Integrated High-throughput Transcriptomic Data Identifies Survivin as a Potential Breast Cancer Therapeutic Biomarker.
PMID 37194228 | DOI 10.2174/0929867330666230516102017 · Current medicinal chemistry · 2024 · View on PubMed ↗
BACKGROUND: Breast cancer is the leading cause of cancer-related mortality among women worldwide. Advanced stages are usually obstinate with chemotherapy, resulting in a poor prognosis; however, they are treatable if diagnosed early. OBJECTIVE: Identifying biomarkers that can detect cancer early or have therapeutic significance is imperative. METHODS: Herein, a comprehensive bioinformatics-based transcriptomics study of breast cancer for identifying differentially expressed genes (DEGs), followed by a screening of potential compounds by molecular docking, was performed. Genome-wide mRNA expression data of breast cancer patients (n=248) and controls (n=65) were retrieved from the GEO database for meta-analysis. Statistically significant DEGs were used for enrichment analysis based on ingenuity pathway analysis and protein-protein network analysis. RESULTS: A total of 3096 unique DEGs (965 up-regulated and 2131 down-regulated) were mapped as biologically relevant. The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>. Transcriptomic and molecular pathway analyses identified BIRC5</i>/survivin as a significant DEG. Kinetochore metaphase signaling is recognized as a prominent dysregulated canonical pathway. Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins. Molecular docking was performed to exhibit binding interactions with multiple natural ligands. CONCLUSION: BIRC5 is a promising predictive marker and a potential therapeutic target in breast cancer. Further large-scale studies are required to correlate the significance of BIRC5 in breast cancer, leading to a step toward the clinical translation of novel diagnostic and therapeutic options.
Validated evidence
| Type | Entity | Source evidence | Confidence | Extractor |
|---|---|---|---|---|
| gene | COL10A1 | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | COL11A1 | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | TOP2A | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | BIRC5 | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | MMP11 | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | S100P | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | RARA | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | ADIPOQ | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | LEP | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | CFD | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | PCK1 | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | HBA2 | “The most upregulated genes were COL10A1, COL11A1, TOP2A, BIRC5</i> (survivin), MMP11, S100P, RARA</i>, and the most downregulated genes were ADIPOQ, LEP, CFD, PCK1</i> and HBA2</i>.” | 0.98 | hgnc_dict_v1 |
| gene | KIF2C | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | KIF20A | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | KIF23 | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | CDCA8 | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | AURKA | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | AURKB | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | INCENP | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | CDK1 | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | BUB1 | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| gene | CENPA | “Protein-protein interaction study revealed that KIF2C, KIF20A, KIF23, CDCA8, AURKA, AURKB, INCENP, CDK1, BUB1 and CENPA are BIRC5-associated proteins.” | 0.98 | hgnc_dict_v1 |
| phenotype | breast cancer | “Integrated High-throughput Transcriptomic Data Identifies Survivin as a Potential Breast Cancer Therapeutic Biomarker.” | 0.98 | phenotype_alias_lexicon_v2 |