Aberrant ARMCX1 Expression Is an Independent Predictor of Poor Prognosis in Gastric Cancer

Xie, Aosi; Wang, Puyu; Chen, Diqun; Zhang, Hongxia

doi:10.1155/2022/9348917

Cited by 4 publications

(6 citation statements)

References 22 publications

(27 reference statements)

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“…Our results suggest that the poor prognosis of GC and CCA is related to the overexpression of APBB1 , ARMCX1 , DZIP1 , and MSRB3 . Our results of the functional enrichment analysis of the GC and CCA genes are consistent with previous reports ( 13 , 14 ). The metabolism of cancer cells plays an important role in the occurrence and development of tumors.…”

Section: Discussionsupporting

confidence: 93%

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Exploration of hub genes, lipid metabolism, and the immune microenvironment in stomach carcinoma and cholangiocarcinoma

Gong¹,

Li²,

Sahu³

et al. 2022

Ann Transl Med

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Background Gastric cancer (GC) is the 5th most common cause of cancer in the world and the 3rd largest cause of cancer-related death. It is usually associated with a variety of cancers, of which cholangiocarcinoma (CCA) combined with GC accounts for about 1.6%. This study sought to examine the hub genes and role of lipid metabolism in the development and diagnosis of GC and CCA. Methods To screen potential hub genes, The Cancer Genome Atlas (TCGA) data sets, including the GC (STAD, dataset of GC) and CCA (CHOL, dataset of CCA) data sets, were used to conduct a differentially expressed gene (DEG) analysis and an enrichment analysis of the DEGs. A weighted-gene co-expression network analysis (WGCNA) was conducted to identify the significant gene module and then find the hub genes in the module. To verify the 4 hub genes, we conducted a differentiation analysis of the 4 genes in GC and CCA and found that there were differences. A survival analysis of the hub genes was performed and mutations were mapped. Additionally, tumor immune microenvironment (TIME) and immune analyses were performed to evaluate how lipid metabolism affects the development of GC with CCA. Results The principal component analysis showed that both GC and CCA had distinct up-regulated and down-regulated genes, which are involved in a variety of metabolic processes. Upon WGCNA, the turquoise and blue modules were meaningful, and the hub genes were identified from these 2 modules. Four hub genes were identified: amyloid beta precursor protein binding family B member 1 ( APBB1 ), Homo sapiens armadillo repeat containing X-linked 1 ( ARMCX1 ), DAZ interacting zinc finger protein 1 ( DZIP1 ), and methionine sulfoxide reductase B3 ( MSRB3 ). In survival analysis, increased expression of the 4 hub genes was associated with inferior survival outcomes, with variations in all 4 genes. Additionally, we demonstrated that genes related to lipid metabolism had an effect on immune function. Conclusions APBB1 , ARMCX1 , DZIP1 , and MSRB3 affect the development of GC and CCA and can be used as biomarkers. The expression of lipid metabolism genes is related to the TIME of patients with GC and CCA.

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Section: Discussionsupporting

confidence: 93%

“…We found that 4 hub genes (i.e., APBB1 , ARMCX1 , DZIP1 and MSRB3 ) were closely related to the OS rate of GC patients. ARMCX1 has been reported to have potential prognostic value for GC and may have clinical application value ( 13 ). However, further basic research needs to be conducted to clarify the specific mechanism of ARMCX1 in GC.…”

Section: Discussionmentioning

confidence: 99%

Exploration of hub genes, lipid metabolism, and the immune microenvironment in stomach carcinoma and cholangiocarcinoma

Gong¹,

Li²,

Sahu³

et al. 2022

Ann Transl Med

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“…The genes that demonstrated the strongest negative correlation with viral load ( Supplementary Table 2 ) also have key functional overlaps. For example, PTPN13, SFMBT1, ARMCX1, ZNF10, and ZBTB18 are all involved in repression of transcription ( Huang et al., 2008 ; Nishitsuji et al., 2015 ; Liu et al., 2020 ; Heng et al., 2022 ; Xie et al., 2022 ). Downregulation of ZNF10 during high viremia is noteworthy as this protein has demonstrated functional capacity to limit HIV-1 gene expression in vitro ( Nishitsuji et al., 2015 ).…”

Section: Resultsmentioning

confidence: 99%

Gene dysregulation in acute HIV-1 infection – early transcriptomic analysis reveals the crucial biological functions affected

Parker

Judge

Pastor

et al. 2023

Front. Cell. Infect. Microbiol.

