NOS2 as a prognostic biomarker for early-onset colorectal cancer based on public data and clinical validation analysis by Chaoqun Xing, Lipeng Zhao, Weiwei Zou, Xie Peng, Xiao-Liang Xing, Jie Li

“…EOCRC from The Cancer Genome Atlas Program (TCGA) database and Gene Expression Mapping (GEO) database were used to screen biomarkers for prognosis and treatment guidance. …”
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Stem cell status and prognostic applications of cuproptosis-associated lncRNAs in acute myeloid leukemia by Zhuodong Chai, Zhongyue Yuan, Yifei Chen

“…Additionally, we developed a prognostic model—the cuproptosis-associated long noncoding RNA prognostic model (CRLPM)—y analyzing data from The Cancer Genome Atlas (TCGA). Patients were stratified into high- and low-risk groups based on CRLPM, revealing significant survival differences. …”
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The homeobox family gene signature predicts the prognosis of osteosarcoma and correlates with immune invasion by Wenda Liu, Kezhou Xia, Xinghan Huang, Zhun Wei, Zicheng Wei, Weichun Guo

“…Data from osteosarcoma patients in The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) cohorts were collected. …”
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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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Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module by Jae-Woong Min, Sun Shim Choi

“…RNA sequencing-based transcriptome data derived from 22 cancers, except LADC, were downloaded from The Cancer Genome Atlas (TCGA). Interestingly, the 22 cancers also expressed the G64 genes in a correlated manner, as observed previously in an LADC study. …”
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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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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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Identification of ferroptosis-related signature predicting prognosis and therapeutic responses in pancreatic cancer by Ting Ting Chung, Zanyue Piao, Seung Jin Lee

“…In this study, we developed a prognostic ferroptosis-related gene (FRG)-based risk model using cohorts of The Cancer Genome Atlas (TCGA) and the International Cancer Genome Consortium (ICGC), proposing plausible therapeutics. …”
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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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Impact of frequent ARID1A mutations on protein stability provides insights into cancer pathogenesis by Rajen K. Goutam, Gangtong Huang, Exequiel Medina, Feng Ding, William J. Edenfield, Hugo Sanabria

“…We analyzed five frequent missense mutations R1020S, M1022K, K1047Q, G1063V, and A1089T identified in The Cancer Genome Atlas (TCGA) to assess their effects on the stability of the ARID domain using a hybrid experimental and computational approach. …”
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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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The zinc finger protein560(ZNF560) functions as a novel oncogenic gene in osteosarcoma by Xiong Dong, Guanhua Xu, Hongxiang Hong, Jinlong Zhang, Zhiming Cui, ZiLiang Yu

“…Results: By analyzing data from both the GEO and the Cancer Genome Atlas (TCGA) databases, increased expression of ZNF560 in OS tissues was verified, which was significantly associated with poorer outcomes in osteosarcoma patients both in TCGA-SARC and our own OS cohorts. …”
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KYNU as a Biomarker of Tumor-Associated Macrophages and Correlates with Immunosuppressive Microenvironment and Poor Prognosis in Gastric Cancer by Kaiyu Shen, Binyu Chen, Liu Yang, Wencang Gao

“…GC-associated single-cell RNA sequencing and bulk RNA sequencing (bulk-seq) data were obtained from the Gene Expression Omnibus and The Cancer Genome Atlas databases, respectively. The differential expression of KYNU between GC and normal gastric tissues was first analyzed based on the bulk-seq data, followed by an exploration of the relationship between KYNU and various clinicopathological features. …”
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The Potential Dual Role of H2.0-like Homeobox in the Tumorgenesis and Development of Colorectal Cancer and Its Prognostic Value by Shuo Chen, Lin Zhang, Kai Wang, Jizhen Huo, Siqi Zhang, Xipeng Zhang

“…In this study, the data were collected from The Cancer Genome Atlas and Gene Expression Omnibus databases. …”
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Integration of single-cell and bulk RNA-sequencing data to construct and validate a signature based on NK cell marker genes to predict immunotherapy response and prognosis in color... by Xiaoyu Qin, Wenjuan Xu, Jinxiu Wu, Ming Li

“…We integrated scRNA-seq data from four Gene Expression Omnibus (GEO) samples and performed Weighted gene correlation network analysis (WGCNA) based on 587 the Cancer Genome Atlas (TCGA) colorectal cancer samples to uncover NK cell-related genes. …”
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Transmembrane and Ubiquitin-Like Domain-Containing 1 Promotes Glioma Growth and Indicates Unfavorable Prognosis by Yinggang Liu, Changcheng Cai, Ke Wu, Libo Hu

“…We conducted a comprehensive analysis using two cohorts: a retrospective glioma cohort from our hospital and The Cancer Genome Atlas (TCGA) cohort. The mRNA levels of TMUB1 were assessed through reverse transcription-quantitative polymerase chain reaction (RT-qPCR). …”
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