GEO series
Spatio-temporal mapping of immune cell dynamics during human sequential lymph node metastasis
Summary
Regional lymph node metastasis critically influences distant metastatic progression, anti-tumour immunity, and patient prognosis. This study systematically characterised immune cell dynamics across paired primary tumours, sentinel tumour-draining lymph nodes (S-TDLNs), and secondary axillary lymph nodes (ALNs) from treatment-naïve triple-negative breast cancer (TNBC) patients using integrated multi-omics approaches, including imaging mass cytometry, single-cell RNA sequencing, Visium and Xenium spatial transcriptomics, and multiplex immunofluorescence. Xenium profiling was performed on FFPE lymph node sections spanning different metastatic stages to resolve high-resolution spatial organisation, neighbourhood complexity, and immune cell co-localisation during sequential lymph node metastasis.
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE328422_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 6 samples.
Also filed as BioProject PRJNA1454945. Searching any of these in the dataset finder brings you back here.
Study design
6 conditions, each sampled once — no replicated groups
Read from 6 sample titles: 6 distinct titles with little repetition. Check it against the sample list below before relying on it.
Samples in this study
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- GSM9682589 Xenium of sentinel lymph node / axillary lymph node 1-2SLN-ALN in treatment-naïve TNBC
- GSM9682590 Xenium of sentinel lymph node 1-3SLN in treatment-naïve TNBC
- GSM9682591 Xenium of sentinel lymph node / axillary lymph node 2-2ALN-SLN in treatment-naïve TNBC
- GSM9682592 Xenium of sentinel lymph node / axillary lymph node 2-3ALN-SLN in treatment-naïve TNBC
- GSM9682593 Xenium of sentinel lymph node / axillary lymph node 3-1SLN-ALN in treatment-naïve TNBC
- GSM9682594 Xenium of sentinel lymph node / axillary lymph node 3-3SLN-ALN in treatment-naïve TNBC
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