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Updated: Nov 10, 2025

RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA
Published on: April 10, 2018
Aptamer-guided targeting of the intracellular long-noncoding RNA HOTAIR
Yuan-Liang Wang1,2, Ling-Chu Chang3, Kuen-Bao Chen2,4
1Center for Molecular Medicine, China Medical University Hospital Taichung 40402, Taiwan.
Abstract:
Long non-coding RNAs (lncRNAs) are increasingly recognized as promising targets in cancer treatment. However, compared to targeting the ordinary protein-coding genes, suppressing non-coding RNAs expressed in cancer cells has been a more challenging task. The major hurdles lay on the requirement of a tumor-specific delivery system for the designated inhibitor to suppress the target transcripts within the cellular compartment. EGFR is a cancer driver gene which is frequently associated with the triple-negative phenotype of breast cancer. Prior studies have shown that expression of the tumor-promoting lncRNA HOTAIR (HOX antisense intergenic RNA) is positively regulated by the epithelial growth factor receptor (EGFR) in triple-negative breast cancer (TNBC), and consistently the expression of both genes is closely correlated in breast cancer. Here we show that a chimeric aptamer recognizing the epithelial growth factor receptor (EGFR) coupled with a siRNA against HOTAIR (EGFR aptamer-coupled siHOTAIR) preferentially and effectively down-regulated HOTAIR in EGFR-expressing cancer cells. Functionally, the EGFR aptamer-coupled siHOTAIR more potently inhibited the growth, migration, and invasion of EGFR-expressing TNBC cells as well as cells with reconstituted EGFR compared to cancer cells with low EGFR expression. Our results demonstrate a novel strategy of targeting cancer progression by aptamer-directed delivery of anti-lncRNA RNA interference that can be applicable to other cellular contexts and cancer types.
Insights
Targeting cancer involves a new method using aptamers to deliver small interfering RNA (siRNA) specifically to EGFR-expressing cancer cells, effectively reducing long non-coding RNA HOTAIR and inhibiting tumor growth.
Area of Science:
- Oncology
- Molecular Biology
- RNA Therapeutics
Background:
- Long non-coding RNAs (lncRNAs) are emerging as critical regulators in cancer, presenting therapeutic targets.
- Targeting lncRNAs like HOTAIR (HOX antisense intergenic RNA) is challenging due to the need for tumor-specific delivery systems.
- Epidermal growth factor receptor (EGFR) is a key driver in triple-negative breast cancer (TNBC) and regulates HOTAIR expression.
Purpose of the Study:
- To develop a targeted delivery system for suppressing HOTAIR in EGFR-expressing cancer cells.
- To evaluate the efficacy of an EGFR aptamer-coupled siRNA against HOTAIR (siHOTAIR) in preclinical cancer models.
Main Methods:
- Constructed a chimeric molecule combining an EGFR-targeting aptamer with siHOTAIR.
- Assessed the preferential down-regulation of HOTAIR in EGFR-expressing cancer cells.
- Investigated the impact of EGFR aptamer-coupled siHOTAIR on cancer cell proliferation, migration, and invasion.
Main Results:
- EGFR aptamer-coupled siHOTAIR effectively and specifically reduced HOTAIR levels in EGFR-positive cancer cells.
- This targeted approach significantly inhibited the growth, migration, and invasion of EGFR-expressing TNBC cells.
- Efficacy was observed in cells with high EGFR expression and those with reconstituted EGFR.
Conclusions:
- Aptamer-directed delivery of anti-lncRNA RNA interference offers a novel strategy for targeting cancer progression.
- This approach demonstrates potential applicability across different cancer types and cellular contexts expressing specific biomarkers like EGFR.
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