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Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence
Ovarian cancer is the second most dangerous gynecologic cancer with a high mortality rate. The classification of gene expression data from high-dimensional and small-sample gene expression data is a challenging task. The discovery of miRNAs, a small non-coding RNA with 18–25 nucleotides in length th...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Media S.A.
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8656459/ https://www.ncbi.nlm.nih.gov/pubmed/34899827 http://dx.doi.org/10.3389/fgene.2021.724785 |
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author | Hamidi, Farzaneh Gilani, Neda Belaghi, Reza Arabi Sarbakhsh, Parvin Edgünlü, Tuba Santaguida, Pasqualina |
author_facet | Hamidi, Farzaneh Gilani, Neda Belaghi, Reza Arabi Sarbakhsh, Parvin Edgünlü, Tuba Santaguida, Pasqualina |
author_sort | Hamidi, Farzaneh |
collection | PubMed |
description | Ovarian cancer is the second most dangerous gynecologic cancer with a high mortality rate. The classification of gene expression data from high-dimensional and small-sample gene expression data is a challenging task. The discovery of miRNAs, a small non-coding RNA with 18–25 nucleotides in length that regulates gene expression, has revealed the existence of a new array for regulation of genes and has been reported as playing a serious role in cancer. By using LASSO and Elastic Net as embedded algorithms of feature selection techniques, the present study identified 10 miRNAs that were regulated in ovarian serum cancer samples compared to non-cancer samples in public available dataset GSE106817: hsa-miR-5100, hsa-miR-6800-5p, hsa-miR-1233-5p, hsa-miR-4532, hsa-miR-4783-3p, hsa-miR-4787-3p, hsa-miR-1228-5p, hsa-miR-1290, hsa-miR-3184-5p, and hsa-miR-320b. Further, we implemented state-of-the-art machine learning classifiers, such as logistic regression, random forest, artificial neural network, XGBoost, and decision trees to build clinical prediction models. Next, the diagnostic performance of these models with identified miRNAs was evaluated in the internal (GSE106817) and external validation dataset (GSE113486) by ROC analysis. The results showed that first four prediction models consistently yielded an AUC of 100%. Our findings provide significant evidence that the serum miRNA profile represents a promising diagnostic biomarker for ovarian cancer. |
format | Online Article Text |
id | pubmed-8656459 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-86564592021-12-10 Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence Hamidi, Farzaneh Gilani, Neda Belaghi, Reza Arabi Sarbakhsh, Parvin Edgünlü, Tuba Santaguida, Pasqualina Front Genet Genetics Ovarian cancer is the second most dangerous gynecologic cancer with a high mortality rate. The classification of gene expression data from high-dimensional and small-sample gene expression data is a challenging task. The discovery of miRNAs, a small non-coding RNA with 18–25 nucleotides in length that regulates gene expression, has revealed the existence of a new array for regulation of genes and has been reported as playing a serious role in cancer. By using LASSO and Elastic Net as embedded algorithms of feature selection techniques, the present study identified 10 miRNAs that were regulated in ovarian serum cancer samples compared to non-cancer samples in public available dataset GSE106817: hsa-miR-5100, hsa-miR-6800-5p, hsa-miR-1233-5p, hsa-miR-4532, hsa-miR-4783-3p, hsa-miR-4787-3p, hsa-miR-1228-5p, hsa-miR-1290, hsa-miR-3184-5p, and hsa-miR-320b. Further, we implemented state-of-the-art machine learning classifiers, such as logistic regression, random forest, artificial neural network, XGBoost, and decision trees to build clinical prediction models. Next, the diagnostic performance of these models with identified miRNAs was evaluated in the internal (GSE106817) and external validation dataset (GSE113486) by ROC analysis. The results showed that first four prediction models consistently yielded an AUC of 100%. Our findings provide significant evidence that the serum miRNA profile represents a promising diagnostic biomarker for ovarian cancer. Frontiers Media S.A. 2021-11-25 /pmc/articles/PMC8656459/ /pubmed/34899827 http://dx.doi.org/10.3389/fgene.2021.724785 Text en Copyright © 2021 Hamidi, Gilani, Belaghi, Sarbakhsh, Edgünlü and Santaguida. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Genetics Hamidi, Farzaneh Gilani, Neda Belaghi, Reza Arabi Sarbakhsh, Parvin Edgünlü, Tuba Santaguida, Pasqualina Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence |
title | Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence |
title_full | Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence |
title_fullStr | Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence |
title_full_unstemmed | Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence |
title_short | Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence |
title_sort | exploration of potential mirna biomarkers and prediction for ovarian cancer using artificial intelligence |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8656459/ https://www.ncbi.nlm.nih.gov/pubmed/34899827 http://dx.doi.org/10.3389/fgene.2021.724785 |
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