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Azura Biosciences

@azurabio.bsky.social
7 followers 11 following 7 posts

Bioinformatics counseling company helping R&D advance with cutting-edge data analysis. Bridging genomics & insights for innovative research. 🔬🚀

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Azura Biosciences @azurabio.bsky.social · 11/04/2025
📝 Note: These analyses were done on Visium data courtesy of 10x Genomics, but the approaches apply to other grid-based spatial technologies, like Visium HD. #SpatialTranscriptomics #SingleCell #Bioinformatics #Visium #10xGenomics #CancerResearch #SpatialOmics #SpatialBiology
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Azura Biosciences @azurabio.bsky.social · 11/04/2025
💡 Bottom line: If you've got spatial data, use the space! Classic single-cell tools are a great start, but ST's real power comes from its spatial context. Don't waste it. Want us to cover other platforms or methods? Drop your thoughts in the comments — let's make lemonade! 🍋
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Azura Biosciences @azurabio.bsky.social · 11/04/2025
3. Gene-distance correlation 🎯 Goal: Link gene expression and distance to a structure. We tested ERBB2 expression vs distance to the tumor margin. 🔵 Inside the tumor = negative distance 🔴 Outside = positive ➡️ ERBB2 expression drops as distance increases — just as expected.
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Azura Biosciences @azurabio.bsky.social · 11/04/2025
2. Neighborhood analysis 🎯 Goal: See if clusters co-occur in space or avoid each other. ✅ Immune cells (cluster 4) are enriched (z-score>0) near tumor cells (cluster 1). Why does this matter? It can drive downstream analyses like cell-to-cell communication between clusters.
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Azura Biosciences @azurabio.bsky.social · 11/04/2025
1. Spatial clustering 🎯 Goal: Find regions with distinct gene expression and spatial coherence. ✅ In a HER2+ breast cancer sample, spatial-aware clustering found immune cells (green) around the tumor, just like the pathologist said. ❌ Expression-only clustering missed it.
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Azura Biosciences @azurabio.bsky.social · 11/04/2025
Here's our take: We LOVE ST ❤️. But we get the skepticism. Too often, spatial data is treated like single-cell data with coordinates slapped on. That's like buying lemons and forgetting to make lemonade! 👇 Here are 3 spatially-aware analyses to get the most out of your ST data:
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Azura Biosciences @azurabio.bsky.social · 11/04/2025
How to squeeze your spatial transcriptomics data? 🍋 Some scientists claim spatial transcriptomics (ST) will replace single-cell technologies. Others say it's just a pricier single-cell with a nice visual output. So...who's right? A thread on #SpatialTranscriptomics ⬇️
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