An innovative systematic approach introduced the involved lncRNA-miR-mRNA network in cell cycle and proliferation after conventional treatments in breast cancer patients

Mohsenikia, Maryam; Khalighfard, Solmaz; Alizadeh, Ali Mohammad; Khori, Vahid; Zanjan, Maziar Ghandian; Zaré, Mehdi; Omranipour, Ramesh; Patrad, Elham; Razavi, Hengamesadat; Malekshahi, Ziba Veisi; Bagheri‐Hosseinabadi, Zahra

doi:10.1080/15384101.2022.2070104

Cited by 4 publications

(6 citation statements)

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“…Through a literature search, no precise definition of cuproptosis lncRNA has been yet reported. Mindful of the correlation between the expression levels of mRNAs and lncRNAs, we characterized lncRNAs tightly associated with cuproptosis genes using the pearson correlation analysis method, which has been broadly applied in the field of computational genomics of tumors (Mehrpour Layeghi et al, 2021;Liu et al, 2022;Mohsenikia et al, 2022). In the sarcoma data, |correlation coefficient| > .4 and p-value <.001 were our selection thresholds, and we ultimately yielded 580 lncRNAs, defined as cuproptosis lncRNAs.…”

Section: Discussionmentioning

confidence: 99%

Cuproptosis-associated lncRNAs discern prognosis and immune microenvironment in sarcoma victims

Chu

Zheng

et al. 2022

Front. Cell Dev. Biol.

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Cuproptosis is a fresh form of the copper-elesclomol-triggered, mitochondrial tricarboxylic acid (TCA) dependent cell death. Yet, the subsumed mechanism of cuproptosis-associated lncRNAs in carcinoma is not wholly clarified. Here, We appraised 580 cuproptosis-associated lncRNAs in sarcoma and thereafter construed a module composing of 6 cuproptosis lncRNAs, entitled CuLncScore, utilizing a machine learning methodology. It could outstandingly discern the prognosis of patients in parallel with discriminating tumor immune microenvironment traits. Moreover, we simulate the classification system of cuproptosis lncRNAs by unsupervised learning method to facilitate differentiation of clinical denouement and immunotherapy modality options. Notably, Our Taizhou cohort validated the stability of CuLncScore and the classification system. Taking a step further, we checked these 6 cuproptosis lncRNAs by Quantitative real-time polymerase chain reaction (qRT-PCR) to ascertain their authenticity. All told, our investigations highlight that cuproptosis lncRNAs are involved in various components of sarcoma and assist in the formation of the tumor immune microenvironment. These results provide partial insights to further comprehend the molecular mechanisms of cuproptosis lncRNAs in sarcoma and could be helpful for the development of personalized therapeutic strategies targeting cuproptosis or cuproptosis lncRNAs.

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Section: Discussionmentioning

confidence: 99%

Cuproptosis-associated lncRNAs discern prognosis and immune microenvironment in sarcoma victims

Chu

Zheng

et al. 2022

Front. Cell Dev. Biol.

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“…Evaluation of miR-20b level in plasma samples of endometrial cancer patients showed that this miRNA has prognostic value in advanced tumors compared to the early stage [ 119 ]. Up-regulated miR-20b in HPV- associated oropharyngeal carcinoma specimens is negatively correlated with patient survival [ 120 ], and elevated miR-20b level is associated with the shorter survival rate of breast cancer patients [ 121 ].…”

Section: The Mir-20b As a Biomarkermentioning

confidence: 99%

The dual role of microRNA (miR)-20b in cancers: Friend or foe?

et al. 2023

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MicroRNAs, as non-coding transcripts, modulate gene expression through RNA silencing under normal physiological conditions. Their aberrant expression has strongly associated with tumorigenesis and cancer development. MiR-20b is one of the crucial miRNAs that regulate essential biological processes such as cell proliferation, apoptosis, autophagy, and migration. Deregulated levels of miR-20b contribute to the early- and advanced stages of cancer. On the other hand, investigations emphasize the tumor suppressor ability of miR-20b. High-throughput strategies are developed to identify miR-20b potential targets, providing the proper insight into its molecular mechanism of action. Moreover, accumulated results suggest that miR-20b exerts its effects through diverse signaling pathways, including PI3K/AKT/mTOR and ERK axes. Restoration of the altered expression levels of miR-20b induces cell apoptosis and reduces invasion and migration. Further, miR-20b can be used as a biomarker in cancer. The current comprehensive review could lead to a better understanding of the miR-20b in either tumorigenesis or tumor regression that may open new avenues for cancer treatment.

