Relationship between chromosomal aberrations and gene expressions in the p53 pathway in chronic lymphocytic leukemia

Öztan, Güven; Aktan, Melih; Palandüz, Şükrü; İşsever, Halim; Öztürk, Şükrü; Nikerel, Emrah; Ucur, Ali; Bagatir, G; Bayrak, Ayşegül; Çefle, Kıvanç

doi:10.2478/bjmg-2020-0007

Cited by 2 publications

(2 citation statements)

References 25 publications

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“…In addition, p53 is also involved in various processes, including the regulation of growth factors and reactive oxygen species, which have an impact on cancer pathogenesis (16). Disturbances in the p53 pathway play a more active role in some hematological cancers like chronic lymphoblastic leukemia (CLL) and multiple myeloma (17,18). Hematological cancers are malignancies of BM-derived cells.…”

Section: Discussionmentioning

confidence: 99%

Comparison of Gene Expression Levels in the p53 Pathway in Blood and Bone Marrow of Healthy Individuals

Dağlar Aday,

Öztan,

Suer

2023

experimed

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Objective: A bone marrow (BM) sample is largely used in the diagnosis and prognosis follow-up of many hematological malignancies. BM aspiration is a more risky and laborious technique compared to blood collection. Together with publications in which the expression levels in BM and peripheral blood (PB) are correlated for many genes, there are also conflicting publications. This may also be due to the physiological and disease state. In this study, we aimed to compare the BM and PB expression levels of genes in the p53 pathway in healthy individuals. Materials and Methods:The study comprised 23 healthy individuals. The expressions of 22 genes in the p53 pathway were analyzed using the RT 2 -profiler polymerase chain reaction (PCR) array. The expression levels were normalized to the reference gene β-actin. Then the mRNA expression levels between PB and BM sample groups were compared. Results:The expression levels of the 20 genes studied were similar between the two groups. Only GADD45 and PTX3 genes were differentially expressed between PB and BM sample groups (p=0.003 and p=0.033, respectively) and those two gene expression levels were strongly correlated (r=0.886, p<0.0001). Conclusion:When the expressions of 20 genes other than the GADD45 and PTX3 in our panel were evaluated, we suggest that PB largely reflects the p53 pathway gene expression levels in the BM. Therefore, PB may be preferred as an alternative to invasive BM in the analysis of these 20 genes in patients with hematological malignancies.

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Section: Discussionmentioning

confidence: 99%

Comparison of Gene Expression Levels in the p53 Pathway in Blood and Bone Marrow of Healthy Individuals

Dağlar Aday,

Öztan,

Suer

2023

experimed

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“…Genome studies have been conducted to explore the transcriptome changes in CLL, offering a novel method for potential markers and therapeutic targets [ 20 , 21 ]. For instance, the PTX3 gene was considered a marker associated with CLL disease [ 22 ]. Moreover, the oncogene MSI2 was identified as a differential prediagnostic marker and potential therapeutic target of CLL [ 23 ].…”

Section: Introductionmentioning

confidence: 99%

Identification of Six Diagnostic Biomarkers for Chronic Lymphocytic Leukemia Based on Machine Learning Algorithms

Zhu

Xin-jin

Qin

et al. 2022

Journal of Oncology

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Background. Chronic lymphocytic leukemia (CLL) is the most common type of leukemia in adults. Thus, novel reliable biomarkers need to be further explored to increase diagnostic, therapeutic, and prognostic effectiveness. Methods. Six datasets containing CLL and control samples were downloaded from the Gene Expression Omnibus database. Differential gene expression analysis, weighted gene coexpression network analysis (WGCNA), and the least absolute shrinkage and selection operator (LASSO) regression were applied to identify potential diagnostic biomarkers for CLL using R software. The diagnostic performance of the hub genes was then measured by the receiver operating characteristic (ROC) curve analysis. Functional analysis was implemented to uncover the underlying mechanisms. Additionally, correlation analysis was performed to assess the relationship between the hub genes and immunity characteristics. Results. A total number of 47 differentially expressed genes (DEGs) and 25 candidate hub genes were extracted through differential gene expression analysis and WGCNA, respectively. Based on the 14 overlapped genes between the DEGs and the candidate hub genes, LASSO regression analysis was used, which identified a final number of six hub genes as potential biomarkers for CLL: ABCA6, CCDC88A, PMEPA1, EBF1, FILIP1L, and TEAD2. The ROC curves of the six genes showed reliable predictive ability in the training and validation cohorts, with all area under the curve (AUC) values over 0.80. Functional analysis revealed an abnormal immune status in the CLL patients. A significant correlation was found between the hub genes and the immune-related pathways, indicating a possible tight connection between the hub genes and tumor immunity in CLL. Conclusion. This study was based on machine learning algorithms, and we identified six genes that could be possible CLL markers, which may be involved in CLL pathogenesis and progression through immune-related signal pathways.

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Relationship between chromosomal aberrations and gene expressions in the p53 pathway in chronic lymphocytic leukemia

Cited by 2 publications

References 25 publications

Comparison of Gene Expression Levels in the p53 Pathway in Blood and Bone Marrow of Healthy Individuals

Comparison of Gene Expression Levels in the p53 Pathway in Blood and Bone Marrow of Healthy Individuals

Identification of Six Diagnostic Biomarkers for Chronic Lymphocytic Leukemia Based on Machine Learning Algorithms

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