CYFIP2: potential pancreatic cancer biomarker and immunotherapeutic target by Cong Xiao, Xiaojuan Zhang, Bobo Hou, Ping Wan, Zhenjun Cao, Xuefeng Rao

“…In this work, we first explain the great potential of CYFIP2 malignant progression from a broader perspective (pan-cancer) and confirm its oncogenic value in pancreatic cancer. Methods The Cancer Genome Atlas (TCGA), Genotype-Tissue Expression (GTEx) database, CELL and GEO databases were utilized to explore the distribution of the CYFIP2 gene in human cancers. …”
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Autophagy activation in response to cigarette smoke: Exploring the disparity in laryngeal cancer incidence and outcomes between sexes in South Korea by Min Ji Kim, Jisu Hong, Hyo Won Chang, Yun-Hee Lee, Jun-Pyo Myong, Ah Ra Jung, Yoon Se Lee, Minsu Kwon

“…In addition, to explore the relationship between the level of autophagy-related gene expression and clinical features, female LC patients were compared with male patients through an analysis of data from The Cancer Genome Atlas (TCGA). Results: In the NHIS data analyses, male LC patients had an 11 times higher incidence than female patients, even after adjusting for smoking and age. …”
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Identification of EARS2 as a Potential Biomarker with Diagnostic, Prognostic, and Therapeutic Implications in Colorectal Cancer by Wang L, Deng X, Tang J, Gong Y, Bu S, Li Z, Liao B, Ding Y, Dai T, Liao Y, Li Y

“…This study identifies key genes associated with lactic acid metabolism and explore their impact on CRC.Patients and Methods: This study utilized data from The Cancer Genome Atlas, Gene Expression Omnibus, other public databases, and our institutional resources. …”
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Mitochondrial dysfunction-driven AMPK-p53 axis activation underpins the anti-hepatocellular carcinoma effects of sulfane sulfur by Xue Zheng, Yuhua Luo, Rui Huo, Yiwen Wang, Youbang Chen, Mianrong Chen, Qi Zhao, Kexin Li, Hanyi Zhang, Xiaotong Li, Xiang Li, Hui Zhang, Zaopeng He, Li Huang, Chun-tao Yang

“…We utilized bioinformatics algorithms for clustering, function enrichment, feature screening and survival analysis on proteomic data from the Cancer Proteome Atlas (CPTAC) and transcriptomic data from the Cancer Genome Atlas (TCGA). The impact of PSCP on HCC was assessed in vitro and in vivo, focusing on the expression and activity of p53 and AMP-activated protein kinase (AMPK), as well as mitochondrial function. …”
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Comprehensive Analysis of m5C RNA Methylation Regulator Genes in Clear Cell Renal Cell Carcinoma by Jiajin Wu, Chao Hou, Yuhao Wang, Zhongyuan Wang, Pu Li, Zengjun Wang

“…Methods. Based on The Cancer Genome Atlas (TCGA) database, the expression patterns of twelve m5C regulators and matched clinicopathological characteristics were downloaded and analyzed. …”
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miR-9-5p/HMMR regulates the tumorigenesis and progression of clear cell renal cell carcinoma through EMT and JAK1/STAT1 signaling pathway by Xinyang Niu, Dingheng Lu, Weitao Zhan, Jiazhu Sun, Yuxiao Li, Yuchen Shi, Kai Yu, Suyuelin Huang, Xueyou Ma, Xiaoyan Liu, Ben Liu

“…Methods We used The Cancer Genome Atlas (TCGA) database to preliminarily investigate HMMR expression and function in ccRCC and the data for 19 samples from the NCBI GEO database (GSE207493) for single-cell analysis. …”
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CT45A1‐mediated MLC2 (MYL9) phosphorylation promotes natural killer cell resistance and outer cell fate in a cell‐in‐cell structure, potentiating the progression of microsatellite... by Hao‐Wei Teng, Hsiang‐Yueh Huang, Chun‐Chi Lin, Yuh‐Ching Twu, Wen‐Hao Yang, Wen‐Chun Lin, Hsin‐Yi Lan, Yen‐Yu Lin, Wei‐Lun Hwang