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“…Gene expression information for Agilent-012097 Human 1A Microarray, Affymetrix Human Gene 1.0 ST Array, Agilent-014850 Whole Human Genome Microarray, Affymetrix Human Genome U133 Plus 2.0 Array, Affymetrix Human Genome U95A Array, Affymetrix Genome-Wide Human SNP 6.0 Array, Almac Diagnostics Prostate Disease-Specific Array, Agilent-039494 SurePrint G3 Human Gene Expression v2 8x60K Microarray, and Agilent-014698 Human Genome CGH Microarray 105A were obtained from prostate cancer patients with different tumor stages. GEPIA2 and cBioPortal analyze differentially expressed genes (DEGs) from the TCGA (10). The expression profile pattern of PCa patients was compared to that of healthy individuals to identify DEGs.…”

Section: The Data Collection Of Pca Datasetsmentioning

confidence: 99%

“…MiRNAs of candidate genes were identified in the miRWalk2, miRmap, OncomiR, miRGator 3.0, and miRCancerdb databases of the TCGA dataset (10). Moreover, LncRNA2target, TANRIC, LncRNADisease, Lnc2Cancer v3.0, and LncBase of the TCGA dataset were collected to identify candidate lncRNAs (11).…”

Section: Identification Of Lncrnas and Mirnas Of Candidate Target Genesmentioning

confidence: 99%

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A systematic method introduced a common lncRNA-miRNA-mRNA network in the different stages of prostate cancer

Vahabzadeh

Khalighfard²,

Alizadeh

et al. 2023

Front. Oncol.

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IntroductionThe present study aimed to investigate the interaction of the common lncRNA-miRNA-mRNA network involved in signaling pathways in different stages of prostate cancer (PCa) by using bioinformatics and experimental methods.MethodsSeventy subjects included sixty PCa patients in Local, Locally Advanced, Biochemical Relapse, Metastatic, and Benign stages, and ten healthy subjects were entered into the current study. The mRNAs with significant expression differences were first found using the GEO database. The candidate hub genes were then identified by analyzing Cytohubba and MCODE software. Cytoscape, GO Term, and KEGG software determined hub genes and critical pathways. The expression of candidate lncRNAs, miRNAs, and mRNAs was then assessed using Real-Time PCR and ELISA techniques.Results4 lncRNAs, 5 miRNAs, and 15 common target genes were detected in PCa patients compared with the healthy group. Unlike the tumor suppressors, the expression levels of common onco-lncRNAs, oncomiRNAs, and oncogenes showed a considerable increase in patients with advanced stages; Biochemical Relapse and Metastatic, in comparison to the primary stages; Local and Locally Advanced. Additionally, their expression levels significantly increased with a higher Gleason score than a lower one.ConclusionIdentifying a common lncRNA-miRNA-mRNA network associated with prostate cancer may be clinically valuable as potential predictive biomarkers. They can also serve as novel therapeutic targets for PCa patients.

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An innovative systematic approach introduced the involved lncRNA-miR-mRNA network in cell cycle and proliferation after conventional treatments in breast cancer patients

Cited by 4 publications

References 48 publications

Cuproptosis-associated lncRNAs discern prognosis and immune microenvironment in sarcoma victims

Cuproptosis-associated lncRNAs discern prognosis and immune microenvironment in sarcoma victims

The dual role of microRNA (miR)-20b in cancers: Friend or foe?

A systematic method introduced a common lncRNA-miRNA-mRNA network in the different stages of prostate cancer

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