Landscape of lncRNAs expressed in Mexican patients with triple‑negative breast cancer

Rosario Castro-Oropeza ¹, Cindy Velazquez-Velazquez ¹, Karla Vazquez-Santillan ²

⁰Molecular Oncology Laboratory, Oncology Research Unit, XXI Century National Medical Center, The Mexican Institute of Social Security, Mexico City 06720, Mexico.

Molecular Medicine Reports +

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April 11, 2025

View abstract on PubMed

Summary

Long non-coding RNAs (lncRNAs) show altered expression in triple-negative breast cancer (TNBC). Specific lncRNAs are linked to patient survival, offering potential biomarkers for improved TNBC clinical management.

Area Of Science

Genomics
Molecular Biology
Oncology

Background

Long non-coding RNAs (lncRNAs) are crucial gene expression regulators involved in cancer.
Their stability and tissue specificity make them promising prognostic biomarkers.
Triple-negative breast cancer (TNBC) requires novel biomarkers for improved patient stratification and management.

Purpose Of The Study

To identify differentially expressed lncRNAs in Mexican patients with TNBC.
To evaluate the potential of these lncRNAs as prognostic biomarkers for TNBC.
To understand the role of lncRNAs in breast cancer progression and survival outcomes.

Main Methods

Transcriptome analysis using Human Transcriptome Array 2.0 microarrays.
Validation of differentially expressed lncRNAs in The Cancer Genome Atlas (TCGA) cohort, an independent Mexican cohort, and breast cancer cell lines.
Correlation analysis between lncRNA expression levels and patient overall survival (OS).

Main Results

102 differentially expressed lncRNAs were identified in TNBC compared to luminal tumors.
SOX9-AS was highly expressed in TNBC; Lnc-PXDN-3:1, Lnc-SYDE, and LINC01087 were decreased.
Low expression of LINC01087, LINC02568, ACO22196, and Lnc-EGOT correlated with poor OS in TNBC patients.
Specific lncRNAs (Lnc-PXDN-3:1, LINC00182, Lnc-GATA-3-1, LINC01087, BX679671.1, LINC00504, Lnc-ARHGEF38-IT1) were associated with survival in luminal and basal subtypes.
LINC01087 was found to interact with RNAs and transcription factors, potentially involving the estrogen receptor pathway.

Conclusions

This study identifies key lncRNAs with differential expression in Mexican TNBC patients.
Several lncRNAs demonstrate prognostic value, correlating with overall survival in different breast cancer subtypes.
These findings highlight lncRNAs as potential biomarkers for improved clinical management and understanding of TNBC.

Keywords:

breast cancer long non‑coding RNA luminal prognostic biomarkers triple‑negative

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lncRNA - Long Non-coding RNAs

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