GEO series
Single-cell RNA sequencing of CD45+ immune cells across primary tumor, sentinel tumor-draining lymph node, and axillary lymph node in treatment-naive triple-negative breast cancer
GSE328275
Homo sapiens
Expression profiling by high throughput sequencing
28 samples
Submitted 2026/06/27
Platform GPL34284
Summary
Regional lymph node metastasis critically influences distant metastatic progression, anti-tumor immunity, and patient prognosis in triple-negative breast cancer (TNBC). In this study, fresh surgically resected specimens from treatment-naive TNBC patients were collected and CD45+ immune cells were isolated for single-cell RNA sequencing to characterize immune remodeling across matched primary tumors, sentinel tumor-draining lymph nodes (S-TDLNs), and secondary axillary lymph nodes (ALNs). The overall project integrated scRNA-seq with imaging mass cytometry, Visium and Xenium spatial transcriptomics, and multiplex immunofluorescence. This GEO submission contains processed scRNA-seq expression matrices and associated metadata only. Raw sequencing data have been deposited previously in in the Genome Sequence Archive (GSA) for human data, and the GSA ID is HRA010347.
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE328275_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 28 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1454472. Searching any of these in the dataset finder brings you back here.
Study design
28 conditions, each sampled once — no replicated groups
Read from 28 sample titles: 28 distinct titles with little repetition. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM9677534 Sample1-Tumor primary tumor scRNA-seq
- GSM9677535 Sample1-SLN sentinel lymph node scRNA-seq
- GSM9677536 Sample2-Tumor primary tumor scRNA-seq
- GSM9677537 Sample2-SLN sentinel lymph node scRNA-seq
- GSM9677538 Sample2-ALN axillary lymph node scRNA-seq
- GSM9677539 Sample3-Tumor primary tumor scRNA-seq
- GSM9677540 Sample3-SLN sentinel lymph node scRNA-seq
- GSM9677541 Sample4-Tumor primary tumor scRNA-seq
- GSM9677542 Sample4-SLN sentinel lymph node scRNA-seq
- GSM9677543 Sample4-ALN axillary lymph node scRNA-seq
- GSM9677544 Sample5-Tumor primary tumor scRNA-seq
- GSM9677545 Sample5-SLN sentinel lymph node scRNA-seq
- GSM9677546 Sample5-ALN axillary lymph node scRNA-seq
- GSM9677547 Sample6-Tumor primary tumor scRNA-seq
- GSM9677548 Sample6-SLN sentinel lymph node scRNA-seq
- GSM9677549 Sample6-ALN axillary lymph node scRNA-seq
- GSM9677550 Sample7-Tumor primary tumor scRNA-seq
- GSM9677551 Sample7-SLN sentinel lymph node scRNA-seq
- GSM9677552 Sample7-ALN axillary lymph node scRNA-seq
- GSM9677553 Sample8-Tumor primary tumor scRNA-seq
- GSM9677554 Sample8-SLN sentinel lymph node scRNA-seq
- GSM9677555 Sample8-ALN axillary lymph node scRNA-seq
- GSM9677556 Sample9-Tumor primary tumor scRNA-seq
- GSM9677557 Sample9-SLN sentinel lymph node scRNA-seq
- GSM9677558 Sample9-ALN axillary lymph node scRNA-seq
- GSM9677559 Sample10-Tumor primary tumor scRNA-seq
- GSM9677560 Sample10-SLN sentinel lymph node scRNA-seq
- GSM9677561 Sample10-ALN axillary lymph node scRNA-seq
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