Autophagy-related long non-coding RNA MIR210HG plays a therapeutic role in hepatocellular carcinoma by Chaoqun Zhang, Dianxing Sun, Huifang Zhou, Chao Liu, Jie Ruan, Jiwen Kang, Ying Xie

“…Methods LncRNA MIR210HG expression and its correlation with survival outcomes in hepatocellular carcinoma patients were analyzed using data from The Cancer Genome Atlas (TCGA). Kaplan–Meier and Cox regression analyses were conducted to assess survival correlations. …”
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Exploring the prognostic significance of lactate-mitochondria-related genes in prostate cancer by Yuan Wang, Ronghui Chen, Feng-Le Jiang, Feng-Le Jiang, Xin Jiang, Xin Jiang, Yuehong Zhou, Yingying Zhou, Xinyi Hong, Chaoying Lin, Wei-Jia Wang, Wei-Jia Wang, Sufang Qiu

“…To identify novel prognostic markers of PCa based on lactate-mitochondria-related genes (LMRGs), RNA sequencing data and clinical information of PCa from The Cancer Genome Atlas (TCGA) and the cBioPortal database were used to construct a lactate-mitochondria-related risk signature. …”
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Decoding the Methylation Patterns of ABC Transporters in Colorectal Cancer by Nurul Nabilah Norhisan, Rashidah Baharudin, Nurul Qistina Rus Bakarurraini, Nur Alyaa Afifah Md Shahri, Francis Yew Fu Tieng, Imilia Ismail, Muhammad-Redha Abdullah-Zawawi, Learn-Han Lee, Nurul Syakima Ab Mutalib

“…Survival analysis demonstrated the correlation between DNA methylation of individual CpG sites and patient survival probability in colon and rectal adenocarcinoma datasets from The Cancer Genome Atlas. The study provides insights into the epigenetic landscape of ABC genes in CRC, highlighting their potential roles in drug resistance, disease initiation, and progression. …”
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Nuclear Protein 1 Expression Is Associated with PPARG in Bladder Transitional Cell Carcinoma by Chao Lu, Shenglin Gao, Li Zhang, Xiaokai Shi, Yin Chen, Shuzhang Wei, Li Zuo, Lifeng Zhang

“…However, the role of Nuclear protein 1 in bladder transitional cell carcinoma (BTCC) is still unclear. Methods. The Cancer Genome Atlas database and immunohistochemical analysis were adopted to evaluate Nuclear protein 1 expression in BTCC. …”
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Unveiling the role of SYNGR4 in breast cancer development: a novel target for immunotherapy by Jie Ma, Hongtao Wang, Zhengwei Gui, Yuanrong Yang

“…IntroductionSYNGR4 is considered to be one of the causative genes for amyotrophic lateral sclerosis, but its role in breast cancer development has not been revealed.MethodsThe expression of SYNGR4 in a variety of malignancies including breast cancer was analyzed using Genotype Tissue Expression (GTEx) and the Cancer Genome Atlas (TCGA) databases and verified by specimens collected from our center. …”
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Identification of KRT16 and ANXA10 as cell cycle regulation genes for lung adenocarcinoma based on self-transcriptome sequencing of surgical samples and TCGA public data mining by Wen-jian Liu, Jia-pan Shen, Ren-quan Zhang, Xiao-yun Fan

“…Methods Differentially expressed genes (DEGs) were identified by self-transcriptome sequencing of tumor tissues and paracancerous tissues resected during surgery and combined with The Cancer Genome Atlas (TCGA) data to screen for the genes associated with LUAD prognosis. …”
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Demystifying the Discussion of Sequencing Panel Size in Oncology Genetic Testing by Cecília Durães, Carla Pereira Gomes, Jose Luis Costa, Luca Quagliata

“… Clinical laboratories worldwide are implementing next-generation sequencing (NGS) to identify cancer genomic variants and ultimately improve patient outcomes. …”
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Expression and prognostic significance of the m6A RNA methylation regulator HNRNPC in HNSCC by Yulin Zhang, Yixu Wang, Jilin Peng, Kun Zhao, Ling Li, Yuan Zhang, Ziyu Zhai, Sijie Yuan, Shichao Li, Shichao Li, Shichao Li, Fanglei Ye, Le Wang

“…BackgroundN6-methyladenosine (m6A) RNA modification is crucial for tumor development and progression; however, which m6A regulators play a pivotal role in head and neck squamous cell carcinoma (HNSCC) remains ambiguous.MethodsUtilizing the Cancer Genome Atlas (TCGA) database, the expression levels of m6A regulators in HNSCC were examined, which led to the identification of heterogeneous nuclear ribonucleoprotein C (HNRNPC) as a key gene. …”
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Somatic Mutaome Profile in Human Cancer Tissues by Nayoung Kim, Yourae Hong, Doyoung Kwon, Sukjoon Yoon

“…Thus, we must obtain and characterize genome-wide mutational profiles in individual cancer subtypes. The Cancer Genome Atlas database includes large amounts of sequencing and omics data generated from diverse human cancer tissues. …”
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Weakly supervised deep learning-based classification for histopathology of gliomas: a single center experience by Mingrong Zuo, Xiang Xing, Linmao Zheng, Hao Wang, Yunbo Yuan, Siliang Chen, Tianping Yu, ShuXin Zhang, Yuan Yang, Qing Mao, Yongbin Yu, Ni Chen, Yanhui Liu

