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31. A Weighted Randomized Sparse Kaczmarz Method for Solving Linear Systems

Author

Zhang, Lu, Yuan, Ziyang, Wang, Hongxia, and Zhang, Hui

Subjects
Mathematics - Numerical Analysis, Mathematics - Optimization and Control, 65F10, 65K10
Abstract

The randomized sparse Kaczmarz method, designed for seeking the sparse solutions of the linear systems $Ax=b$, selects the $i$-th projection hyperplane with likelihood proportional to $\|a_{i}\|_2^2$, where $a_{i}^T$ is $i$-th row of $A$. In this work, we propose a weighted randomized sparse Kaczmarz method, which selects the $i$-th projection hyperplane with probability proportional to $\lvert\langle a_{i},x_{k}\rangle-b_{i}\rvert^p$, where $0

Published
2023
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32. Exploring the role of methylation-driven gene IFFO1 in pancreatic adenocarcinoma diagnosis, prognosis and cellular functions

Author

XU Ziqi, HU Ruizhi, LI Junjian, WANG Hongxia, SANG Youzhou

Subjects
intermediate filament family orphan 1, pancreatic adenocarcinoma, invasion and migration, dna methylation, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282
Abstract

Background and purpose: Abnormal DNA methylation is closely associated with the onset and progression of tumors. This study aimed to investigate the expression of intermediate filament family orphan 1 (IFFO1), a methylation-driven gene (MDG) in pancreatic adenocarcinoma (PAAD), along with its effects on the invasion and metastasis of PAAD cells, as well as its potential as a diagnostic and prognostic biomarker. Methods: mRNA expression data (TCGA-PAAD-mRNA), DNA methylation data (TCGA-PAAD-meth, GSE53051, PACA-AU) of PAAD and adjacent normal tissues, as well as DNA methylation data of healthy individuals’ blood (GSE69270), were obtained from the The Cancer Genome Atlas (TCGA), International Cancer Genome Consortium (ICGC) and Gene Expression Omnibus (GEO) databases. By performing differential expression analysis combined with differential methylation analysis, we screened for MDG in PAAD. In the TCGA database, Pearson correlation tests were employed to verify the relationship between IFFO1 promoter methylation level and its expression level. Additionally, Kaplan-Meier survival analysis was conducted to evaluate the relationship among IFFO1 promoter methylation level, expression level, and the prognosis of PAAD. Pathological sections of cancer tissues and corresponding adjacent tissues from 27 PAAD patients were obtained from Shanghai General Hospital, Shanghai Jiao Tong University School of Medicine. All samples involved in this study were approved by the human ethics committee of Shanghai General Hospital, Shanghai Jiao Tong University School of Medicine (ethics number: hospital ethics review[2017]No.53). Immunohistochemistry staining (IHC) was utilized to detect the expression of IFFO1 in cancer tissues and corresponding adjacent tissues from 27 PAAD patients. Based on the median expression level of IFFO1, patients in the TCGA database were classified into high-expression and low-expression groups. Subsequently, differential analysis, gene ontology (GO) enrichment analysis and gene set enrichment analysis (GSEA) were performed. Western blot and real-time fluorescence quantitative polymerase chain reaction (RTFQ-PCR) were employed to assess the expression variations of IFFO1 between the normal pancreatic ductal epithelial cell line H6C7 and the PAAD cell lines MIA PaCa2, BxPC-3, AsPC-1 and Capan-2. The impact of IFFO1 overexpression on the migration and invasion capacities of PAAD cell lines AsPC-1 and Capan-2 was evaluated using scratch and invasion assays. Additionally, receiver operating characteristic (ROC) curves and Kaplan-Meier survival analysis were utilized to assess the diagnostic and prognostic significance of IFFO1 methylation levels in the TCGA pan-cancer cohort. Results: Through the cross-screening of five datasets, 41 MDG in PAAD were identified. Among these, IFFO1 was found to be the gene most closely associated with the prognosis of PAAD [hazard ratio (HR)=0.28, P

Published
2024
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