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IntroductionTranscriptomic analyses from early human immunodeficiency virus (HIV) infection have the potential to reveal how HIV causes widespread and lasting damage to biological functions, especially in the immune system. Previous studies have been limited by difficulties in obtaining early specimens.MethodsA hospital symptom-based screening approach was applied in a rural Mozambican setting to enrol patients with suspected acute HIV infection (Fiebig stage I-IV). Blood samples were collected from all those recruited, so that acute cases and contemporaneously recruited, uninfected controls were included. PBMC were isolated and sequenced using RNA-seq. Sample cellular composition was estimated from gene expression data. Differential gene expression analysis was completed, and correlations were determined between viral load and differential gene expression. Biological implications were examined using Cytoscape, gene set enrichment analysis, and enrichment mapping.ResultsTwenty-nine HIV infected subjects one month from presentation and 46 uninfected controls were included in this study. Subjects with acute HIV infection demonstrated profound gene dysregulation, with 6131 (almost 13% of the genome mapped in this study) significantly differentially expressed. Viral load was correlated with 1.6% of dysregulated genes, in particular, highly upregulated genes involved in key cell cycle functions, were correlated with viremia. The most profoundly upregulated biological functions related to cell cycle regulation, in particular, CDCA7 may drive aberrant cell division, promoted by overexpressed E2F family proteins. Also upregulated were DNA repair and replication, microtubule and spindle organization, and immune activation and response. The interferome of acute HIV was characterized by broad activation of interferon-stimulated genes with antiviral functions, most notably IFI27 and OTOF. BCL2 downregulation alongside upregulation of several apoptotic trigger genes and downstream effectors may contribute to cycle arrest and apoptosis. Transmembrane protein 155 (TMEM155) was consistently highly overexpressed during acute infection, with roles hitherto unknown.DiscussionOur study contributes to a better understanding of the mechanisms of early HIV-induced immune damage. These findings have the potential to lead to new earlier interventions that improve outcomes.

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“…Based on the above background, we perform our study. Studies showed that the ARMCX gene family plays a vital role in gastric cancer (GC) and is a potential prognostic biomarker 22,23 . Kurochkin IV, et al deem that ALEX genes, ARMCX, also known as ALEX, play a role in the suppression of cancer progression 24 .…”

Section: Discussionmentioning

confidence: 99%

“…The hypermethylation of ARMCX1 was found in ovarian cancer 37 . ARMCX1 is a prognostic factor of GC 23 . Thus, we use two online databases to complete the methylation analysis in PAAD.…”

Section: Discussionmentioning

confidence: 99%

Pan-cancer analysis of ARMCX genes identifies ARMCX1 as a novel suppressor gene for pancreatic carcinoma

Shen

Quan

et al. 2022

Preprint

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Background: Pancreatic carcinoma (PAAD) is one of the malignant tumors with high lethality and low survival rate. Armadillo (ARMCX) family members play vital roles in tumorigenesis, but the tumorigenesis was not unclear. Our study aims to explore the novel biomarker of early diagnosis, treatment, and prognosis for PAAD. Methods: Firstly, UCSC Xena was used to download the data of pan-cancer. Then, we perform the pan-cancer analysis of ARMCX genes from expression, survival, immune subtype, tumor microenvironment, and stemness. Secondly, we focus on the roles of ARMCX genes in PAAD from the immune subtype, tumor microenvironment, and stemness. Lastly, we used GEIPA to select a key gene, and ARMCX1 was selected as our object. We analyzed the roles of ARMCX1 in PAAD from the differential expression, survival, independent prognosis, clinical features, mechanism, DNA methylation levels, immune cell infiltration, and immunoinhabitors. Results: Based on the pan-cancer analysis, we deem that the differential expression of ARMCX genes exists in multiple tumors, which is closely associated with OS of multiple tumor patients. Plus, we also found that the expression is negatively related to immune subtypes, estimate score, immune score, stromal score, and stemness score. Based on the PAAD analysis, we found that the expression of ARMCX1 and ARMCX4 was significantly different in the immune subtype and a significant difference exists in RNAss, DNAss, stromal score, immune score, and estimate score. Based on the study of ARMCX1 in PAAD, We deemed that ARMCX1 is a lower expression in PAAD than in normal pancreas tissue, and the low expression is closely associated with poor OS of PAAD patients. ARMCX1 is an independent prognosis factor for PAAD patients. In addition, the downregulation of ARMCX1 is also closely associated with hypermethylation of the ARMCX1 promoter. We also found that the expression of ARMCX1 is related to some immune cells and immunoinhibitors. Conclusion: Therefore, we concluded that hypermethylation of the ARMCX1 promoter leads to the downregulation of ARMCX1 expression and inhabits the PAAD progression through influencing the immune cell by some potential mechanism.

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Aberrant ARMCX1 Expression Is an Independent Predictor of Poor Prognosis in Gastric Cancer

Cited by 4 publications

References 22 publications

Exploration of hub genes, lipid metabolism, and the immune microenvironment in stomach carcinoma and cholangiocarcinoma

Exploration of hub genes, lipid metabolism, and the immune microenvironment in stomach carcinoma and cholangiocarcinoma

Gene dysregulation in acute HIV-1 infection – early transcriptomic analysis reveals the crucial biological functions affected

Pan-cancer analysis of ARMCX genes identifies ARMCX1 as a novel suppressor gene for pancreatic carcinoma

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