Скачать или смотреть NGS-CN Summer School 2025 - Talk 7 - Introduction to Spatial Analysis

NGS-CN Summer School 2025 | Spatial Transcriptomics

Welcome to the NGS-CN Summer School 2025, where we’re excited to train young researchers in the cutting-edge field of spatial transcriptomics (with some content on single cell transcriptomics).

This school will introduce students to the field of spatial omics, focusing on Spatially Resolved Transcriptomics (SRT). SRT technologies, which have shown an exponential growth in recent years, allow unprecedented detection of spatial organization of gene expression within tissue context leading to new understandings of biological questions.


Today’s lecturer, Fabian Rost, is a postdoc at the Max Planck Institute in Dresden, with experience in spatial analysis. He is giving a general overview over the analysis of spatial data and introducing tools and useful packages for such an analysis. Check out the links at the end of the talk!

Share your thoughts below – let’s get the conversation started!
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00:00 – Introduction
01:07 – Start of the talk
02:39 – Questions we can ask to the data
05:17 – How does the spatial data look like?
11:35 – Spatial Analysis (Before you start)
12:12 – Preprocessing and Quality Control
16:17 – Downstream Analysis
17:27 – But which genes are interesting?
20:15 – Dimensionality reduction and clustering
21:39 – Revisiting cell segmentation
23:49 – How to actually use spatial information
24:04 – Spatially aware clustering
27:40 – Niche detection
29:05 – Ligand-receptor interactions
30:07 – Integration with scRNAseq
30:15 – Cell Type Deconvolution
31:56 – Imputing gene expression
33:37 – Useful links

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