Autoimmune Disease-Related Hub Genes are Potential Biomarkers and Associated with Immune Microenvironment in Endometriosis

References

• Hung SW, Zhang R, Tan Z, Chung J, Zhang T, Wang CC. Pharmaceuticals targeting signaling pathways of endometriosis as potential new medical treatment: a review. Med Res Rev. 2021;41:2489–2564. doi:10.1002/med.21802
   PubMed Web of Science ®Google Scholar
• Parazzini F, Esposito G, Tozzi L, Noli S, Bianchi S. Epidemiology of endometriosis and its comorbidities. Eur J Obstet Gynecol Reprod Biol. 2017;209:3–07. doi:10.1016/j.ejogrb.2016.04.021
   PubMed Web of Science ®Google Scholar
• As-Sanie S, Black R, Giudice LC, et al. Assessing research gaps and unmet needs in endometriosis. Am J Obstet Gynecol. 2019;221(2):86–94. doi:10.1016/j.ajog.2019.02.033
   PubMed Web of Science ®Google Scholar
• Zondervan KT, Becker CM, Missmer SA. Endometriosis. N Engl J Med. 2020;382:1244–1256. doi:10.1056/NEJMra1810764
   PubMed Web of Science ®Google Scholar
• Sampson JA. Metastatic or embolic endometriosis, due to the menstrual dissemination of endometrial tissue into the venous circulation. Am J Pathol. 1927;3:93–110.
   PubMedGoogle Scholar
• Lang J. Cornerstone of study on endometriosis (in Chinese). Chin J Obstet Gynecol. 2005;40(1):3–4.
   Google Scholar
• Zhang T, De Carolis C, Man G, Wang CC. The link between immunity, autoimmunity and endometriosis: a literature update. Autoimmun Rev. 2018;17:945–955. doi:10.1016/j.autrev.2018.03.017
   PubMed Web of Science ®Google Scholar
• Ahn SH, Monsanto SP, Miller C, Singh SS, Thomas R, Tayade C. Pathophysiology and immune dysfunction in endometriosis. Biomed Res Int. 2015;2015:795976. doi:10.1155/2015/795976
   PubMed Web of Science ®Google Scholar
• Suda K, Nakaoka H, Yoshihara K, et al. Clonal expansion and diversification of cancer-associated mutations in endometriosis and normal endometrium. Cell Rep. 2018;24(7):1777–1789. doi:10.1016/j.celrep.2018.07.037
   PubMed Web of Science ®Google Scholar
• Jin Z, Zhang Y, Li J, Lv S, Zhang L, Feng Y. Endometriosis stem cell sources and potential therapeutic targets: literature review and bioinformatics analysis. Regen Med. 2021;16(10):949–962. doi:10.2217/rme-2021-0039
   PubMed Web of Science ®Google Scholar
• Lac V, Nazeran TM, Tessier-Cloutier B, et al. Oncogenic mutations in histologically normal endometrium: the new normal? J Pathol. 2019;249:173–181. doi:10.1002/path.5314
   PubMed Web of Science ®Google Scholar
• Yin Z, Low HY, Chen BS, et al. Risk of ankylosing spondylitis in patients with endometriosis: a population-based retrospective cohort study. Front Immunol. 2022;13:877942. doi:10.3389/fimmu.2022.877942
   PubMed Web of Science ®Google Scholar
• Porpora MG, Scaramuzzino S, Sangiuliano C, et al. High prevalence of autoimmune diseases in women with endometriosis: a case-control study. Gynecol Endocrinol. 2020;36(4):356–359. doi:10.1080/09513590.2019.1655727
   PubMed Web of Science ®Google Scholar
• Abramiuk M, Grywalska E, Malkowska P, Sierawska O, Hrynkiewicz R, Niedzwiedzka-Rystwej P. The role of the immune system in the development of endometriosis. Cells. 2022;11. doi:10.3390/cells11132028
   PubMedGoogle Scholar
• Yuk JS, Park EJ, Seo YS, Kim HJ, Kwon SY, Park WI. Graves disease is associated with endometriosis: a 3-year population-based cross-sectional study. Medicine. 2016;95(10):e2975. doi:10.1097/MD.0000000000002975
   PubMed Web of Science ®Google Scholar
• Sun YH, Leong PY, Huang JY, Wei JC. Increased risk of being diagnosed with endometriosis in patients with systemic lupus erythematosus: a population-based cohort study in Taiwan. Sci Rep. 2022;12:13336. doi:10.1038/s41598-022-17343-4
   PubMed Web of Science ®Google Scholar
• Kvaskoff M, Mu F, Terry KL, et al. Endometriosis: a high risk population for major chronic diseases? Hum Reprod Update. 2015;21:500–516. doi:10.1093/humupd/dmv013
   PubMed Web of Science ®Google Scholar