“…We analyzed 472 whole slide images (WSIs) from 226 patients in West China Hospital (WCH) and 1604 WSIs from 880 patients in The Cancer Genome Atlas (TCGA). We utilized the OpenSlide library to load WSIs, segmented them into small patches using the DeepZoom module, and then normalized the color using the Reinhard method. …”
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Pan-cancer analysis of CLDN1 and its functional study in gastric cancer by Zhu Weijing, Zhang Jiaxing, Wei Yucai, Yang Shengrui, Wang Wenxuan, Li Yumin

“…Objective This study employs bioinformatics methods to analyze the expression of Claudin 1 (CLDN1) across various types of cancer and its functional role in gastric cancer. Methods The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GTEx) databases were used to evaluate the expression patterns of CLDN1 in various cancer types and their association with clinical pathology, patient prognosis, and immune characteristics. …”
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Multiple programmed cell death patterns predict the prognosis and drug sensitivity in gastric cancer by Qiying Song, Shihe Liu, Di Wu, Aizhen Cai

“…The diverse patterns of programmed cell death (PCD) are significantly associated with the pathogenesis and progression of GC, and it has the potential to serve as prognostic and drug sensitivity indicators for GC.MethodThe sequencing data and clinical characteristics of GC patients were downloaded from The Cancer Genome Atlas and GEO databases. LASSO cox regression method was used to screen feature genes and develop the PCD score (PCDS). …”
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The Role of the Key Differentially Mutated Gene FGFR3 in the Immune Microenvironment of Bladder Cancer by Jun Jiang, Yan Zhan, Jun Li

“…In this work, we downloaded the RNA-seq expression profiles and somatic mutation data of 433 bladder cancer cases from The Cancer Genome Atlas (TCGA) and then employed a comprehensive bioinformatics approach to evaluate them. …”
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Identification of Molecular Subtypes and Prognostic Features of Breast Cancer Based on TGF-β Signaling-related Genes by Jia Qu, Mei-Huan Wang, Yue-Hua Gao, Hua-Wei Zhang

“…However, the specific role of TGF-β in prognostic assessment and treatment strategies for breast cancer (BC) remains unclear. Methods: The Cancer Genome Atlas (TCGA) database was utilized to develop a predictive model incorporating five TGF-β signaling-related genes (TSRGs). …”
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Key Roles of p53 Signaling Pathway-Related Factors GADD45B and SERPINE1 in the Occurrence and Development of Gastric Cancer by Yaoqing Li, Liyijing Shen, Kelong Tao, Guangen Xu, Kewei Ji

“…We tried to identify the key factors of the p53 signaling pathway involved in gastric cancer (GC) occurrence and development based on the genotype-tissue expression (GTEx) and the Cancer Genome Atlas (TCGA) screening. We downloaded gene expression data and clinical data of GC included in the GTEx and TCGA databases, followed by differential analysis. …”
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Treatment of Cancer Gene Changes in Chronic Myeloid Leukemia by Big Data Analysis Platform-Based Dasatinib by Linlin Song, Qi Li, Hui Shi, Pengxia Zhang

“…Messenger ribonucleic acid (mRNA) datasets of CML patients were selected from cancer genomic map, including 120 samples and 20,614 mRNA in total. …”
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lncRNA ZFAS1 Promotes HMGCR mRNA Stabilization via Binding U2AF2 to Modulate Pancreatic Carcinoma Lipometabolism by Luoluo Wang, Yi Ruan, Xiang Wu, Xinhua Zhou

“…ZFAS1 expression in PC and normal counterparts retrieved from the Genotype-Tissue Expression (GTEx) project and The Cancer Genome Atlas (TCGA) database was analysed by GEPIA2. …”
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OSM May Serve as a Biomarker of Poor Prognosis in Clear Cell Renal Cell Carcinoma and Promote Tumor Cell Invasion and Migration by Shuzhang Wei, Yin Chen, Xiaokai Shi, Li Zuo, Lifeng Zhang

“…In this study, we used The Cancer Genome Atlas (TCGA) database to evaluate OSM expression characteristics, pathogenic factor distribution, and prognostic aspects in ccRCC. …”
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Unlocking prognostic potential: A genomic signature of caloric restriction in patients with epithelial ovarian cancer. by Ori Tal, Tamar Zahavi, Liat Anabel Sinberger, Mali Salmon-Divon

“…Based on the gene expression of these proteins, we calculated a Non-Fasting Genomic Signature score for each ovarian cancer sample sourced from the Cancer Genome Atlas (TCGA) database. Subsequently, we examined the association between this genomic profile and various clinical characteristics.…”
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Investigating the Prognostic and Oncogenic Roles of Membrane-Associated Ring-CH-Type Finger 9 in Colorectal Cancer by Jiayan Zhang, Qinghan Jiao, Zhigang Chen

“…We leveraged data from the Cancer Genome Atlas (TCGA) cohort to evaluate MARCHF9 expression profiles in CRC. …”
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