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Qing Liu,Yuan Liu,Xinwen Wang,Jie Xu,Wei Zhou 한국유전학회 2015 Genes & Genomics Vol.37 No.9
Oral lichen planus (OLP) is a common inflammatory oral mucosal disease and a potential premalignant status of oral squamous cell carcinoma. This study aims to explore the molecular mechanisms of OLP. The gene expression dataset (GSE38616) of OLP tissues and healthy controls was downloaded from Gene Expression Omnibus database. After preprocessing the raw data through affy package, limma package was utilized to identify differentially expressed genes (DEGs) (criteria: p B 0.05 and |log2 fold change| C 2). Then, functional and pathway enrichment analyses were performed by using DAVID software (criterion: p value \0.1). Besides, STRING sever was utilized to investigate protein–protein interactions (PPIs) based on which PPI network was constructed (criterion: combined score [0.4). Finally, the transcription factor binding sites (TFBSs) of DEGs were predicted through WGRV software (criterion: p value \0.0001). A total of ten DEGs were identified, including two down-regulated and eight up-regulated DEGs, which were enriched in nine functions mainly about keratinization, differentiation and development of keratinocyte and epithelium. Besides, PPI network was constructed, and CXCL13 was a hub gene. Furthermore, four conserved TFBSs (AR, dlx3, ALX-3, and Msx-1) were co-existed in SLC6A14, CXCL13, and CDSN. CDSN, LCE3D, LCE3E, and SPRR2B might play a role in OLP through participating in keratinization, differentiation and development of keratinocyte and epithelium, while EIF1AY, WFDC12, and CXCL13 might participate in OLP through regulating inflammation and immunity. These predictions might promote the understanding of OLP mechanism. However, further studies are required to validate the bioinformatics outcomes.
Litong Yao,Xiaoyan Liu,Mozhi Wang,Keda Yu,Shouping Xu,Pengfei Qiu,Zhidong Lv,Xinwen Zhang,Yingying Xu 한국유방암학회 2023 Journal of breast cancer Vol.26 No.2
Purpose: We aimed to identify effectiveness-associated indicators and evaluate the optimal tumor reduction rate (TRR) after two cycles of neoadjuvant chemotherapy (NAC) in patients with invasive breast cancer. Methods: This retrospective case-control study included patients who underwent at least four cycles of NAC at the Department of Breast Surgery between February 2013 and February 2020. A regression nomogram model for predicting pathological responses was constructed based on potential indicators. Results: A total of 784 patients were included, of whom 170 (21.68%) reported pathological complete response (pCR) after NAC and 614 (78.32%) had residual invasive tumors. The clinical T stage, clinical N stage, molecular subtype, and TRR were identified as independent predictors of pCR. Patients with a TRR > 35% were more likely to achieve pCR (odds ratio, 5.396; 95% confidence interval [CI], 3.299–8.825). The receiver operating characteristic (ROC) curve was plotted using the probability value, and the area under the ROC curve was 0.892 (95% CI, 0.863–0.922). Conclusion: TRR > 35% is predictive of pCR after two cycles of NAC, and an early evaluation model using a nomogram based on five indicators, age, clinical T stage, clinical N stage, molecular subtype, and TRR, is applicable in patients with invasive breast cancer.