Spatial Transcriptomics Explained!

In this video, I give a simple introduction to Spatial Transcriptomics using the painting analogy 🎨 — showing why it’s important to study not just which genes are active, but also where they are expressed inside tissues. I also walk through a quick demo using tools like Scanpy, Squidpy, Plotly and Napari for data analysis: ✅ Preprocessing the dataset ✅ PCA for dimensionality reduction ✅ Neighborhood enrichment ✅ Clustering to identify cell groups ✅ Visualizing spatial patterns By the end, you’ll understand how spatial transcriptomics helps connect single-cell identity with tissue architecture, and why it’s such a powerful approach in biology and medicine. Github: https://github.com/pritampanda15/Omix... Datasets: https://www.10xgenomics.com/datasets?... 🔬 Tools mentioned: Scanpy | Squidpy | Napari 🎨 Analogy: From buckets of paint to a full painting 📊 Methods: PCA | clustering | neighborhood analysis #SpatialTranscriptomics #SingleCell #Scanpy #Squidpy #Napari #Bioinformatics #Genomics #Transcriptomics #RNAseq #SpatialBiology ================================================================== Welcome to Omixium! This channel is dedicated to empowering the next generation of scientists with hands-on tutorials, deep dives, and tool walkthroughs in: 🔬 Bioinformatics & Computational Biology 🧠 AI in Drug Discovery & Protein Design ⚗️ Molecular Docking, MD Simulations & Systems Biology 🧬 Single-cell RNA-seq, Multi-omics & NGS Pipelines 👨‍💻 AI Coding for Biology (Claude, Gemini, GPT) 🧪 New videos every week — for scientists, students, coders, and curious minds! --- 🌐 Stay Connected: 🔗 LinkedIn: [Pritam Kumar Panda](  / pritam-kumar-panda  ) 🌍 Website: [https://www.atomodyssey.com](https://www.atomodyssey.com) 📧 Contact: [[email protected]](mailto:[email protected]) 💻 GitHub: [https://github.com/pritampanda15](https://github.com/pritampanda15)