Estrogen-driven Crosstalk among RUNX-2, PDLIM3, and Novel microRNAs via ERG Signaling: A Network Meta-Analysis using IPA
Main Article Content
Abstract
Estrogens govern the female reproductive cycle indefinitely. Estrogens, including estrone (E1), Estradiol (E2), estriol (E3), and estetrol (E4) regulate the female life cycle from early embryonic stages and play a crucial role in development, metabolism, and cell function. Throughout evolution, estrogen has regulated reproduction by influencing the development of reproductive organs and behavior. Estrogen impacts all vertebrates, including fish, and has a role in physiological and pathological states in both genders. The RUNX-2 gene is a member of the RUNX family of transcription factors and encodes a nuclear protein with a Runt DNA-binding domain. This protein is essential for osteoblastic differentiation and skeletal morphogenesis and acts as a scaffold for nucleic acids and regulatory factors involved in skeletal gene expression. The protein can bind DNA both as a monomer or, with more affinity, as a subunit of a heterodimeric complex. In 2022, a study was conducted to characterize novel genes that are regulated by estrogen binding to its receptors (α or β). The PDLIM3 gene, with a coefficient of variation (CV) of 0.083, received the most stable CV score among other genes.
Strong correlation between estrogen binding to its receptors α or β was found, followed by expression of the PDLIM3 gene, and activation of RUNX-2 expression through the regulation of specifically miR-9 and miR-10. Also, a novel miRNA was determined, which is integrated in the activation of RUNX-2 through transcription of the PDLIM3 gene.
Article Details
Copyright (c) 2025 Hassan AY.

This work is licensed under a Creative Commons Attribution 4.0 International License.
1. Huether SE, McCance KL. Understanding pathophysiology. 7th ed. St. Louis (MO): Mosby; 2020. Available from: https://shop.elsevier.com/books/understanding-pathophysiology/huether/978-0-323-63908-8
2. Delgado BJ, Patel P, Lopez-Ojeda W. Estrogen(Archived). 2025 Aug 9. In: StatPearls [Internet]. Treasure Island (FL): StatPearls Publishing; 2025. Available from: https://pubmed.ncbi.nlm.nih.gov/30855848/
3. Sier JH, Thumser AE, Plant NJ. Linking physiologically-based pharmacokinetic and genome-scale metabolic networks to understand estradiol biology. BMC Syst Biol. 2017;11(1):141. Available from: https://doi.org/10.1186/s12918-017-0520-3
4. Shaban NZ, Talaat IM, Elrashidy FH, Hegazy AY, Sultan AS. Therapeutic role of Punica granatum (pomegranate) seed oil extract on bone turnover and resorption induced in ovariectomized rats. J Nutr Health Aging. 2017;21(10):1299-306. Available from: https://doi.org/10.1007/s12603-017-0884-5
5. Thompson PA, Ambrosone C. Molecular epidemiology of genetic polymorphisms in estrogen metabolizing enzymes in human breast cancer. JNCI Monogr. 2000;2000(27):125-34. Available from: https://doi.org/10.1093/oxfordjournals.jncimonographs.a024235
6. Fuentes N, Silveyra P. Estrogen receptor signaling mechanisms. Adv Protein Chem Struct Biol. 2019;116:135-70. Available from: https://doi.org/10.1016/bs.apcsb.2019.01.001
7. Le Dily F, Beato M. Signaling by steroid hormones in the 3D nuclear space. Int J Mol Sci. 2018;19(2):306. Available from: https://doi.org/10.3390/ijms19020306
8. Komori T. Runx2, an inducer of osteoblast and chondrocyte differentiation. Histochem Cell Biol. 2019;151(1):1–11.
9. Lucero MJ, Vega OA, Osorio MM, Tapia JC, Antonelli M, Stein GS, Galindo MA. The cancer-related transcription factor Runx2 modulates cell proliferation in human osteosarcoma cell lines. J Cell Physiol. 2013;228(4):714–723. Available from: https://doi.org/10.1002/jcp.24218
10. Lin TC. RUNX2 and cancer. Int J Mol Sci. 2023;24(8):7001. Available from: https://doi.org/10.3390/ijms24087001
11. Hu X, Chen M, Ruan Q, Shi C, Pan J, Luo L. Comprehensive analysis of PDLIM3 expression profile, prognostic value, and correlations with immune infiltrates in gastric cancer. J Immunol Res. 2022;2022:2039447. Available from: https://www.hindawi.com/journals/jir/2022/2039447/
12. Nishi K, Fu W, Kiyama R. Novel estrogen-responsive genes (ERGs) for the evaluation of estrogenic activity. PLoS One. 2022;17(8):e0272553. Available from: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0273164
13. Ranganathan K, Sivasankar V. MicroRNAs – biology and clinical applications. J Oral Maxillofac Pathol. 2014;18(2):229–234.
