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  • Open Access

    ARTICLE

    Mitochondrial autophagy gene signature predicts prognosis and response to immunity in esophageal cancer

    DAIXIN ZHAO1, QINGYU WANG2, JIANBO WANG1,*

    BIOCELL, Vol.48, No.2, pp. 271-281, 2024, DOI:10.32604/biocell.2023.029094

    Abstract Background: Esophageal cancer (ESCA) is a common digestive tract tumor. As a result, optimization of the early diagnosis of ESCA and identifying the contributing prognostic genes is urgently required. Herein, the prognosis of mitochondrial autophagy-related genes was analyzed in different subtypes of ESCA, and prognostic models were constructed to identify the immune cell infiltration with significant differences between subtypes. Methods: The Cancer Genome Atlas database was searched to download 185 ESCA samples, covering gene expression level data and clinical follow-up data, and 179 samples from the Gene Expression Omnibus database for subsequent validation analysis. The consensus Cluster Plus analysis method… More >

  • Open Access

    ARTICLE

    M2 macrophages predicted the prognosis of breast cancer by combing a novel immune cell signature and promoted cell migration and invasion of cancer cells in vitro

    QI XIA1, XING CHEN2, QINGHUA MA3, XIANXIU WEN2,*

    BIOCELL, Vol.48, No.2, pp. 217-228, 2024, DOI:10.32604/biocell.2023.027414

    Abstract Background: Breast cancer (BC) is the most common cancer and the leading cause of cancer death in women. Immune features play an important role in improving the prognosis prediction of BC. However, while previous immune signatures consisted mainly of immune genes, immune cell-based signatures have been rarely reported. Methods: In this study, we report that a novel immune cell signature is effective in improving prognostic prediction by combining M2 macrophages. We identified 17 differentially infiltrating immune cells between cancer and normal groups. Prognostic features of the four immune cells identified by LASSO COX analysis showed good performance for survival risk… More >

  • Open Access

    ARTICLE

    Low expression of fatty acid oxidation related gene ACADM indicates poor prognosis of renal clear cell carcinoma and is related to tumor immune infiltration

    JIECHUAN QIU1, TIANMIN YANG1, YANNING SUN2, KAI SUN2, YINGKUN XU3, QINGHUA XIA1,*

    Oncology Research, Vol.32, No.3, pp. 545-561, 2024, DOI:10.32604/or.2023.030462

    Abstract This research aims to identify the key fatty acid beta-oxidation (FAO) genes that are altered in kidney renal clear cell carcinoma (KIRC) and to analyze the role of these genes in KIRC. The Gene Expression Omnibus (GEO) and FAO datasets were used to identify these key genes. Wilcoxon rank sum test was used to assess the levels of acyl-CoA dehydrogenase medium chain (ACADM) between KIRC and non-cancer samples. The logistic regression and Wilcoxon rank sum test were used to explore the association between ACADM and clinical features. The diagnostic performance of ACADM for KIRC was assessed using a diagnostic receiver… More >

  • Open Access

    ARTICLE

    MicroRNA (let-7b-5p)-targeted DARS2 regulates lung adenocarcinoma growth by PI3K/AKT signaling pathway

    YUANYUAN XU, XIAOKE CHEN*

    Oncology Research, Vol.32, No.3, pp. 517-528, 2024, DOI:10.32604/or.2023.030293

    Abstract Background: The aberrant intracellular expression of a mitochondrial aspartyl-tRNA synthetase 2 (DARS2) has been reported in human cancers. Nevertheless, its critical role and detailed mechanism in lung adenocarcinoma (LUAD) remain unexplored. Methods: Initially, The Cancer Genome Atlas (TCGA)-based Gene Expression Profiling Interactive Analysis (GEPIA) database () was used to analyze the prognostic relevance of DARS2 expression in LUAD. Further, cell counting kit (CCK)-8, immunostaining, and transwell invasion assays in LUAD cell lines in vitro, as well as DARS2 silence on LUAD by tumorigenicity experiments in vivo in nude mice, were performed. Besides, we analyzed the expression levels of p-PI3K (phosphorylated-Phosphotylinosital3… More >

  • Open Access

    ARTICLE

    Glycogen metabolism-mediated intercellular communication in the tumor microenvironment influences liver cancer prognosis

    YANG ZHANG1,2,#, NANNAN QIN5,#, XIJUN WANG6,#, RUI LIANG7, QUAN LIU4, RUOYI GENG8, TIANXIAO JIANG8, YUNFEI LIU8,*, JINWEI LI3,4,*

    Oncology Research, Vol.32, No.3, pp. 563-576, 2024, DOI:10.32604/or.2023.029697

    Abstract Glycogen metabolism plays a key role in the development of hepatocellular carcinoma (HCC), but the function of glycogen metabolism genes in the tumor microenvironment (TME) is still to be elucidated. Single-cell RNA-seq data were obtained from ten HCC tumor samples totaling 64,545 cells, and 65 glycogen metabolism genes were analyzed by a nonnegative matrix factorization (NMF). The prognosis and immune response of new glycogen TME cell clusters were predicted by using HCC and immunotherapy cohorts from public databases. HCC single-cell analysis was divided into fibroblasts, NT T cells, macrophages, endothelial cells, and B cells, which were separately divided into new… More >

