Single Nucleotide Polymorphisms in MicroRNA Binding Sites: Implications in Colorectal Cancer

Bhaumik, Panchalee; Gopalakrishnan, Chandrasekhar; Kamaraj, Balu; Purohit, Rituraj

doi:10.1155/2014/547154

Cited by 26 publications

(22 citation statements)

References 22 publications

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“…MicroRNAs (miRNAs) are endogenous non‐coding small RNAs that regulate a variety of important biological processes by regulating gene expression, including cell development, proliferation, differentiation, apoptosis, signal transduction and tumor occurrence, and development . Computer technology analysis objectively demonstrated the mutation of the miRNA binding site involved in cancer and the mechanism of gene regulation mediated by it . In addition, miRNAs are aberrantly expressed in various types of malignancies and function either as oncogenes or tumor suppressors .…”

Section: Introductionmentioning

confidence: 99%

MicroRNA expression in cervical cancer: Novel diagnostic and prognostic biomarkers

Gao

Zhou

Zhuang

et al. 2018

J of Cellular Biochemistry

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Growing evidence has shown that a large number of miRNAs are abnormally expressed in cervical cancer (CC) tissues and play irreplaceable roles in tumorigenesis, progression, and metastasis. This study aimed to identify new biomarkers and pivotal genes associated with CC prognosis through comprehensive bioinformatics analysis. At first, the data of gene expression microarray (GSE30656) was downloaded from GEO database and differential miRNAs were obtained. Additionally, 4 miRNAs associated with the survival time of patients with CC were screened through TCGA differential data analysis, Kaplan-Meier, and Landmark analysis. Among them, the low expression of miR-188 and high expression of miR-223 correlated with the short survival of CC patients, while the down-regulation of miR-99a and miR-125b was closely related to the 5-year survival rate of patients. Then, based on the correspondence between the differentially expressed genes (DEGs) in CC from the TCGA data and the 4 miRNAs target genes, 58 target genes were screened to perform the analysis of function enrichment and the visualization of protein-protein interaction (PPI) networks. The seven pivotal genes of the PPI network as the target genes of four miRNAs related to prognosis, they were directly or indirectly involved in the development of CC. In this study, based on high-throughput data mining, differentially expressed miRNAs and related target genes were analyzed to provide an effective bioinformatics basis for further understanding of the pathogenesis and prognosis of CC. And the results may be a promising biomarker for the early screening of high-risk populations and early diagnosis of cervical cancer.

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Section: Introductionmentioning

confidence: 99%

MicroRNA expression in cervical cancer: Novel diagnostic and prognostic biomarkers

Gao

Zhou

Zhuang

et al. 2018

J of Cellular Biochemistry

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“…Most of these studies focus on the correlation of CTC enumeration with prognosis 9–13. However, recent studies showed that only enumerated CTCs were not enough to reflect the heterogeneous condition of tumors 3,14,15.…”

Section: Introductionmentioning

confidence: 99%

FAM172A expression in circulating tumor cells for prediction of high-risk subgroups of colorectal cancer

Xu¹,

Zhang²,

Wang³

et al. 2017

OTT

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ObjectivesPrevious studies used enumerated circulating tumor cells (CTCs) to predict prognosis and therapeutic effect in several types of cancers. However, increasing evidence showed that only enumerated CTCs were not enough to reflect the heterogeneity of tumors. Therefore, we classified different metastasis potentials of CTCs from colorectal cancer (CRC) patients to improve the accuracy of prognosis by CTCs.MethodsBlood samples were collected from 45 primary CRC patients. CTCs were enriched by blood filtration, and the RNA in situ hybridization method was used to identify and discriminate subgroups of CTCs. Later, FAM172A expression in individual CTCs was measured.ResultsThree CTC subgroups (epithelial/biophenotypic/mesenchymal CTCs) were identified using epithelial–mesenchymal transition markers. In our research, mesenchymal CTCs significantly increased along with tumor progression, including developing distant metastasis and vascular invasion. Furthermore, FAM172A expression rate in mesenchymal CTCs was significantly higher than that in epithelial CTCs, which suggested that FAM172A may correlate with tumor malignancy. This hypothesis was further verified by FAM172A expression in mesenchymal CTCs strictly related to tumor aggressiveness factors. Finally, we revealed that mesenchymal CTCs and FAM172A expression may predict high-risk subgroups in stage II CRC.ConclusionOur research proved that CTCs could serve as feasible surrogate samples to detect gene expression as a predictive biomarker for tumor evaluation.

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“…Therefore, the 3′UTR region is emerging as critically important in regulating gene expression, and polymorphisms in the miRNA‐binding sites of the 3′UTR of genes may alter the binding efficiency and miRNA‐mRNA gene expression regulation. In support of this hypothesis, recent studies have identified variants in the 3′UTR of genes that increase the susceptibility to melanoma, lung, colorectal and ovarian cancer by affecting the ability of miRNAs to bind. In particular, two sequence changes in the 3′UTR of the CDKN2A gene have been significantly correlated with melanoma risk, but also with a shorter progression time from primary to metastatic melanoma …”

Section: Introductionmentioning

confidence: 90%

Genetic 3′UTR variation is associated with human pigmentation characteristics and sensitivity to sunlight

Hernando

Peña‐Chilet

Ibarrola‐Villava

et al. 2017

Experimental Dermatology

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Sunlight exposure induces signalling pathways leading to the activation of melanin synthesis and tanning response. MicroRNAs (miRNAs) can regulate the expression of genes involved in pigmentation pathways by binding to the complementary sequence in their 3′untranslated regions (3′UTRs). Therefore, 3′UTR SNPs are predicted to modify the ability of miRNAs to target genes, resulting in differential gene expression. In this study, we investigated the role in pigmentation and sun‐sensitivity traits, as well as in melanoma susceptibility, of 38 different 3′UTR SNPs from 38 pigmentation‐related genes. A total of 869 individuals of Spanish origin (526 melanoma cases and 343 controls) were analysed. The association of genotypic data with pigmentation traits was analysed via logistic regression. Web‐based tools for predicting the effect of genetic variants in microRNA‐binding sites in 3′UTR gene regions were also used. Seven 3′UTR SNPs showed a potential implication in melanoma risk phenotypes. This association is especially noticeable for two of them, rs2325813 in the MLPH gene and rs752107 in the WNT3A gene. These two SNPs were predicted to disrupt a miRNA‐binding site and to impact on miRNA‐mRNA interaction. To our knowledge, this is the first time that these two 3′UTR SNPs have been associated with sun‐sensitivity traits. We state the potential implication of these SNPs in human pigmentation and sensitivity to sunlight, possibly as a result of changes in the level of gene expression through the disruption of putative miRNA‐binding sites.

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Single Nucleotide Polymorphisms in MicroRNA Binding Sites: Implications in Colorectal Cancer

Cited by 26 publications

References 22 publications

MicroRNA expression in cervical cancer: Novel diagnostic and prognostic biomarkers

MicroRNA expression in cervical cancer: Novel diagnostic and prognostic biomarkers

FAM172A expression in circulating tumor cells for prediction of high-risk subgroups of colorectal cancer

Genetic 3′UTR variation is associated with human pigmentation characteristics and sensitivity to sunlight

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