14. Luo H, Gao H, Liu F, Qiu B. Regulation of Runx2 by microRNA-9 and microRNA-10 modulates the osteogenic differentiation of mesenchymal stem cells. Int J Mol Med. 2017;39(5):1046–1052. Available from: https://www.spandidos-publications.com/10.3892/ijmm.2017.2918
15. Jiang M, Zhang W, Zhang R, Liu P, Ye Y, Yu W, et al. Cancer exosome-derived miR-9 and miR-181a promote the development of early-stage MDSCs via interfering with SOCS3 and PIAS3, respectively, in breast cancer. Oncogene. 2020;39(24):4681–4694. Available from: https://www.nature.com/articles/s41388-020-1322-4
16. Tian J, Rui K, Tang X, Ma J, Wang Y, Tian X, et al. MicroRNA-9 regulates the differentiation and function of myeloid-derived suppressor cells via targeting Runx1. J Immunol. 2015;195(3):1301–1311. Available from: https://www.jimmunol.org/content/195/3/1301
17. Jiang M, Zhang W, Zhang R, Liu P, Ye Y, Yu W, et al. Cancer exosome-derived miR-9 and miR-181a promote the development of early-stage MDSCs via interfering with SOCS3 and PIAS3, respectively, in breast cancer. Oncogene. 2020;39(24):4681–4694. Available from: https://www.nature.com/articles/s41388-020-1322-4
18. Mu N, Gu J, Huang T, Zhang C, Shu Z, Li M, et al. A novel NFκB/YY1/microRNA-10a regulatory circuit in fibroblast-like synoviocytes regulates inflammation in rheumatoid arthritis. Sci Rep. 2016;6:20059. Available from: https://www.nature.com/articles/srep20059
19. Xu D, Huang CC, Kachaochana A, Morgan GA, Bonaldo MF, Soares MB, et al. MicroRNA-10a regulation of proinflammatory mediators: an important component of untreated juvenile dermatomyositis. J Rheumatol. 2016;43(1):161–168. Available from: https://www.jrheum.org/content/43/1/161
20. Stadthagen G, Tehler D, Høyland-Kroghsbo NM, Wen J, Krogh A, Jensen KT, et al. Loss of miR-10a activates Lpo and collaborates with activated Wnt signaling in inducing intestinal neoplasia in female mice. PLoS Genet. 2013;9(10):e1003913. Available from: https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1003913
21. Xu C, Zhang H, Gu W, Wu H, Chen Y, Zhou W, et al. The microRNA-10a/ID3/RUNX2 axis modulates the development of ossification of the posterior longitudinal ligament. Sci Rep. 2018;8(1):9223. Available from: https://www.nature.com/articles/s41598-018-27514-x
22. Bishir M, Rengifo T, Huang W, Kim RJ, Chidambaram SB, Chang SL. Network meta-analysis on alcohol-mediated modulation of Alzheimer’s disease in the diseases of inflammation, including COVID-19. NeuroImmune Pharmacol Ther. 2023;2(3):267–281.
23. Rengifo T, Bishir M, Huang W, Snyder M, Chang SL. Network meta-analysis of the molecular mechanisms and signaling pathways underlying alcohol-induced thymic atrophy. Alcohol Clin Exp Res. 2024;48(5):795–809. Available from: https://doi.org/10.1111/acer.15292
24. Zhang J, Bishir M, Barbhuiya S, Chang SL. Meta-analysis of the mechanisms underlying COVID-19 modulation of Parkinson’s disease. Int J Mol Sci. 2023;24(17):13554. Available from: https://doi.org/10.3390/ijms241713554
25. Otto F, Thornell AP, Crompton T, Denzel A, Gilmour KC, Rosewell IR, et al. Cbfa1, a candidate gene for cleidocranial dysplasia syndrome, is essential for osteoblast differentiation and bone development. Cell. 1997;89(5):765–771. Available from: https://doi.org/10.1016/s0092-8674(00)80259-7
26. Krcmery J, Camarata T, Kulisz A, Simon HG. Loss of the cytoskeletal protein α-actinin-2 leads to dilated cardiomyopathy and skeletal muscle dysfunction. Proc Natl Acad Sci U S A. 2010;107(6):2345–2350.
27. Komori T. Runx2, an inducer of osteoblast and chondrocyte differentiation. Histochem Cell Biol. 2019;151(1):1–11. Available from: https://doi.org/10.1007/s00418-018-1640-6
28. Zhou L, Song Z, Hu J, Gao M, Bao J, Zhang G, et al. MiR-9 promotes osteoblast differentiation and suppresses osteoclastogenesis via targeting DKK1. Gene. 2015;564(2):137–144.
29. Wu D, Huang Y, Kang J, Li K, Bi X, Zhang T, et al. MiR-10a promotes osteogenesis and suppresses adipogenesis in human mesenchymal stem cells. Aging Cell. 2014;13(2):333–341.
30. Sun G, Ye P, Murai K, Lang MF, Li S, Zhang H, et al. miR-9 regulates neural stem cell proliferation and differentiation by targeting TLX and REST. Dev Cell. 2011;20(6):897–909.
31. Wang H, Peng W, Ouyang X, Li W, Dai Y. miR-10a regulates T-cell activation and promotes immunosuppression in ovarian cancer. Cell Death Dis. 2015;6(7):e1909.
32. Liu Y, Zhang Q, Chen L, Wang X, Li J, Zhao H, et al. miR-6769b-5p targets CCND1 to regulate proliferation in cadmium-exposed placental trophoblasts. Sci Total Environ. 2022;825:153927.
33. NET Research Team. Exosome-mediated regulation of bone remodeling by miRNAs, including miR-6769b. 2019.
34. Hassan A. Network meta-analysis of estrogen's direct and indirect influence on signaling pathways controlling RUNX-2 through regulation of novel ERG gene. 2025. Available from: https://www.researchgate.net/publication/391160429_Network_meta-analysis_of_estrogen%27s_direct_and_indirect_influence_on_signaling_pathways_controlling_RUNX-2through_regulation_of_novel_ERG_gene