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<p>Long non-coding RNAs (lncRNAs) are increasingly recognized as key regulators of gene expression and cancer progression; however, the majority remain functionally uncharacterized, limiting their translational and clinical relevance. In particular, the extent to which lncRNA functions are conserved across species and contribute to melanoma progression remains poorly understood. This study presents an integrative in silico characterization of mouse lncRNA Gm26982, previously implicated in melanoma models, alongside comparison with its human counterpart LINC00852, to elucidate structural, regulatory, and functional conservation with potential translational and clinical relevance. We implemented a comprehensive and robust bioinformatics pipeline integrating diverse computational tools, web servers, and publicly available databases to systematically evaluate the coding potential, synteny, sequence conservation, expression profiles, subcellular localization, secondary structure, and interaction networks of Gm26982, including its associations with miRNAs and RNA-binding proteins. Our results demonstrate that Gm26982 possesses low coding potential despite a complete reading frame, and is predominantly expressed in neural and immune-related murine tissues. Synteny analysis established its ortholog in human LINC00852 with overlapping expression domains and subcellular localization. Despite modest sequence similarity, both lncRNAs share conserved genomic contexts, overlapping tissue-specific expression patterns, and similar regulatory interactions. Notably, both transcripts were predicted to interact with miR-140-3p, suggesting a conserved regulatory mechanism potentially mediated through competing endogenous RNA (ceRNA) activity. Structural analysis further revealed differences in thermodynamic stability and folding complexity, indicating evolutionary divergence in regulatory capacity. Collectively, these findings suggest that Gm26982 and LINC00852 represent conserved lncRNAs with potential roles in melanoma-associated regulatory networks, particularly through miRNA-mediated post-transcriptional regulation. This study provides a foundation for future experimental validation. It highlights the importance of integrative computational approaches in identifying functionally relevant lncRNAs, with potential implications for biomarker discovery and therapeutic targeting in cancer.</p>

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In silico characterization of melanoma-derived mouse lncRNA Gm26982 and comparative analyses with human ortholog

  • 期刊论文

  • 发表日期：

    2026年4月24日

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  • Shalini Majumder,
  • Ekarsi Lodh,
  • Tiasha De,
  • Tapan Chowdhury

摘要

Long non-coding RNAs (lncRNAs) are increasingly recognized as key regulators of gene expression and cancer progression; however, the majority remain functionally uncharacterized, limiting their translational and clinical relevance. In particular, the extent to which lncRNA functions are conserved across species and contribute to melanoma progression remains poorly understood. This study presents an integrative in silico characterization of mouse lncRNA Gm26982, previously implicated in melanoma models, alongside comparison with its human counterpart LINC00852, to elucidate structural, regulatory, and functional conservation with potential translational and clinical relevance. We implemented a comprehensive and robust bioinformatics pipeline integrating diverse computational tools, web servers, and publicly available databases to systematically evaluate the coding potential, synteny, sequence conservation, expression profiles, subcellular localization, secondary structure, and interaction networks of Gm26982, including its associations with miRNAs and RNA-binding proteins. Our results demonstrate that Gm26982 possesses low coding potential despite a complete reading frame, and is predominantly expressed in neural and immune-related murine tissues. Synteny analysis established its ortholog in human LINC00852 with overlapping expression domains and subcellular localization. Despite modest sequence similarity, both lncRNAs share conserved genomic contexts, overlapping tissue-specific expression patterns, and similar regulatory interactions. Notably, both transcripts were predicted to interact with miR-140-3p, suggesting a conserved regulatory mechanism potentially mediated through competing endogenous RNA (ceRNA) activity. Structural analysis further revealed differences in thermodynamic stability and folding complexity, indicating evolutionary divergence in regulatory capacity. Collectively, these findings suggest that Gm26982 and LINC00852 represent conserved lncRNAs with potential roles in melanoma-associated regulatory networks, particularly through miRNA-mediated post-transcriptional regulation. This study provides a foundation for future experimental validation. It highlights the importance of integrative computational approaches in identifying functionally relevant lncRNAs, with potential implications for biomarker discovery and therapeutic targeting in cancer.