JIAN TANG¹, CHENQIANG ZHU¹, YUN CHEN¹, YUNLONG WU¹, MING HE¹, YI ZHOU², MINGHUA XIE^2,*

BIOCELL, Vol.48, No.4, pp. 639-651, 2024, DOI:10.32604/biocell.2024.047562

Abstract Background: The specific impact of sphingolipid metabolism on developing hepatocellular Carcinoma (HCC) remains unclear. This study aims to explore the relationship between sphingolipid metabolism and HCC prognosis, immune response, and drug sensitivity. Methods: Data were obtained from The Cancer Genome Atlas (TCGA)-Hepatocellular Carcinoma (LIHC) and Gene Expression Omnibus (GEO, GSE14520 datasets). 47 sphingolipid metabolism genes were obtained from the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. After classifying HCC samples using the Non-negative Matrix Factorization (NMF) clustering method, differentially expressed genes were screened. Then, 8 risk genes were obtained by univariate analysis, survival random forest reduction and lasso analysis.… More > Graphic Abstract

XIAOFENG GAO^1,2,3,4, JUANJUAN GE³, XUZHENG GAO^1,3, NA MEI^1,3, YANTING SU³, SHIGANG SHAN³, WENBIN QIAN³, JIANGHENG GUAN⁵, ZHENWANG ZHANG^1,3,*, LONG WANG^2,3,4,*

Oncology Research, Vol.32, No.4, pp. 659-678, 2024, DOI:10.32604/or.2023.046712

Abstract Background: IQGAP3 plays a crucial role in regulating cell proliferation, division, and cytoskeletal organization. Abnormal expression of IQGAP3 has been linked to various tumors, but its function in glioma is not well understood. Methods: Various methods, including genetic differential analysis, single-cell analysis, ROC curve analysis, Cox regression, Kaplan-Meier analysis, and enrichment analysis, were employed to analyze the expression patterns, diagnostic potential, prognostic implications, and biological processes involving IQGAP3 in normal and tumor tissues. The impact of IQGAP3 on immune infiltration and the immune microenvironment in gliomas was evaluated using immunofluorescence. Additionally, the cBioPortal database was used to analyze copy number… More > Graphic Abstract

QIAN HU, MENGYAO WANG, JINJIN WANG, YALI TAO, TING NIU^*

Oncology Research, Vol.32, No.4, pp. 753-768, 2024, DOI:10.32604/or.2023.043647

Abstract Multiple myeloma (MM) is a hematologic malignancy notorious for its high relapse rate and development of drug resistance, in which cell adhesion-mediated drug resistance plays a critical role. This study integrated four RNA sequencing datasets (CoMMpass, GSE136337, GSE9782, and GSE2658) and focused on analyzing 1706 adhesion-related genes. Rigorous univariate Cox regression analysis identified 18 key prognosis-related genes, including KIF14, TROAP, FLNA, MSN, LGALS1, PECAM1, and ALCAM, which demonstrated the strongest associations with poor overall survival (OS) in MM patients. To comprehensively evaluate the impact of cell adhesion on MM prognosis, an adhesion-related risk score (ARRS) model was constructed using Lasso… More >

JUN LIU^1,2,3,#, WENLI LI³, RUYUE LU^1,2, JIAQING XU^1,2, CHUNHUI JIANG⁴, JUNLIN DUAN³, LINGZHI ZHANG^1,#,*, GUANFU WANG¹, JIAXI CHEN^1,2,#,*

Oncology Research, Vol.32, No.4, pp. 717-726, 2024, DOI:10.32604/or.2023.043575

Abstract The long non-coding RNA, Negative Regulator of Antiviral Response (NRAV) has been identified as a participant in both respiratory virus replication and immune checkpoints, however, its involvement in pan-cancer immune regulation and prognosis, particularly those of hepatocellular carcinoma (HCC), remains unclear. To address this knowledge gap, we analyzed expression profiles obtained from The Cancer Genome Atlas (TCGA) database, comparing normal and malignant tumor tissues. We found that NRAV expression is significantly upregulated in tumor tissues compared to adjacent nontumor tissues. Kaplan-Meier (K-M) analysis revealed the prognostic power of NRAV, wherein overexpression was significantly linked to reduced overall survival in a… More >

GUOQIANG HOU^1,2,#, XINHANG XU^2,#, WEIXING HU^1,*

Oncology Research, Vol.32, No.4, pp. 727-736, 2024, DOI:10.32604/or.2023.043391

Abstract Primary tumors of the central nervous system (CNS) are classified into over 100 different histological types. The most common type of glioma is derived from astrocytes, and the most invasive glioblastoma (WHO IV) accounts for over 57% of these tumors. Glioblastoma (GBM) is the most common and fatal tumor of the CNS, with strong growth and invasion capabilities, which makes complete surgical resection almost impossible. Despite various treatment methods such as surgery, radiotherapy, and chemotherapy, glioma is still an incurable disease, and the median survival time of patients with GBM is shorter than 15 months. Thus, molecular mechanisms of GBM… More >

LU ZHANG^*, JINGUO CHU^*, YUSHAN YU

Oncology Research, Vol.32, No.4, pp. 703-716, 2024, DOI:10.32604/or.2023.030988

Abstract Background: Limited research has been conducted on the influence of autophagy-associated long non-coding RNAs (ARLncRNAs) on the prognosis of hepatocellular carcinoma (HCC). Methods: We analyzed 371 HCC samples from TCGA, identifying expression networks of ARLncRNAs using autophagy-related genes. Screening for prognostically relevant ARLncRNAs involved univariate Cox regression, Lasso regression, and multivariate Cox regression. A Nomogram was further employed to assess the reliability of Riskscore, calculated from the signatures of screened ARLncRNAs, in predicting outcomes. Additionally, we compared drug sensitivities in patient groups with differing risk levels and investigated potential biological pathways through enrichment analysis, using consensus clustering to identify subgroups… More >

YANAN MA¹, SHANSHAN WANG^2,*, HUIGUO DING^1,*

BIOCELL, Vol.48, No.3, pp. 463-471, 2024, DOI:10.32604/biocell.2024.048244

Abstract Background: Hepatocellular carcinoma (HCC) is a common malignant tumor with poor prognosis and high mortality worldwide. Although cystathionine-gamma-lyase (CSE) plays an important role in the development of multiple tumors, the clinical implication and potential mechanisms of CSE in HCC development remain elusive. Methods: In our study, the CSE expression in HCC was analyzed in Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) datasets and further confirmed by RT-qPCR and immunohistochemistry assays in HCC samples. Furthermore, the associations between CSE expression and HCC malignancy as well as survival were analyzed in GSE14520 and validated in HCC patients. Finally, the… More >

DAIXIN ZHAO¹, QINGYU WANG², JIANBO WANG^1,*

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 >

QI XIA¹, XING CHEN², QINGHUA MA³, XIANXIU WEN^2,*

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 >

JIECHUAN QIU¹, TIANMIN YANG¹, YANNING SUN², KAI SUN², YINGKUN XU³, QINGHUA XIA^1,*

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 >