Candace Liu
@CandaceCLiu
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PhD Student @stanfordimmuno | Angelo Lab @MikeAngeloLab Multiplexed imaging, viral immunity, computational tools for image analysis
Joined October 2021
Excited to see this published! Check out Pixie, a pipeline for quantifying non-cellular features (as well as improving cell classifications) in multiplexed images.
Excited to share the latest preprint with @MikeAngeloLab! While imaging studies often focus on cell objects, images capture significant info outside of cells. Enter Pixie, a pipeline for the quantitative annotation of both pixel and cell level features🧵
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RT @stanfordimmuno: Bravo to Candace Liu for successfully defending her dissertation today on "Pixels to Pathogenesis: Unraveling the Immun….
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We're back for Year 4! Come learn about all things spatial biology.
Registration has officially opened for the 4th annual Spatial Biology Summit! Join us in person or virtually this September for an incredible lineup of speakers @b_iologist @CandaceCLiu @MikeAngeloLab @Bendall_Lab @mina_pichavant
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RT @JoleneRanek: Super excited to introduce QUICHE (Quantitative InterCellular Niche Enrichment) - a statistical method that can be used to….
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RT @stanfordimmuno: The Stanford Immunology Review Program for Applicants (SIRPA) assists individuals applying to the Immunology PhD progra….
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To wrapup #SBS24, Stanford's @Prof_Lundberg impressed us all with her work across the spatial proteomics realm, including characterizing the subcellular localization of proteins, multiplexed deep-visual proteomics, an upcoming version of the Human Protein Atlas, and so much more!
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Next up, one of my key mentors, @SizunJ walked us through the impressive work being done in his lab, from CellSNAP to chronic rhinosinusitis (CRS) to EBV to integrating proteomics and transcriptomics to the importance of staining conditions. What don't you do?!
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To close the trainee talks, @BryJCannon (or is that Keanu Reeves?) from @Bendall_Lab showed stunning MIBI images of microglia and demonstrated their characterization along a state continuum in health and AD. As his desk neighbor, it was awesome to see his hard work come together!
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Next, @thecigdemak from OHSU presented on her work using cyclic immunofluorescent imaging to elucidate the role of androgen receptor in prostate cancer. Awesome work!
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The first trainee talk of the day was by @MikeAngeloLab's own @Inna_Averbukh on topological encoding of risk in ductal carcinoma in situ (DCIS). She showed innovative ways to characterize the spatial landscape of markers within ducts and trained a model to predict progression
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Next, @Bendall_Lab alum @felixjhartmann gave an excellent presentation on his lab's work using MIBI to characterize metabolic niches in melanoma. Welcome back to Stanford, Felix!
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Next up and also from the Nolan Lab family, @GuolanLu presented on how we can use spatial omics and drug imaging to better understand treatment resistance in cancer. She just started her lab at Stanford and is hiring!
Please RT. I am currently hiring graduate students and postdoc fellows. Details can be found here: My lab is dedicated to developing and integrating imaging, AI, and spatial omics technologies to uncover mechanisms driving disease initiation, progression,
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Kicking off the last day of #SBS24, the Science Grandfather himself @GarryPNolan took us on a journey from Merkel cell carcinoma to tissue schematics to LLMs (check out Cellformatica!). No UAPs but maybe next time.
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We ended Day 2 of #SBS24 with a very lively poster session. Thank you to all of our presenters!
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Rounding out our Spatial Transcriptomics session, we were excited to have @LongCai_Lab tell us about the advancements of seqFISH+, which enables spatial multiomics, imaging mature and nascent transcriptome as well as chromosome and subnuclear structures within the same cells
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Emily Thomas from Daniel Royston and Jens Rittscher's labs at the University of Oxford then presented on her work using spatial transcriptomics to map bone marrow, which is a notoriously challenging tissue to work with.
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Next, @roy_maimon impressed us with stunning MERFISH+ images of the brain, using this spatial data to shed light on the mechanism of glia-derived neurons.
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Next up, Izabella Zamora from Nir Hacohen's lab at the Broad Institute shared her work on using graphical attention in spatial transcriptomics to understand the epithelial - mesenchymal transition.
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Wrapping up this session on Methods in Spatial Biology, @yuqitan3 from @GarryPNolan's lab introduced SPACEc, a streamlined, Python workflow for multiplexed image analysis. Check out the preprint here:
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