  • Open Access

    REVIEW

    Circular RNAs in breast cancer diagnosis, treatment and prognosis

    XIAOJIA HUANG1,#, CAILU SONG2,#, JINHUI ZHANG2, LEWEI ZHU3,*, HAILIN TANG2,*

    Oncology Research, Vol.32, No.2, pp. 241-249, 2024, DOI:10.32604/or.2023.046582

    Abstract Breast cancer has surpassed lung cancer to become the most common malignancy worldwide. The incidence rate and mortality rate of breast cancer continue to rise, which leads to a great burden on public health. Circular RNAs (circRNAs), a new class of noncoding RNAs (ncRNAs), have been recognized as important oncogenes or suppressors in regulating cancer initiation and progression. In breast cancer, circRNAs have significant roles in tumorigenesis, recurrence and multidrug resistance that are mediated by various mechanisms. Therefore, circRNAs may serve as promising targets of therapeutic strategies for breast cancer management. This study reviews the most recent studies about the… More >

  • Open Access

    ARTICLE

    NAD+ associated genes as potential biomarkers for predicting the prognosis of gastric cancer

    XIANGDONG SUN1,2,#, HUIJUAN WEN1,2,#, FAZHAN LI1,2, IHTISHAM BUKHARI1,2, FEIFEI REN1,2, XIA XUE1,2, PENGYUAN ZHENG1,2,*, YANG MI1,2,*

    Oncology Research, Vol.32, No.2, pp. 283-296, 2024, DOI:10.32604/or.2023.044618

    Abstract Nicotinamide adenine dinucleotide (NAD+) plays an essential role in cellular metabolism, mitochondrial homeostasis, inflammation, and senescence. However, the role of NAD+-regulated genes, including coding and long non-coding genes in cancer development is poorly understood. We constructed a prediction model based on the expression level of NAD+ metabolism-related genes (NMRGs). Furthermore, we validated the expression of NMRGs in gastric cancer (GC) tissues and cell lines; additionally, β-nicotinamide mononucleotide (NMN), a precursor of NAD+, was used to treat the GC cell lines to analyze its effects on the expression level of NMRGs lncRNAs and cellular proliferation, cell cycle, apoptosis, and senescence-associated secretory… More > Graphic Abstract

    NAD+ associated genes as potential biomarkers for predicting the prognosis of gastric cancer

  • Open Access

    ARTICLE

    Polo-like kinase 1 as a biomarker predicts the prognosis and immunotherapy of breast invasive carcinoma patients

    JUAN SHEN1,#, WEIYU ZHANG2,3,#, QINQIN JIN2,3,#, FUYU GONG4,#, HEPING ZHANG5, HONGLIANG XU5, JIEJIE LI2,3, HUI YAO2,3, XIYA JIANG2,3, YINTING YANG2,3, LIN HONG2,3, JIE MEI2,3, YANG SONG6,*, SHUGUANG ZHOU2,3,7,*

    Oncology Research, Vol.32, No.2, pp. 339-351, 2024, DOI:10.32604/or.2023.030887

    Abstract Background: Invasive breast carcinoma (BRCA) is associated with poor prognosis and high risk of mortality. Therefore, it is critical to identify novel biomarkers for the prognostic assessment of BRCA. Methods: The expression data of polo-like kinase 1 (PLK1) in BRCA and the corresponding clinical information were extracted from TCGA and GEO databases. PLK1 expression was validated in diverse breast cancer cell lines by quantitative real-time polymerase chain reaction (qRT-PCR) and western blotting. Single sample gene set enrichment analysis (ssGSEA) was performed to evaluate immune infiltration in the BRCA microenvironment, and the random forest (RF) and support vector machine (SVM) algorithms… More >

  • Open Access

    ARTICLE

    Advancing Brain Tumor Analysis through Dynamic Hierarchical Attention for Improved Segmentation and Survival Prognosis

    S. Kannan1,*, S. Anusuya2

    CMC-Computers, Materials & Continua, Vol.77, No.3, pp. 3835-3851, 2023, DOI:10.32604/cmc.2023.042465

    Abstract Gliomas, the most prevalent primary brain tumors, require accurate segmentation for diagnosis and risk assessment. In this paper, we develop a novel deep learning-based method, the Dynamic Hierarchical Attention for Improved Segmentation and Survival Prognosis (DHA-ISSP) model. The DHA-ISSP model combines a three-band 3D convolutional neural network (CNN) U-Net architecture with dynamic hierarchical attention mechanisms, enabling precise tumor segmentation and survival prediction. The DHA-ISSP model captures fine-grained details and contextual information by leveraging attention mechanisms at multiple levels, enhancing segmentation accuracy. By achieving remarkable results, our approach surpasses 369 competing teams in the 2020 Multimodal Brain Tumor Segmentation Challenge. With… More >

  • Open Access

    ARTICLE

    Identification of an immune classifier for predicting the prognosis and therapeutic response in triple-negative breast cancer

    KUAILU LIN1,2, QIANYU GU2, XIXI LAI2,3,*

    BIOCELL, Vol.47, No.12, pp. 2681-2696, 2023, DOI:10.32604/biocell.2023.043298

    Abstract Objectives: Triple-negative breast cancer (TNBC) poses a significant challenge due to the lack of reliable prognostic gene signatures and an understanding of its immune behavior. Methods: We analyzed clinical information and mRNA expression data from 162 TNBC patients in TCGA-BRCA and 320 patients in METABRIC-BRCA. Utilizing weighted gene coexpression network analysis, we pinpointed 34 TNBC immune genes linked to survival. The least absolute shrinkage and selection operator Cox regression method identified key TNBC immune candidates for prognosis prediction. We calculated chemotherapy sensitivity scores using the “pRRophetic” package in R software and assessed immunotherapy response using the Tumor Immune Dysfunction and… More >

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