, join the #SysMod COSI on Tue 22th at 5pm (room 01C) 🙌
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3/ If you'd like to work on the vibrant, collaborative and world-class Cambridge Biomedical Campus @CamBioCampus, apply here: https://t.co/Wy30ageYgs Read more about our research topics here:
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I'm honoured to join @CRUK_CI and @Cambridge_Uni as a Junior Group Leader of AI for Cancer. My group will focus on reasoning, multimodality, hypothesis-making, and more to decode disease and health. A few positions are opened — consider applying to outsmart cancer together!
We are delighted to welcome @hana_aliee to the Institute. She joins as a Junior Group Leader and will lead her team in developing AI models to understand the molecular mechanisms driving health and disease. Find out more: https://t.co/FpuvYXMQr9
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🔗 Find out more 📄Preprint: https://t.co/u1Al0Ot3Wo 💻GitHub: https://t.co/OBM9LxayoE 📚Tutorials: https://t.co/G7ushiEcMW 🤝 Thanks to the Vento Lab and all collaborators! We hope scCellFie supports your exploration of metabolism in health & disease 🧪 #Metabolism
github.com
scCellFie infers metabolic activities from single-cell and spatial transcriptomics and offers a variety of downstream analyses. - earmingol/scCellFie
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🧱 In endometrial carcinoma, scCellFie revealed: • Spatially organized metabolic activities • Tumor-associated estrogen & kynurenine signaling • Metabolic tasks linked to tumorigenesis potential #CancerResearch #SpatialTranscriptomics #SpatialBiology
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⚠️ In endometriosis, we found: • Proinflammatory metabolism in macrophages • Increased glycolysis & lipid metabolism in epithelial cells • Shared metabolic shifts in eutopic & ectopic tissues #Endometriosis #Inflammation
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🚺 In the human endometrium, we captured metabolic rewiring across the menstrual cycle — including functions that help with tissue remodeling and managing oxidative stress. #Endometrium #ReproductiveHealth
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🌐 We built a metabolic atlas from ~30 million cells across human organs using @cziscience’s Human Cell Atlas. Explore it online: 🗺️ https://t.co/U0NDshksZL
#HumanCellAtlas #SingleCell
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🔧 What is scCellFie? A tool to infer interpretable metabolic insights from single-cell and spatial transcriptomics. 🧰 Key features: • Metabolic markers • Condition-specific changes • Spatial & temporal patterns • Metabolite-based cell communication
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I’m happy to share that our scCellFie manuscript is finally on bioRxiv — a project that was an amazing opportunity to return to my roots in metabolism! We infer metabolic activity from single-cell & spatial transcriptomics 🧬 Read the pre-print here👇 📄 https://t.co/u1Al0Ot3Wo
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(1/n) The first preprint from our lab is now out in @NatureGenet! We tried to tackle a key challenge in spatial biology to quantitatively characterizing cellular niches by learning spatial gene programs using NicheCompas led by @SebastianBirk_. Paper: https://t.co/5geev3s0mV
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It’s great to finally see this published, and now with experimental validations! Congrats @cameronmartino and the team. Happy to be part of the long list of co-authors 😆
🔥 Finally published in @mbiojournal! An update from the 2020 pre-print: “SARS-CoV-2 infectivity can be modulated through bacterial grooming of the glycocalyx.” 🔗 https://t.co/TZAjqbSu06 🧵👇
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Methods for studying cell–cell interactions and communication https://t.co/bX2Er5RBna
#Review by @eagut, @hmbaghdassarian & @Nathan_E_Lewis
@LewisLabUCSD @UCSanDiegoCPD
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Arrived at the European Conference on Computational Biology in Turku, Finland! 🇫🇮 @eagut Sarah Teichmann opens on the future of human cell atlases #ECCB2024 #ComputationalBiology @UniTurku @ECCBinfo @sangerinstitute
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A study in @NatureMedicine finds generally larger brain-age gaps in Latin American compared with non-Latin American populations, which were influenced by disparities in socioeconomic and health-related factors. https://t.co/ezJLEexLcJ
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Amazing work led by @HassanMassalha !
Excited to share our new preprint: 'A Developmental Cell Atlas of the Human Thyroid Gland' on https://t.co/9hNzBuL7oM! We uncover the diversity of thyrocytes throughout lifespan, offering insights into #thyroid development in health & disease… 👇
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Small details that make your day! 😊 ~6 years after my first paper came out 🥳
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As a big fan of tensor factorization, I’d like to share these two preprints from @aarmey ‘s group! Useful methods in single cell 🎉 https://t.co/1bR1v4UwRM
biorxiv.org
Effective tools for exploration and analysis are needed to extract insights from large-scale single-cell measurement data. However, current techniques for handling single-cell studies performed...
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Our feature article: The diversification of methods for studying cell–cell interactions and communication https://t.co/bX2Er5RBna
#Review by @eagut, @hmbaghdassarian & @Nathan_E_Lewis @LewisLabUCSD @UCSanDiegoCPD
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