Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction
Untranslated gene regions (UTRs) play an important role in controlling gene expression. 3′-UTRs are primarily targeted by microRNA (miRNA) molecules that form complex gene regulatory networks. Cancer genomes are replete with non-coding mutations, many of which are connected to changes in tumor gene...
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| Format: | Article |
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MDPI AG
2021-07-01
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| Series: | Current Issues in Molecular Biology |
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| Online Access: | https://www.mdpi.com/1467-3045/43/2/44 |
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| author | Dmitrii S. Bug Artem V. Tishkov Ivan S. Moiseev Natalia V. Petukhova |
| author_facet | Dmitrii S. Bug Artem V. Tishkov Ivan S. Moiseev Natalia V. Petukhova |
| author_sort | Dmitrii S. Bug |
| collection | DOAJ |
| description | Untranslated gene regions (UTRs) play an important role in controlling gene expression. 3′-UTRs are primarily targeted by microRNA (miRNA) molecules that form complex gene regulatory networks. Cancer genomes are replete with non-coding mutations, many of which are connected to changes in tumor gene expression that accompany the development of cancer and are associated with resistance to therapy. Therefore, variants that occurred in 3′-UTR under cancer progression should be analysed to predict their phenotypic effect on gene expression, e.g., by evaluating their impact on miRNA target sites. Here, we analyze 3′-UTR variants in <i>DICER1</i> and <i>DROSHA</i> genes in the context of myelodysplastic syndrome (MDS) development. The key features of this analysis include an assessment of both “canonical” and “non-canonical” types of mRNA-miRNA binding and tissue-specific profiling of miRNA interactions with wild-type and mutated genes. As a result, we obtained a list of <i>DICER1</i> and <i>DROSHA</i> variants likely altering the miRNA sites and, therefore, potentially leading to the observed tissue-specific gene downregulation. All identified variants have low population frequency consistent with their potential association with pathology progression. |
| first_indexed | 2024-03-10T07:47:29Z |
| format | Article |
| id | doaj.art-7bd3b98a8ed8483f8f191944aeca0776 |
| institution | Directory Open Access Journal |
| issn | 1467-3037 1467-3045 |
| language | English |
| last_indexed | 2024-03-10T07:47:29Z |
| publishDate | 2021-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Current Issues in Molecular Biology |
| spelling | doaj.art-7bd3b98a8ed8483f8f191944aeca07762023-11-22T12:30:53ZengMDPI AGCurrent Issues in Molecular Biology1467-30371467-30452021-07-0143260561710.3390/cimb43020044Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target PredictionDmitrii S. Bug0Artem V. Tishkov1Ivan S. Moiseev2Natalia V. Petukhova3Bioinformatics Research Center, Pavlov First Saint Petersburg Medical State University, 197022 St. Petersburg, RussiaBioinformatics Research Center, Pavlov First Saint Petersburg Medical State University, 197022 St. Petersburg, RussiaR.M. Gorbacheva Scientific Research Institute of Pediatric Hematology and Transplantation, Pavlov First Saint Petersburg State Medical University, 197022 St. Petersburg, RussiaBioinformatics Research Center, Pavlov First Saint Petersburg Medical State University, 197022 St. Petersburg, RussiaUntranslated gene regions (UTRs) play an important role in controlling gene expression. 3′-UTRs are primarily targeted by microRNA (miRNA) molecules that form complex gene regulatory networks. Cancer genomes are replete with non-coding mutations, many of which are connected to changes in tumor gene expression that accompany the development of cancer and are associated with resistance to therapy. Therefore, variants that occurred in 3′-UTR under cancer progression should be analysed to predict their phenotypic effect on gene expression, e.g., by evaluating their impact on miRNA target sites. Here, we analyze 3′-UTR variants in <i>DICER1</i> and <i>DROSHA</i> genes in the context of myelodysplastic syndrome (MDS) development. The key features of this analysis include an assessment of both “canonical” and “non-canonical” types of mRNA-miRNA binding and tissue-specific profiling of miRNA interactions with wild-type and mutated genes. As a result, we obtained a list of <i>DICER1</i> and <i>DROSHA</i> variants likely altering the miRNA sites and, therefore, potentially leading to the observed tissue-specific gene downregulation. All identified variants have low population frequency consistent with their potential association with pathology progression.https://www.mdpi.com/1467-3045/43/2/443′-UTR variantmiRNAgene regulationtissue-specific profiling<i>DICER1</i><i>DROSHA</i> |
| spellingShingle | Dmitrii S. Bug Artem V. Tishkov Ivan S. Moiseev Natalia V. Petukhova Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction Current Issues in Molecular Biology 3′-UTR variant miRNA gene regulation tissue-specific profiling <i>DICER1</i> <i>DROSHA</i> |
| title | Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction |
| title_full | Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction |
| title_fullStr | Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction |
| title_full_unstemmed | Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction |
| title_short | Evaluating the Effect of 3′-UTR Variants in <i>DICER1</i> and <i>DROSHA</i> on Their Tissue-Specific Expression by miRNA Target Prediction |
| title_sort | evaluating the effect of 3 utr variants in i dicer1 i and i drosha i on their tissue specific expression by mirna target prediction |
| topic | 3′-UTR variant miRNA gene regulation tissue-specific profiling <i>DICER1</i> <i>DROSHA</i> |
| url | https://www.mdpi.com/1467-3045/43/2/44 |
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