A new method for discovering disease-specific MiRNA-target regulatory networks.
Genes and their expression regulation are among the key factors in the comprehension of the genesis and development of complex diseases. In this context, microRNAs (miRNAs) are post-transcriptional regulators that play an important role in gene expression since they are frequently deregulated in pat...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2015-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0122473 |
| _version_ | 1818586682214055936 |
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| author | Miriam Baglioni Francesco Russo Filippo Geraci Milena Rizzo Giuseppe Rainaldi Marco Pellegrini |
| author_facet | Miriam Baglioni Francesco Russo Filippo Geraci Milena Rizzo Giuseppe Rainaldi Marco Pellegrini |
| author_sort | Miriam Baglioni |
| collection | DOAJ |
| description | Genes and their expression regulation are among the key factors in the comprehension of the genesis and development of complex diseases. In this context, microRNAs (miRNAs) are post-transcriptional regulators that play an important role in gene expression since they are frequently deregulated in pathologies like cardiovascular disease and cancer. In vitro validation of miRNA--targets regulation is often too expensive and time consuming to be carried out for every possible alternative. As a result, a tool able to provide some criteria to prioritize trials is becoming a pressing need. Moreover, before planning in vitro experiments, the scientist needs to evaluate the miRNA-target genes interaction network. In this paper we describe the miRable method whose purpose is to identify new potentially relevant genes and their interaction networks associate to a specific pathology. To achieve this goal miRable follows a system biology approach integrating together general-purpose medical knowledge (literature, Protein-Protein Interaction networks, prediction tools) and pathology specific data (gene expression data). A case study on Prostate Cancer has shown that miRable is able to: 1) find new potential miRNA-targets pairs, 2) highlight novel genes potentially involved in a disease but never or little studied before, 3) reconstruct all possible regulatory subnetworks starting from the literature to expand the knowledge on the regulation of miRNA regulatory mechanisms. |
| first_indexed | 2024-12-16T08:56:50Z |
| format | Article |
| id | doaj.art-810f4fb1105f4ecaa8aec8327e5b96e6 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-16T08:56:50Z |
| publishDate | 2015-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-810f4fb1105f4ecaa8aec8327e5b96e62022-12-21T22:37:16ZengPublic Library of Science (PLoS)PLoS ONE1932-62032015-01-01104e012247310.1371/journal.pone.0122473A new method for discovering disease-specific MiRNA-target regulatory networks.Miriam BaglioniFrancesco RussoFilippo GeraciMilena RizzoGiuseppe RainaldiMarco PellegriniGenes and their expression regulation are among the key factors in the comprehension of the genesis and development of complex diseases. In this context, microRNAs (miRNAs) are post-transcriptional regulators that play an important role in gene expression since they are frequently deregulated in pathologies like cardiovascular disease and cancer. In vitro validation of miRNA--targets regulation is often too expensive and time consuming to be carried out for every possible alternative. As a result, a tool able to provide some criteria to prioritize trials is becoming a pressing need. Moreover, before planning in vitro experiments, the scientist needs to evaluate the miRNA-target genes interaction network. In this paper we describe the miRable method whose purpose is to identify new potentially relevant genes and their interaction networks associate to a specific pathology. To achieve this goal miRable follows a system biology approach integrating together general-purpose medical knowledge (literature, Protein-Protein Interaction networks, prediction tools) and pathology specific data (gene expression data). A case study on Prostate Cancer has shown that miRable is able to: 1) find new potential miRNA-targets pairs, 2) highlight novel genes potentially involved in a disease but never or little studied before, 3) reconstruct all possible regulatory subnetworks starting from the literature to expand the knowledge on the regulation of miRNA regulatory mechanisms.https://doi.org/10.1371/journal.pone.0122473 |
| spellingShingle | Miriam Baglioni Francesco Russo Filippo Geraci Milena Rizzo Giuseppe Rainaldi Marco Pellegrini A new method for discovering disease-specific MiRNA-target regulatory networks. PLoS ONE |
| title | A new method for discovering disease-specific MiRNA-target regulatory networks. |
| title_full | A new method for discovering disease-specific MiRNA-target regulatory networks. |
| title_fullStr | A new method for discovering disease-specific MiRNA-target regulatory networks. |
| title_full_unstemmed | A new method for discovering disease-specific MiRNA-target regulatory networks. |
| title_short | A new method for discovering disease-specific MiRNA-target regulatory networks. |
| title_sort | new method for discovering disease specific mirna target regulatory networks |
| url | https://doi.org/10.1371/journal.pone.0122473 |
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