Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

ABSTRACT: 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.

ORGANISM(S): Homo sapiens

PROVIDER: GSE328275 | GEO | 2026/06/27

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	GSE328275_processed_data.tar.gz	Other

Items per page:

1 - 2 of 2

Similar Datasets

Spatio-temporal mapping of immune cell dynamics during human sequential lymph node metastasis

Project description: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.

2026-06-27 | GSE328422 | GEO

GNPS - Mouse Mesenteric Lymph Node Metabolites

Project description:Small molecules extracted from mouse mesenteric lymph nodes.

| MSV000080181 | GNPS

RNA seq of tumor draining lymph node (TdLNs) from a wildtype (WT) or tenascin-C (TNC) knockout (KO) mouse each bearing 4NQO-carcinogen induced tongue tumors

Project description:Tumor-draining lymph nodes (TdLNs) were collected from wild-type (WT) and tenascin-C knockout (TNC-KO) C57BL/6 mice (N = 3 per group), each bearing 4NQO-induced tongue tumors. Both male and female mice were included. Beginning at 12 weeks of age, mice were exposed to 4NQO via drinking water for 16 weeks. Tumors were then subjected to a single 2 Gy irradiation. TdLNs were harvested six weeks after irradiation, and total RNA was isolated for bulk RNA-seq analysis.

2025-12-11 | E-MTAB-16360 | biostudies-arrayexpress

Tumor-derived lactic acid modulates activation and metabolic status of draining lymph node stroma

Project description:Communication between tumors and the stroma of tumor draining lymph nodes (TDLNs) exists before metastasis arises, altering structure and function of the TDLN niche. Transcriptional profiling of fibroblastic reticular cells (FRCs), the dominant stromal population of the LN, revealed reprogramming of these cells in immune related pathways, but also in fibroblast activation and mitochondrial function. However, tumor derived factors driving the changes in FRCs remained to be identified. Taking an unbiased approach, we show that lactic acid (LA), a metabolite released by cancer cells, is not only secreted by B16.F10 and 4T1 tumors in high amounts, but that it is also enriched in TDLNs. LA supports an upregulation of Pdpn and Thy1 and downregulation of Il7 in FRCs of TDLNs, making them akin to activated fibroblasts found at the primary tumor site. Furthermore, we show that tumor-derived LA alters mitochondrial function of FRCs of TDLNs. Thus, our results demonstrate a novel mechanism by which a tumor-derived metabolite connected with a low pH environment modulate the function of fibroblasts in TDLNs.

2022-01-11 | GSE184300 | GEO

Expression data from 4T1 subclones derived from mammary fat pad tumors (MFP), axillary lymph node tumors (AxLN), and axillary lymph node-derived lung metastases (AxLN-LuM)

Project description:Expression data from 4T1 subclones derived from mammary fat pad tumors (MFP), axillary lymph node tumors (AxLN), and axillary lymph node-derived lung metastases (AxLN-LuM). In parallel, expression data, in the same subclones, of tail vein-derived (TV) lung metastases. The mechanism of how lymph node metastases seed distant metastases is unknown. We used the 4T1 breast cancer cell line, which is an immune competent model of triple negative breast cancer and spontaneously metastasizes in balb/c mice. 4T1-GFP/fLuc cells were injected into MFP to form tumors and 4T1-mCherry/rLuc cells were injected into axillary lymph nodes to form tumors and then allowed to metastasize to lung. TV cells were allowed to metastasize in the lung. Cells were harvested at different time intervals after the injection. Tumors were extracted, dissociated, and then expanded in vitro to obtain MFP, AxLN, AxLN-LuM and TV-LuM subclones isolated after different time lags with respect to the injection.

2019-08-20 | GSE136031 | GEO

Soluble lymph node proteome during anthrax infection in mice

Project description:This study aimed to characterize a soluble proteome of popliteal lymph nodes during lymphadenitis induced by intradermal injection of Bacillus anthracis Sterne spores in mice using tandem LC-MS/MS. More than 380 proteins were detected in the normal intra-nodal lymph, while the infectious process resulted in the profound changes in the protein abundances and appearance of 297 unique proteins. These proteins belong to an array of processes reflecting response to wounding, inflammation and perturbations of hemostasis, innate immune response, coagulation and fibrinolysis, regulation of body fluid levels and vascular disturbance among others. The results demonstrate that the proteome of intra-nodal lymph serves as a sensitive sentinel of the processes occurring within the lymph nodes during infection. The acute innate response of the lymph nodes to anthrax is accompanied by cellular damage and inflammation with a large number of up- and down-regulated proteins many of which are distinct from those detected in serum.

2014-10-21 | PXD001342 | Pride

Transcriptomes of premetastatic tumor-draining lymph nodes with or without denervation of TDLN-innervating nociceptive nerves

Project description:We compared the mice tumor-draining lymph nodes(TDLNs) with or without orthotopic tongue xenografts, and with or without denervation of TDLN-innervating nociceptive nerves

2026-02-20 | GSE225630 | GEO

The Tumor-Sentinel Lymph Node Immune Migratome Reveals a Key Role for Migratory CCR7+ Dendritic Cells in Response to Immunoradiotherapy [TCR-seq]

Project description:Surgical ablation or radiation of tumor-draining lymph nodes can eliminate the primary tumor response to immunotherapy, indicating that local tumor response to immunotherapy is mediated by tumor-draining lymph nodes. Here, we show that immunoradiotherapy efficacy is dependent on immune cell migration from tumor to sentinel lymph nodes. Using a tamoxifen-inducible reporter paired with CITE-sequencing in a murine model of oral cancer, we characterized tumor immune cellular migration through lymphatic channels to sentinel lymph nodes at single-cell resolution. Within a structured approach of sequential immunomodulatory radiotherapy and checkpoint inhibition, we demonstrate that lymphatic-sparing, tumor-directed radiotherapy followed by PD-1 inhibition achieves complete and durable tumor responses. Mechanistically, this treatment approach enhances activated, migratory CCR7+ dendritic cell surveillance across the tumor-sentinel lymph node axis, revealing a shift from their canonical role in promoting tolerance to driving antitumor immunity. Overall, this work supports rationally sequencing immune-sensitizing, lymphatic-preserving, tumor-directed radiotherapy followed by immune checkpoint inhibition to optimize the tumor response. By characterizing the tumor-sentinel lymph node immunomigratome that drives durable antitumor response, we reveal a therapeutic opportunity to enhance the response to immunotherapy by optimizing activated dendritic cell migration to tumor-draining sentinel nodes.

2025-06-07 | GSE276437 | GEO

The Tumor-Sentinel Lymph Node Immune Migratome Reveals a Key Role for Migratory CCR7+ Dendritic Cells in Response to Immunoradiotherapy [CITE-seq]

2025-06-07 | GSE276434 | GEO