Segmentation Matters: Recognizing the Cell Segmentation Challenge in Spatial Transcriptomics

Abstract excerpt

Probe-based in situ hybridization spatial transcriptomics has emerged as a state-of-the-art for neuroscience research. Accurate segmentation of neurons and non-neuronal cells, a critical step for downstream analysis, remains a big challenge. Using human sensory ganglia neurons as an example, we systematically explore this problem. We evaluated multiple automatic segmentation approaches using quantitative performa...

Topics

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• Cell Line
• Cluster Analysis
• Cytological Techniques
• Image Processing, Computer-Assisted
• Machine Learning
• Palatine Tonsil
• Phenotype
• Single-Cell Analysis

Identifiers and source

Literature Corpus work

89a60513-9448-5d5f-818b-fb4b1aacedc4

DOI

10.1101/2025.08.25.672145