• Chao YH, Liu CH, Pan YA, Yen FS, Chiou JY, Wei JC. Association between endometriosis and subsequent risk of Sjogren’s syndrome: a nationwide population-based cohort study. Front Immunol. 2022;13:845944. doi:10.3389/fimmu.2022.845944
   PubMed Web of Science ®Google Scholar
• Gabriel M, Fey V, Heinosalo T, et al. A relational database to identify differentially expressed genes in the endometrium and endometriosis lesions. Sci Data. 2020;7:284. doi:10.1038/s41597-020-00623-x
   PubMed Web of Science ®Google Scholar
• Hever A, Roth RB, Hevezi P, et al. Human endometriosis is associated with plasma cells and overexpression of B lymphocyte stimulator. Proc Natl Acad Sci USa. 2007;104:12451–12456. doi:10.1073/pnas.0703451104
   PubMed Web of Science ®Google Scholar
• Ritchie ME, Phipson B, Wu D, et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res. 2015;43:e47. doi:10.1093/nar/gkv007
   PubMed Web of Science ®Google Scholar
• Maag J. Gganatogram: an R package for modular visualisation of anatograms and tissues based on ggplot2. F1000Res. 2018;7:1576. doi:10.12688/f1000research.16409.2
   PubMedGoogle Scholar
• Wu T, Hu E, Xu S, et al. ClusterProfiler 4.0: a universal enrichment tool for interpreting omics data. Innovation. 2021;2:100141. doi:10.1016/j.xinn.2021.100141
   Web of Science ®Google Scholar
• Szklarczyk D, Gable AL, Nastou KC, et al. The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets. Nucleic Acids Res. 2021;49:D605–D612. doi:10.1093/nar/gkaa1074
   PubMed Web of Science ®Google Scholar
• Shannon P, Markiel A, Ozier O, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 2003;13(11):2498–2504. doi:10.1101/gr.1239303
   PubMed Web of Science ®Google Scholar
• Bader GD, Hogue CW. An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinform. 2003;4(1):2. doi:10.1186/1471-2105-4-2
   PubMed Web of Science ®Google Scholar
• Chin CH, Chen SH, Wu HH, et al. CytoHubba: identifying hub objects and sub-networks from complex interactome. BMC Syst Biol. 2014;8(Suppl 4):S11. doi:10.1186/1752-0509-8-S4-S11
   PubMed Web of Science ®Google Scholar
• Robin X, Turck N, Hainard A, et al. pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinform. 2011;12:77. doi:10.1186/1471-2105-12-77
   PubMed Web of Science ®Google Scholar
• Matalliotakis IM, Cakmak H, Fragouli YG, Goumenou AG, Mahutte NG, Arici A. Epidemiological characteristics in women with and without endometriosis in the Yale series. Arch Gynecol Obstet. 2008;277(5):389–393. doi:10.1007/s00404-007-0479-1
   PubMed Web of Science ®Google Scholar
• Farland LV, Eliassen AH, Tamimi RM, Spiegelman D, Michels KB, Missmer SA. History of breast feeding and risk of incident endometriosis: prospective cohort study. BMJ. 2017;358:j3778. doi:10.1136/bmj.j3778
   PubMedGoogle Scholar
• Schernhammer ES, Vitonis AF, Rich-Edwards J, Missmer SA. Rotating nightshift work and the risk of endometriosis in premenopausal women. Am J Obstet Gynecol. 2011;205:471–476. doi:10.1016/j.ajog.2011.06.002
   Web of Science ®Google Scholar
• Shigesi N, Kvaskoff M, Kirtley S, et al. The association between endometriosis and autoimmune diseases: a systematic review and meta-analysis. Hum Reprod Update. 2019;25(4):486–503. doi:10.1093/humupd/dmz014
   PubMed Web of Science ®Google Scholar
• Xiao ZX, Miller JS, Zheng SG. An updated advance of autoantibodies in autoimmune diseases. Autoimmun Rev. 2021;20(2):102743. doi:10.1016/j.autrev.2020.102743
   PubMed Web of Science ®Google Scholar
• Kotlyar A, Taylor HS, D’Hooghe TM. Use of immunomodulators to treat endometriosis. Best Pract Res Clin Obstet Gynaecol. 2019;60:56–65. doi:10.1016/j.bpobgyn.2019.06.006
   PubMed Web of Science ®Google Scholar
• Antonio L, Rosa-E-Silva JC, Machado DJ, et al. Thalidomide reduces cell proliferation in endometriosis experimentally induced in rats. Rev Bras Ginecol Obstet. 2019;41:668–672. doi:10.1055/s-0039-3399551
   PubMedGoogle Scholar
• Liepelt A, Tacke F. Stromal cell-derived factor-1 (SDF-1) as a target in liver diseases. Am J Physiol Gastrointest Liver Physiol. 2016;311(2):G203–G209. doi:10.1152/ajpgi.00193.2016
   PubMed Web of Science ®Google Scholar
