Genetic Susceptibility of DCC Gene in Gallbladder Cancer in Kashmir and Meta-Analysis

Malik, Manzoor Ahmad; Malik, Subzar Ahmad; Haq, Malik Gowharul; Bangri, Sadaf Ali; Ahmad, Sarfaraz; Shah, Omar Javed; Shah, Zafar A.

doi:10.1080/01635581.2021.1949728

Cited by 5 publications

(5 citation statements)

References 14 publications

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“…The incidence is very high in American Indians, high in Southeast Asia, but very low in the Americas and other parts of the world. Age, female, congenital biliary tract abnormality and genetic susceptibility are all important and unalterable risk factors [4]. The study found that incidence of gallbladder cancer in women is three to six times higher than men.…”

Section: Introductionmentioning

confidence: 91%

KNTC1 and MCM2 are the molecular targets of gallbladder cancer

Jia

Wang

2023

Aging

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Background: Gallbladder carcinoma is a malignant epithelial tumor of gallbladder with a high degree of malignancy. However, relationship between KNTC1 and MCM2 and gallbladder cancer is unclear. Methods: GSE139682 and GSE202479 were downloaded from gene expression omnibus (GEO). Differentially expressed genes (DEGs) were screened. Functional enrichment analysis and gene set enrichment analysis (GSEA) were performed. Protein-protein interaction (PPI) Network was constructed and analyzed. Gene expression heat map was drawn. Comparative toxicogenomics database (CTD) analysis was performed to find diseases most related to core genes. TargetScan was performed for screening miRNAs that regulated central DEGs. Results: 230 DEGs were identified. According to GObp analysis, they were mainly concentrated in regulation of ossification, regulation of spindle microtubule and centromere attachment, cytoskeleton tissue of cortical actin. According to GOcc analysis, they are mainly concentrated in plasma membrane part, cell junction, plasma membrane region and anterior membrane. According to GOmf analysis, they are mainly enriched in protein homodimerization activity, proximal promoter sequence-specific DNA binding and sulfur compound binding. KEGG showed that target genes were mainly enriched in Hippo signal pathway, p53 signal pathway and cancer pathway. KIFC2, TUBG1, RACGAP1, CHMP4C, SFN and MYH11 were identified as core genes. Gene expression heat map showed that KNTC1, MCM2, CKAP2, RACGAP1, CCNB1 were highly expressed in gallbladder carcinoma samples. CTD analysis showed that KNTC1, MCM2, CKAP2, RACGAP1, CCNB1 were associated with head and neck squamous cell carcinoma, necrosis, inflammation and hepatomegaly. Conclusions: KNTC1 and MCM2 are highly expressed in gallbladder cancer. Higher expression level correlates with worse prognosis.

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Section: Introductionmentioning

confidence: 91%

KNTC1 and MCM2 are the molecular targets of gallbladder cancer

Jia

Wang

2023

Aging

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“…For example, the link between the mapped up gene CDKN2A and the mapped down gene DCC illustrates that both genes can play an important role in breast cancer as part of the same KEGG pathway (i.e., KEGG pathways in cancer). In fact, several studies have shown the relevance of CDKN2A in breast cancer, but only recently, DCC has been associated with an increased risk of various cancers [9].…”

Section: Pathway Analysismentioning

confidence: 99%

“…Such methods are based on penalized regression, statistical boosting, random forest, and, more recently, deep learning, and they have proven their utility in several cancer studies (we refer the reader to [6] for an overview of survival methods using multi-omics data). Additionally, in the last few decades, model prediction data-driven methods have emerged in the context of stochastic processes and particle diffusion models [7][8][9]. These methods aim to increase the accuracy of machine learning and statistical methods applied to experimental data.…”

Section: Introductionmentioning

confidence: 99%

COSMONET: An R Package for Survival Analysis Using Screening-Network Methods

et al. 2021

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Identifying relevant genomic features that can act as prognostic markers for building predictive survival models is one of the central themes in medical research, affecting the future of personalized medicine and omics technologies. However, the high dimension of genome-wide omic data, the strong correlation among the features, and the low sample size significantly increase the complexity of cancer survival analysis, demanding the development of specific statistical methods and software. Here, we present a novel R package, COSMONET (COx Survival Methods based On NETworks), that provides a complete workflow from the pre-processing of omics data to the selection of gene signatures and prediction of survival outcomes. In particular, COSMONET implements (i) three different screening approaches to reduce the initial dimension of the data from a high-dimensional space p to a moderate scale d, (ii) a network-penalized Cox regression algorithm to identify the gene signature, (iii) several approaches to determine an optimal cut-off on the prognostic index (PI) to separate high- and low-risk patients, and (iv) a prediction step for patients’ risk class based on the evaluation of PIs. Moreover, COSMONET provides functions for data pre-processing, visualization, survival prediction, and gene enrichment analysis. We illustrate COSMONET through a step-by-step R vignette using two cancer datasets.

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“…[8–13] The most frequent risk factors associated with GBC are cholelithiasis, [14] sex, age, obesity, [15] occupation, [16,17] chronic gallbladder inflammation, [18] and genetic predisposition. [19,20]…”

Section: Introductionmentioning

confidence: 99%

“…[8][9][10][11][12][13] The most frequent risk factors associated with GBC are cholelithiasis, [14] sex, age, obesity, [15] occupation, [16,17] chronic gallbladder inflammation, [18] and genetic predisposition. [19,20] Previous studies have reported that complete surgical resection is one of the most effective modalities for patients with GBC. [21][22][23] Currently, it is still the only curative modality for GBC, with 5-year survival rates ranging from 0% to 12%, and a median survival time of 6.4 months.…”

Section: Introductionmentioning

confidence: 99%

Target nursing care on anxiety and depression in patients with gallbladder cancer during perioperative period

Liu¹,

Zhang²,

Guan³

et al. 2022

Medicine

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Background: This study retrospectively investigated the effects of target nursing care (TNC) on anxiety and depression in patients with gallbladder cancer (GBC) during the perioperative period.Methods: This retrospective study analyzed the data of 80 patients with GBC during perioperative period. These records were divided into an intervention group (n = 40) or a control group (n = 40). All 80 patient records in both groups were administered routine nursing care (RNC). The patients in the intervention group also underwent TNC. The primary outcomes were depression (measured using the Hamilton Depression Scale, HAMD) and anxiety (assessed using the Hamilton Anxiety Scale, HAMA). The secondary outcomes were quality of life (assessed using the 36-Item Short Form Health Survey, SF-36) and adverse events. We collected and analyzed the outcome data before and after treatment.Results: After treatment, patients in the intervention group showed more promising effects on depression (HAMD, P < .01) and anxiety (HAMA, P < .01) than those in the control group did. However, there were no significant differences in the quality of life before and after treatment. No TNC-or RNC-associated adverse events were reported in patient records.Conclusion: This study found that TNC was more effective than RNC in relieving depression and anxiety. Future studies should be conducted to validate the present findings.

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Genetic Susceptibility of DCC Gene in Gallbladder Cancer in Kashmir and Meta-Analysis

Cited by 5 publications

References 14 publications

KNTC1 and MCM2 are the molecular targets of gallbladder cancer

KNTC1 and MCM2 are the molecular targets of gallbladder cancer

COSMONET: An R Package for Survival Analysis Using Screening-Network Methods

Target nursing care on anxiety and depression in patients with gallbladder cancer during perioperative period

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