Identification and validation of hub genes in CD5-positive diffuse large B-cell lymphoma

Yang, Ming; Niu, Xingjian; Yang, Xudong; Sun, Yi; Su, Wen; Zhang, Jing; Wu, Qianjiang; Zhang, Qingyuan; Ji, Hongfei

doi:10.1177/15353702231151987

Cited by 2 publications

(1 citation statement)

References 38 publications

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“…After screening of differentially expressed genes and construction of PPI network, MCODE provides an e cient way to narrow down the number of functional module clusters containing potential key hub genes [9]. This method has been used in liver cancer [11], lymphoma [12] and glioma [13] and other studies. Four main clusters of proteins were outlined in hPASCs and each carried out unique molecular functions.…”

Section: Discussionmentioning

confidence: 99%

Transcriptional Profiling of Pituitary Adenoma Stem Cells: Unveiling the Pivotal Role of CXCR4 in Tumorigenesis and Clinical Applications

Yuan,

Li,

Sui

et al. 2023

Preprint

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Background Growth hormone-secreting pituitary adenoma (GHPA) is characterized by excessive growth hormone production and leads to clinical manifestations like acromegaly. The molecular intricacies underpinning the tumorigenesis of this neoplasm remain largely elusive, with tumor stem cells postulated to play a significant role. Method Human pituitary adenoma stem cells (hPASCs) were extracted and cultured from eight GHPA clinical samples. RNA-sequencing was performed to discern genetic disparities between hPASCs and matched bulk tumor samples. Primary clusters of protein-protein interaction network were mapped using MCODE plugin in Cytoscape. The functional role of CXCR4 was assessed by both siRNA and antagonist AMD3465 in GH3 cells or primary hPASCs. Seven GHPA patients received PET/CT scan using CXCR4-based tracer 68Ga-pentixafor. Results HPASC culture was established and verified. A total of 685 differentially expressed genes were identified between hPASC and bulk tumor samples. Four primary protein-protein interaction network clusters were predicted, each demonstrating distinct biological functions. CXCR4 knockdown significantly attenuated GH3 cell proliferation and the hormone production. CXCR4 antagonist AMD3465 markedly reduced cell proliferation during differentiation of hPASCs. PET/CT imaging showed 68Ga-pentixafor can be a superior tracer in the detection of GHPA in the patients. Conclusion This study delivers a comprehensive genetic profiling of hPASCs and substantiates the critical role of CXCR4 in tumorigenesis, highlighting its considerable diagnostic potential in the translational research.

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Section: Discussionmentioning

confidence: 99%

Transcriptional Profiling of Pituitary Adenoma Stem Cells: Unveiling the Pivotal Role of CXCR4 in Tumorigenesis and Clinical Applications

Yuan,

Li,

Sui

et al. 2023

Preprint

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Programmed Cell Death-Related Gene Signature Associated with Prognosis and Immune Infiltration and the Roles of HMOX1 in the Proliferation and Apoptosis were Investigated in Uveal Melanoma

Zhao,

Wang,

et al. 2024

Genes Genom

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Background Uveal melanoma (UVM) is the most common primary ocular malignancy, with a wide range of symptoms and outcomes. The programmed cell death (PCD) plays an important role in tumor development, diagnosis, and prognosis. There is still no research on the relationship between PCD-related genes and UVM. A novel PCD-associated prognostic model is urgently needed to improve treatment strategies. Objective We aim to screen PCD-related prognostic signature and investigate its proliferation ability and apoptosis in UVM cells. Methods The clinical information and RNA-seq data of the UVM patients were collected from the TCGA cohort. All the patients were classified using consensus clustering by the selected PCD-related genes. After univariate Cox regression and PPI network analysis, the prognostic PCD-related genes were then submitted to the LASSO regression analysis to build a prognostic model. The level of immune infiltration of 8-PCD signature in high- and low-risk patients was analyzed using xCell. The prediction on chemotherapy and immunotherapy response in UVM patients was assessed by GDSC and TIDE algorithm. CCK-8, western blot and Annexin V-FITC/PI staining were used to explore the roles of HMOX1 in UVM cells. Results A total of 8-PCD signature was constructed and the risk score of the PCD signature was negatively correlated with the overall survival, indicating strong predictive ability and independent prognostic value. The risk score was positively correlated with CD8 Tcm, CD8 Tem and Th2 cells. Immune cells in high-risk group had poorer overall survival. The drug sensitivity demonstrated that cisplatin might impact the progression of UVM and better immunotherapy responsiveness in the high-risk group. Finally, Overespression HMOX1 (OE-HMOX1) decreased the cell viability and induced apoptosis in UVM cells. Recuse experiment results showed that ferrostatin-1 (fer-1) protected MP65 cells from apoptosis and necrosis caused by OE-HMOX1. Conclusion The PCD signature may have a significant role in the tumor microenvironment, clinicopathological characteristics, prognosis and drug sensitivity. More importantly, HMOX1 depletion greatly induced tumor cell growth and inhibited cell apoptosis and fer-1 protected UVM cells from apoptosis and necrosis induced by OE-HMOX1. This work provides a foundation for effective therapeutic strategy in tumour treatment.

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Identification and validation of hub genes in CD5-positive diffuse large B-cell lymphoma

Cited by 2 publications

References 38 publications

Transcriptional Profiling of Pituitary Adenoma Stem Cells: Unveiling the Pivotal Role of CXCR4 in Tumorigenesis and Clinical Applications

Transcriptional Profiling of Pituitary Adenoma Stem Cells: Unveiling the Pivotal Role of CXCR4 in Tumorigenesis and Clinical Applications

Programmed Cell Death-Related Gene Signature Associated with Prognosis and Immune Infiltration and the Roles of HMOX1 in the Proliferation and Apoptosis were Investigated in Uveal Melanoma

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