• Moridi I, Mamillapalli R, Cosar E, Ersoy GS, Taylor HS. Bone marrow stem cell chemotactic activity is induced by elevated CXCl12 in endometriosis. Reprod Sci. 2017;24(4):526–533. doi:10.1177/1933719116672587
   PubMed Web of Science ®Google Scholar
• Barbieri F, Bajetto A, Thellung S, Wurth R, Florio T. Drug design strategies focusing on the CXCR4/CXCR7/CXCL12 pathway in leukemia and lymphoma. Expert Opin Drug Discov. 2016;11(11):1093–1109. doi:10.1080/17460441.2016.1233176
   PubMed Web of Science ®Google Scholar
• Mei J, Li MQ, Li DJ, Sun HX. MicroRNA expression profiles and networks in CXCL12‑stimulated human endometrial stromal cells. Mol Med Rep. 2017;15:249–255. doi:10.3892/mmr.2016.5997
   PubMed Web of Science ®Google Scholar
• Simmons DL, Walker C, Power C, Pigott R. Molecular cloning of CD31, a putative intercellular adhesion molecule closely related to carcinoembryonic antigen. J Exp Med. 1990;171:2147–2152. doi:10.1084/jem.171.6.2147
   PubMed Web of Science ®Google Scholar
• Newman PJ, Newman DK. Signal transduction pathways mediated by PECAM-1: new roles for an old molecule in platelet and vascular cell biology. Arterioscler Thromb Vasc Biol. 2003;23:953–964. doi:10.1161/01.ATV.0000071347.69358.D9
   PubMed Web of Science ®Google Scholar
• Stockinger H, Gadd SJ, Eher R, et al. Molecular characterization and functional analysis of the leukocyte surface protein CD31. J Immunol. 1990;145(0022–1767):3889–3897.
   PubMedGoogle Scholar
• Liu Y, Zhang Z, Li W, Tian S. PECAM1 combines with CXCR4 to trigger inflammatory cell infiltration and pulpitis progression through activating the NF-kappaB signaling pathway. Front Cell Dev Biol. 2020;8:593653. doi:10.3389/fcell.2020.593653
   PubMed Web of Science ®Google Scholar
• Peng B, Zhan H, Alotaibi F, Alkusayer GM, Bedaiwy MA, Yong PJ. Nerve growth factor is associated with sexual pain in women with endometriosis. Reprod Sci. 2018;25(4):540–549. doi:10.1177/1933719117716778
   PubMed Web of Science ®Google Scholar
• Liang Y, Xie H, Wu J, Liu D, Yao S. Villainous role of estrogen in macrophage-nerve interaction in endometriosis. Reprod Biol Endocrinol. 2018;16(1):122. doi:10.1186/s12958-018-0441-z
   PubMed Web of Science ®Google Scholar
• Wu G, Liu C, Cao B, et al. Connective tissue growth factor-targeting DNA aptamer suppresses pannus formation as diagnostics and therapeutics for rheumatoid arthritis. Front Immunol. 2022;13:934061. doi:10.3389/fimmu.2022.934061
   PubMed Web of Science ®Google Scholar
• Li D, Finley SD. Exploring the extracellular regulation of the tumor angiogenic interaction network using a systems biology model. Front Physiol. 2019;10:823. doi:10.3389/fphys.2019.00823
   PubMed Web of Science ®Google Scholar
• Kusama K, Fukushima Y, Yoshida K, et al. PGE2 and thrombin induce myofibroblast transdifferentiation via activin A and CTGF in endometrial stromal cells. Endocrinology. 2021:162. doi:10.1210/endocr/bqab207
   PubMed Web of Science ®Google Scholar
• Awan S, Lambert M, Imtiaz A, et al. Wnt5a promotes lysosomal cholesterol egress and protects against atherosclerosis. Circ Res. 2022;130(2):184–199. doi:10.1161/CIRCRESAHA.121.318881
   PubMed Web of Science ®Google Scholar
• Chi S, Xue J, Chen X, Liu X, Ji Y. Correlation of plasma and urine Wnt5A with the disease activity and cutaneous lesion severity in patients with systemic lupus erythematosus. Immunol Res. 2022;70:174–184. doi:10.1007/s12026-021-09253-w
   PubMed Web of Science ®Google Scholar
• Rodriguez-Trillo A, Pena C, Garcia S, et al. ROCK inhibition with Y-27632 reduces joint inflammation and damage in serum-induced arthritis model and decreases in vitro osteoclastogenesis in patients with early arthritis. Front Immunol. 2022;13:858069. doi:10.3389/fimmu.2022.858069
   PubMed Web of Science ®Google Scholar
• Sumitomo R, Huang CL, Ando H, Ishida T, Cho H, Date H. Wnt2b and Wnt5a expression is highly associated with M2 TAMs in non‑small cell lung cancer. Oncol Rep. 2022;48. doi:10.3892/or.2022.8404
   PubMed Web of Science ®Google Scholar