A pan-cancer bioinformatic analysis of the carcinogenic role of SMARCA1 in human carcinomas

Abstract

SMARCA1is a mammalian imitation switch (ISWI) gene that encodes for SNF2L. SNF2L is involved in regulating cell transition from a committed progenitor state to a differentiated state. Although many papers have detailed the correlation between SMARCA1 and different cancers, no pan-cancer analysis has been conducted to date. We started by exploring the potential carcinogenic role of SMARCA1 across 33 carcinomas using the cancer genome atlas (TCGA) and the genotype-tissue expression (GTEx) databases. The expression of SMARCA1 was significantly elevated in some tumor types but not in others. There was a distinct relationship between SMARCA1 expression and patient prognosis. S116 phosphorylation levels were up-regulated in both lung adenocarcinoma and uterine corpus endometrial carcinoma. The expression level of SMARCA1 was positively correlated with cancer-associated fibroblasts infiltration in a number of tumors, such as colon adenocarcinoma, cervical squamous cell carcinoma and endocervical adenocarcinoma. It was also associated with CD8+ T-cell infiltration in head and neck squamous cell carcinoma and lung adenocarcinoma. Furthermore, SMARCA1 is involved in chromatin remodeling and protein processing-associated mechanisms. Our study presents an initial assessment and illustration of the carcinogenic role of SMARCA1 in different carcinomas.

Unraveling molecular similarities between colorectal polyps and colorectal cancer: a systems biology approach

“…PAWR known as Par-4, this gene has been associated with major depressive disorder. Genetic variations in PAWR have been found to be related to susceptibility to major depressive disorder, but not to the response to antidepressant treatment [ 24 ]. PSIP1 encodes a protein that is involved in transcriptional regulation and chromatin remodeling, suggesting potential roles in gene expression regulation [ 25 ].…”

“…Genetic variations in PAWR have been found to be related to susceptibility to major depressive disorder, but not to the response to antidepressant treatment. 24 PSIP1 encodes a protein that is involved in transcriptional regulation and chromatin remodeling, suggesting potential roles in gene expression regulation. 25 It is important to note that further research is needed to elucidate the specific functions and potential involvement of these genes in CRC and colorectal polyps.…”

A paradigm shift in cancer research based on integrative multi-omics approaches: glutaminase serves as a pioneering cuproptosis-related gene in pan-cancer

“…Sangerbox database 3.0 ( http://vip.sangerbox.com ) [ 41 – 43 ], which integrates multiple databases and processes data in batches, is a user-friendly bioinformatic platform that provides numerous interactive analyses. The potential relationships between GLS expression and immune cell infiltration in pan-cancer were evaluated using this platform.…”

Recent Advancements in Research on DNA Methylation and Testicular Germ Cell Tumors: Unveiling the Intricate Relationship

“…FAM99A gene, which codes for an lncRNA, had a lower expression in TGCT compared with normal tissue of the GTEx database; however, further investigations found a positive correlation with four methylation probe sites, and no prognostic value was considered for this cancer type, given the limitations of the study [62]. Interesting results were also obtained in a study on SMARCA1, a gene that encodes for a chromatin remodeling protein, which only evaluated its expression and DNA methylation due to limited data [74]. Despite low levels of expression, when looking at DNA methylation levels, the authors found two CpG sites in the promoter region that were negatively correlated with expression and another two CpG sites outside the promoter region with a positive association with expression [74].…”

“…Interesting results were also obtained in a study on SMARCA1, a gene that encodes for a chromatin remodeling protein, which only evaluated its expression and DNA methylation due to limited data [74]. Despite low levels of expression, when looking at DNA methylation levels, the authors found two CpG sites in the promoter region that were negatively correlated with expression and another two CpG sites outside the promoter region with a positive association with expression [74].…”