“…We aimed to identify the tumor‐autonomous regulators determining these heterogeneous clinical outcomes. The Cancer Genome Atlas (TCGA) dataset was used to identify regulators in MSI‐H CRC patients with unfavorable outcomes. …”
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Pan-cancer analysis of the transcriptional expression of histone acetylation enzymes in solid tumors defines a new classification scheme for gliomas by Junhao Zhang, Lingbo Li, Aiwei Tang, Chucheng Wang, Yupeng Wang, Yongqi Hu, Guangting He, Guangting He, Wangjun Liao, Wangjun Liao, Wangjun Liao, Rui Zhou

“…However, systematic characterization of the transcriptomic landscape and clinical relevance of HATs and HDACs in pan-cancer contexts remains lacking.MethodsTranscriptome and clinical data of 9,483 patients across 31 tumor types from The Cancer Genome Atlas were collected for systematic pan-cancer analysis. …”
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Transcriptional signature of CD56bright NK cells predicts favourable prognosis in bladder cancer by Md Abdullah Al Kamran Khan, Alexander James Sedgwick, Yuhan Sun, Julian P. Vivian, Julian P. Vivian, Julian P. Vivian, Alexandra J. Corbett, Riccardo Dolcetti, Riccardo Dolcetti, Riccardo Dolcetti, Theo Mantamadiotis, Theo Mantamadiotis, Stefano Mangiola, Stefano Mangiola, Stefano Mangiola, Alexander David Barrow

“…We determined the relative abundances of gene signatures for CD56bright and CD56dim NK cells along with 3 stromal and 18 other immune cell types in the patient tumour transcriptomes from the cancer genome atlas bladder cancer dataset (TCGA-BLCA). …”
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The impact of integrated genomic analysis on molecular classifications and prognostic risk stratification in endometrial cancer: a Chinese experience by Qian Zheng, Qian Zheng, Qian Zheng, Di Shao, Jin Shu, Jin Shu, Jin Shu, Qin Zhang, Qin Zhang, Qin Zhang, Min Huang, Dong Wang, Dong Wang, Dong Wang, Dongling Zou, Dongling Zou, Dongling Zou

“…BackgroundThe molecular classification of endometrial cancer (EC), as proposed by The Cancer Genome Atlas (TCGA), has transformed tumor classification, but there is a lack of extensive research on the molecular profiles and subtyping of endometrial cancer patients in China.Methods200 EC patients were classified into the following four molecular types: (i) POLEmut; (ii) MSI-H; (iii) TP53mut; (iv) NSMP. …”
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Chemokine family significance and prognostic value in colorectal cancer by Yi Ding, Yi Ding, Yi Ding, Yinnan Chen, Yinnan Chen, Yinnan Chen, Siyun Xie, Quanpeng Qiu, Quanpeng Qiu, Xiaolong Guo, Yun Feng, Yun Feng, Hongxia Li, Hongxia Li, Fang Zhu, Yaping Liu, Yaping Liu, Yaping Liu

“…This study was rigorously augmented using comprehensive datasets from The Cancer Genome Atlas (TCGA), ensuring a robust analysis of gene expression patterns associated with clinical outcomes.ResultsThrough data analysis, we identified key genes from the chemokine family thought pertinent to CRC outcomes. …”
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Comprehensive analysis reveals cholesterol metabolism-related signature for predicting prognosis and guiding individualized treatment of glioma by Dengfeng Lu, Fei Wang, Yayi Yang, Aojie Duan, Yubo Ren, Yun Feng, Haiying Teng, Zhouqing Chen, Xiaoou Sun, Zhong Wang

“…Methods: Transcriptional data and clinicopathological data were obtained from The Cancer Genome Atlas (TCGA) and Chinese Glioma Genome Atlas (CGGA) databases. …”
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Combining single-cell analysis and molecular docking techniques to construct a prognostic model for colon adenocarcinoma and uncovering inhibin subunit βb as a novel therapeutic ta... by Qinqing Wu, Qinqing Wu, Lu Ye, Yuwei Wu, Mengyu Zhao, Mengyu Zhao, Jiaxin Lu, Yanping Yu, Yanping Yu, Yixiao Niu, Yixiao Niu, Luxiao Zhang, Peijun Zuo, Peijun Zuo

