Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction
The lack of a sufficient number of validated miRNA targets severely hampers the understanding of their biological function. Even for the well-studied miR-155-5p, there are only 239 experimentally validated targets out of 42,554 predicted targets. For a more complete assessment of the immune-related...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2025-12-01
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| Series: | RNA Biology |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/15476286.2025.2449775 |
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| _version_ | 1841545740296388608 |
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| author | Martin Hart Caroline Diener Stefanie Rheinheimer Tim Kehl Andreas Keller Hans-Peter Lenhof Eckart Meese |
| author_facet | Martin Hart Caroline Diener Stefanie Rheinheimer Tim Kehl Andreas Keller Hans-Peter Lenhof Eckart Meese |
| author_sort | Martin Hart |
| collection | DOAJ |
| description | The lack of a sufficient number of validated miRNA targets severely hampers the understanding of their biological function. Even for the well-studied miR-155-5p, there are only 239 experimentally validated targets out of 42,554 predicted targets. For a more complete assessment of the immune-related miR-155 targetome, we used an inverse correlation of time-resolved mRNA profiles and miR-155-5p expression of early CD4+ T cell activation to predict immune-related target genes. Using a high-throughput miRNA interaction reporter (HiTmIR) assay we examined 90 target genes and confirmed 80 genes as direct targets of miR-155-5p. Our study increases the current number of verified miR-155-5p targets approximately threefold and exemplifies a method for verifying miRNA targetomes as a prerequisite for the analysis of miRNA-regulated cellular networks. |
| format | Article |
| id | doaj-art-5e821e863a3c4b58aea9f95e74d461cb |
| institution | Kabale University |
| issn | 1547-6286 1555-8584 |
| language | English |
| publishDate | 2025-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | RNA Biology |
| spelling | doaj-art-5e821e863a3c4b58aea9f95e74d461cb2025-01-11T15:56:47ZengTaylor & Francis GroupRNA Biology1547-62861555-85842025-12-012211910.1080/15476286.2025.2449775Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target predictionMartin Hart0Caroline Diener1Stefanie Rheinheimer2Tim Kehl3Andreas Keller4Hans-Peter Lenhof5Eckart Meese6Institute of Human Genetics, Saarland University (USAAR), Homburg, GermanyInstitute of Human Genetics, Saarland University (USAAR), Homburg, GermanyInstitute of Human Genetics, Saarland University (USAAR), Homburg, GermanyCenter for Bioinformatics, Saarland Informatics Campus, Saarland University (USAAR), Saarbrücken, GermanyChair for Clinical Bioinformatics, Saarland University (USAAR), Saarbrücken, GermanyCenter for Bioinformatics, Saarland Informatics Campus, Saarland University (USAAR), Saarbrücken, GermanyInstitute of Human Genetics, Saarland University (USAAR), Homburg, GermanyThe lack of a sufficient number of validated miRNA targets severely hampers the understanding of their biological function. Even for the well-studied miR-155-5p, there are only 239 experimentally validated targets out of 42,554 predicted targets. For a more complete assessment of the immune-related miR-155 targetome, we used an inverse correlation of time-resolved mRNA profiles and miR-155-5p expression of early CD4+ T cell activation to predict immune-related target genes. Using a high-throughput miRNA interaction reporter (HiTmIR) assay we examined 90 target genes and confirmed 80 genes as direct targets of miR-155-5p. Our study increases the current number of verified miR-155-5p targets approximately threefold and exemplifies a method for verifying miRNA targetomes as a prerequisite for the analysis of miRNA-regulated cellular networks.https://www.tandfonline.com/doi/10.1080/15476286.2025.2449775miR-155-5pCD4+ T cell activationtarget predictiontime-resolved RNA patternsmiRnomicstranscriptomics |
| spellingShingle | Martin Hart Caroline Diener Stefanie Rheinheimer Tim Kehl Andreas Keller Hans-Peter Lenhof Eckart Meese Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction RNA Biology miR-155-5p CD4+ T cell activation target prediction time-resolved RNA patterns miRnomics transcriptomics |
| title | Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction |
| title_full | Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction |
| title_fullStr | Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction |
| title_full_unstemmed | Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction |
| title_short | Expanding the immune-related targetome of miR-155-5p by integrating time-resolved RNA patterns into miRNA target prediction |
| title_sort | expanding the immune related targetome of mir 155 5p by integrating time resolved rna patterns into mirna target prediction |
| topic | miR-155-5p CD4+ T cell activation target prediction time-resolved RNA patterns miRnomics transcriptomics |
| url | https://www.tandfonline.com/doi/10.1080/15476286.2025.2449775 |
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