Data Sheet 1_Integrating bulk, single-cell, and spatial transcriptomics to identify a novel pyroptosis-related gene signature for predicting prognosis and tumor immune landscape in triple-negative breast cancer.zip

Multi-omics data integrates bulk, single-cell, and spatial transcriptomics to identify a pyroptosis-related gene signature for predicting outcomes in triple-negative breast cancer. The dataset includes immunohistochemistry validation on 48 clinical TNBC samples. Lingyan Xiang published this research data on figshare in April 2026.

Use Cases

• Build a prognostic model using the LASSO-derived gene signature (PINK1, GZMB, PFKFB3, RSPO3, TREM1, VEGFA) to predict patient survival.
• Analyze single-cell RNA sequencing data to examine expression heterogeneity of signature genes across T cell subpopulations.
• Use spatial transcriptomics data to map the distribution of signature genes within immune-cell-enriched tumor regions.
• Validate protein expression correlations with clinical outcomes using the immunohistochemistry results from 48 TNBC samples.
• Investigate cell-cell communication networks, such as the MIF-CD74-CXCR4 axis, between T cells and macrophages derived from the analysis.

Strengths

• Includes multi-modal validation integrating bulk RNA-seq, scRNA-seq, spatial transcriptomics, and IHC on 48 clinical samples.
• Prognostic signature was constructed and validated using independent cohorts from TCGA and GEO databases.
• Data is openly shared under a CC-BY-4.0 license, facilitating reuse.

Limitations

• The dataset is relatively small at 11.3 MB, suggesting limited raw sequencing data or processed results only.
• Clinical sample size for IHC validation is modest (48 TNBC samples), which may limit statistical power for some subgroups.
• Specific row counts and column names for the core transcriptomic tables are not provided.

Provenance

Source

Integrated from TCGA and GEO databases, with primary data generated by the author.

Collection Method

Transcriptomic data integration, LASSO algorithm for signature construction, scRNA-seq and spatial transcriptomics analysis, and immunohistochemistry.

Time Range

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Freshness

Last updated in April 2026.

Geography

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