“…However, the specific biological link between anoikis and COAD, as well as its mechanisms in tumor progression, remains unclear, making it a potential new direction for therapeutic strategy research.MethodsWe employed transcriptomic data and clinical information from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) to pinpoint differentially expressed anoikis-related genes (ARGs) in COAD. …”
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Assessment of prognosis and responsiveness to immunotherapy in colorectal cancer patients based on the level of immune cell infiltration by Kaili Liao, Minqi Zhu, Lei Guo, Zijun Gao, Jinting Cheng, Bing Sun, Yihui Qian, Bingying Lin, Jingyan Zhang, Tingyi Qian, Yixin Jiang, Yanmei Xu, Qionghui Zhong, Xiaozhong Wang

“…ObjectiveTo build a new prognostic risk assessment model based on immune cell co-expression networks for predicting overall survival and evaluating the efficacy of immunotherapy for colon cancer patients.MethodsThe Cancer Genome Atlas (TCGA) database was used to obtain mRNA expression profiling data, clinical information, and somatic mutation data from colorectal cancer patients. …”
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Predicting hepatocellular carcinoma outcomes and immune therapy response with ATP-dependent chromatin remodeling-related genes, highlighting MORF4L1 as a promising target by Chao Xu, Litao Liang, Guoqing Liu, Yanzhi Feng, Bin Xu, Deming Zhu, Wenbo Jia, Jinyi Wang, Wenhu Zhao, Xiangyu Ling, Yongping Zhou, Wenzhou Ding, Lianbao Kong

“…We utilized data from The Cancer Genome Atlas (TCGA) and the Gene Expression Omnibus (GEO), applying machine learning algorithms to develop a prognostic model based on ACRRGs’ expression. …”
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NALCN expression is down-regulated and associated with immune infiltration in gastric cancer by Xuewei Li, Xuewei Li, Na Wu, Chen Wang, Beibei Pei, Xiaoyan Ma, Jun Xie, Jun Xie, Wenhui Yang

“…Data obtained from the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) databases were utilized to investigate the correlation between NALCN expression and immune cell infiltration in GC. …”
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Programmed cell death-related gene IL20RA facilitates tumor progression and remodels tumor microenvironment in thyroid cancer by Yuqi Wang, Yunlong Zhang, Min Liu, Yu Liu, Yu Zeng, Wei Zhang, Shuping Wu, Linfei Hu, Xianhui Ruan, Xiangqian Zheng, Ming Gao, Jingzhu Zhao

“…This study aimed to explore the relationship between PCD-related genes expression and prognosis in thyroid cancer (THCA), especially IL20RA, as a potential prognostic marker for THCA. Data from The Cancer Genome Atlas (TCGA) database was utilized to develop a PCD-related risk prediction model based on LASSO regression along with univariate Cox regression. …”
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High-throughput methylation sequencing reveals novel biomarkers for the early detection of renal cell carcinoma by Wenhao Guo, Weiwu Chen, Jie Zhang, Mingzhe Li, Hongyuan Huang, Qian Wang, Xiaoyi Fei, Jian Huang, Tongning Zheng, Haobo Fan, Yunfei Wang, Hongcang Gu, Guoqing Ding, Yicheng Chen

“…Using a training set from The Cancer Genome Atlas (TCGA) dataset of 443 early-stage RCC tumors and matched normal tissues, we applied LASSO regression and identified 23 methylation signatures. …”
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The expression of BHLHE22 in endometrial carcinoma: Associations with mismatch repair protein expression status, tumor-infiltrating immune cells, programmed death-ligand 1 and clin... by Lin-Yu Chen, Hsing-Yu Chen, Hung-Cheng Lai, Shiou-Fu Lin, Kuo-Chang Wen, Darmawi, Phui-Ly Liew

“…The associations between the clinicopathological characteristics, mismatch repair status, and Kaplan–Meier analyses (including The Cancer Genome Atlas (TCGA) dataset) were analyzed. Results: Twenty-nine of 109 cases (26.6 %) had high BHLHE22 expression, which was associated with higher tumoral CD8, higher stromal CD68 and lower progesterone receptor (PR). …”
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Multi‑omics identification of a novel signature for serous ovarian carcinoma in the context of 3P medicine and based on twelve programmed cell death patterns: a multi-cohort machin... by Lele Ye, Chunhao Long, Binbing Xu, Xuyang Yao, Jiaye Yu, Yunhui Luo, Yuan Xu, Zhuofeng Jiang, Zekai Nian, Yawen Zheng, Yaoyao Cai, Xiangyang Xue, Gangqiang Guo

“…Differentially expressed genes (DEGs) from the Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GTEx) were screened. …”
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