Prognostic and Predictive Value of Transcription Factors Panel for Digestive System Carcinoma

Fang, Guoxu; Fan, Jianhui; Ding, Zongren; Li, Rong; Lin, Kongying; Fu, Jun; Huang, Qizhen; Zeng, Yongyi; Liu, Jingfeng

doi:10.3389/fonc.2021.670129

Cited by 11 publications

(5 citation statements)

References 36 publications

(38 reference statements)

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“…1A–C ). It has been reported that 17 genes play a key role in digestive system tumors, of which three are in the FOX family (FOXD1, FOXM1, and FOXQ1) [ 19 ]. We explored the expression of these three FOX family members in the sorafenib-resistant cells.…”

Section: Resultsmentioning

confidence: 99%

Phosphorylated FOXQ1, a novel substrate of JNK1, inhibits sorafenib-induced ferroptosis by activating ETHE1 in hepatocellular carcinoma

Liu,

Shao,

Yang

et al. 2024

Cell Death Dis

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Hepatocellular carcinoma (HCC) is a highly heterogeneous and malignant cancer with poor overall survival. The application of sorafenib is a major breakthrough in the treatment of HCC. In our study, FOXQ1 was significantly overexpressed in sorafenib-resistant HCC cells and suppressed sorafenib-induced ferroptosis. We found that phosphorylation of FOXQ1 at serine 248 is critical for the suppression of sorafenib-induced ferroptosis. Furthermore, as the upstream phosphorylation kinase of FOXQ1, JNK1, which is activated by sorafenib, can directly phosphorylate the serine 248 site of FOXQ1. Then, the phosphorylated FOXQ1 got a high affinity for the promoter of ETHE1 and activates its transcription. Further flow cytometry results showed that ETHE1 reduced intracellular lipid peroxidation and iron levels. Collectively, our study implicated the JNK1-FOXQ1-ETHE1 axis in HCC ferroptosis induced by sorafenib, providing mechanistic insight into sensitivity to sorafenib therapy of HCC.

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Section: Resultsmentioning

confidence: 99%

Phosphorylated FOXQ1, a novel substrate of JNK1, inhibits sorafenib-induced ferroptosis by activating ETHE1 in hepatocellular carcinoma

Liu,

Shao,

Yang

et al. 2024

Cell Death Dis

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“…According to previous studies, the genes of the CREB family behave differently, most of which have a tumor-suppressing nature like the gene CREB3L3 , which is identified as a low-risk gene having high expression in the case of bladder cancer ( 28 ). It was also found that high expression of CREB3L3 helps in the bad prognosis of gastric cancer ( 29 ). It might be possible that this gene, being a low-risk gene, prevents KIRC progression.…”

Section: Discussionmentioning

confidence: 99%

Bioinformatics-driven identification of prognostic biomarkers in kidney renal clear cell carcinoma

Verma,

Puri,

Puri

2024

Front. Nephrol.

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Renal cell carcinoma (RCC), particularly the clear cell subtype (ccRCC), poses a significant global health concern due to its increasing prevalence and resistance to conventional therapies. Early detection of ccRCC remains challenging, resulting in poor patient survival rates. In this study, we employed a bioinformatic approach to identify potential prognostic biomarkers for kidney renal clear cell carcinoma (KIRC). By analyzing RNA sequencing data from the TCGA-KIRC project, differentially expressed genes (DEGs) associated with ccRCC were identified. Pathway analysis utilizing the Qiagen Ingenuity Pathway Analysis (IPA) tool elucidated key pathways and genes involved in ccRCC dysregulation. Prognostic value assessment was conducted through survival analysis, including Cox univariate proportional hazards (PH) modeling and Kaplan–Meier plotting. This analysis unveiled several promising biomarkers, such as MMP9, PIK3R6, IFNG, and PGF, exhibiting significant associations with overall survival and relapse-free survival in ccRCC patients. Cox multivariate PH analysis, considering gene expression and age at diagnosis, further confirmed the prognostic potential of MMP9, IFNG, and PGF genes. These findings enhance our understanding of ccRCC and provide valuable insights into potential prognostic biomarkers that can aid healthcare professionals in risk stratification and treatment decision-making. The study also establishes a foundation for future research, validation, and clinical translation of the identified prognostic biomarkers, paving the way for personalized approaches in the management of KIRC.

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“…Dewaele et al illustrated that EWSR1-CREB3L3 gene fusion is associated with a mesenteric sclerosing epithelioid fbrosarcoma [48]. In GC, CREB3L3 is related to the OS derived from univariate and multivariate Cox regression analysis and is highly expressed in cancer tissues [49]. In a word, the four biomarkers can afect the occurrence and development of cancer in various degrees, including GC, and the guiding signifcance is great to analyze the relationship between the prognosis model and the survival of GC patients.…”

Section: Discussionmentioning

confidence: 99%

Identification and Validation of a m5C RNA Modification-Related Gene Signature for Predicting Prognosis and Immunotherapeutic Efficiency of Gastric Cancer

Song

Wang

et al. 2023

Journal of Oncology

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Background. 5-methylcytosine (m5C) is a major site of RNA methylation modification, and its abnormal modification is associated with the development of gastric cancer (GC). This study aimed to explore the value of m5C-related genes on the prognosis of GC patients through bioinformatics. Methods. First, m5C-related genes were obtained by nonnegative matrix factorization (NMF) analysis and differentially expressed analysis. The m5C-related model was established and validated in distinct datasets. Moreover, a differential analysis of risk scores according to clinical characteristics was performed. The enrichment analysis was carried out to elucidate the underlying molecular mechanisms. Furthermore, we calculated the differences in immunotherapy and chemotherapy sensitivity between the high- and low-risk groups. Finally, we validated the expression levels of identified model genes by quantitative real-time polymerase chain reaction (qRT-PCR). Results. A total of five m5C-related subtypes of GC patients in the TCGA database were identified. The m5C-related model was constructed based on APOD, ASCL2, MFAP2, and CREB3L3. Functional enrichment revealed that the m5C-related model might involve in the cell cycle and cell adhesion. Moreover, the high-risk group had a higher abundance of stromal and immune cells in malignant tumor tissues and a lower tumor purity than the low-risk group. The patients in the high-risk group were more sensitive to chemotherapy and had better sensitivity to CTLA4 inhibitors. Furthermore, qRT-PCR results from our specimens verified an over-expression of ASCL2, CREB3L3, and MFAP2 in the cancer cells compared with the normal cells. Conclusion. A total of five GC subtypes were identified, and a risk model was constructed based on m5C modification.

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Prognostic and Predictive Value of Transcription Factors Panel for Digestive System Carcinoma

Cited by 11 publications

References 36 publications

Phosphorylated FOXQ1, a novel substrate of JNK1, inhibits sorafenib-induced ferroptosis by activating ETHE1 in hepatocellular carcinoma

Phosphorylated FOXQ1, a novel substrate of JNK1, inhibits sorafenib-induced ferroptosis by activating ETHE1 in hepatocellular carcinoma

Bioinformatics-driven identification of prognostic biomarkers in kidney renal clear cell carcinoma

Identification and Validation of a m5C RNA Modification-Related Gene Signature for Predicting Prognosis and Immunotherapeutic Efficiency of Gastric Cancer

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