IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms
The identification of expression quantitative trait loci (eQTL) is an important component in efforts to understand how genetic variants influence disease risk. MicroRNAs (miRNAs) are short noncoding RNA molecules capable of regulating the expression of several genes simultaneously. Recently, several...
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| Format: | Article |
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MDPI AG
2022-10-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/23/20/12493 |
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| author | Afshin Moradi Paul Whatmore Samaneh Farashi Roberto A. Barrero Jyotsna Batra |
| author_facet | Afshin Moradi Paul Whatmore Samaneh Farashi Roberto A. Barrero Jyotsna Batra |
| author_sort | Afshin Moradi |
| collection | DOAJ |
| description | The identification of expression quantitative trait loci (eQTL) is an important component in efforts to understand how genetic variants influence disease risk. MicroRNAs (miRNAs) are short noncoding RNA molecules capable of regulating the expression of several genes simultaneously. Recently, several novel isomers of miRNAs (isomiRs) that differ slightly in length and sequence composition compared to their canonical miRNAs have been reported. Here we present isomiR-eQTL, a user-friendly database designed to help researchers find single nucleotide polymorphisms (SNPs) that can impact miRNA (miR-eQTL) and isomiR expression (isomiR-eQTL) in 30 cancer types. The isomiR-eQTL includes a total of 152,671 miR-eQTLs and 2,390,805 isomiR-eQTLs at a false discovery rate (FDR) of 0.05. It also includes 65,733 miR-eQTLs overlapping known cancer-associated loci identified through genome-wide association studies (GWAS). To the best of our knowledge, this is the first study investigating the impact of SNPs on isomiR expression at the genome-wide level. This database may pave the way for researchers toward finding a model for personalised medicine in which miRNAs, isomiRs, and genotypes are utilised. |
| first_indexed | 2024-03-09T20:05:29Z |
| format | Article |
| id | doaj.art-130d193e2fb94cdcb3af37bf8aaa5c47 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-09T20:05:29Z |
| publishDate | 2022-10-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-130d193e2fb94cdcb3af37bf8aaa5c472023-11-24T00:32:29ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-10-0123201249310.3390/ijms232012493IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their IsoformsAfshin Moradi0Paul Whatmore1Samaneh Farashi2Roberto A. Barrero3Jyotsna Batra4Centre for Genomics and Personalised Health, Queensland University of Technology, Brisbane 4059, AustraliaeResearch, Research Infrastructure, Academic Division, Queensland University of Technology, Brisbane 4000, AustraliaCentre for Genomics and Personalised Health, Queensland University of Technology, Brisbane 4059, AustraliaeResearch, Research Infrastructure, Academic Division, Queensland University of Technology, Brisbane 4000, AustraliaCentre for Genomics and Personalised Health, Queensland University of Technology, Brisbane 4059, AustraliaThe identification of expression quantitative trait loci (eQTL) is an important component in efforts to understand how genetic variants influence disease risk. MicroRNAs (miRNAs) are short noncoding RNA molecules capable of regulating the expression of several genes simultaneously. Recently, several novel isomers of miRNAs (isomiRs) that differ slightly in length and sequence composition compared to their canonical miRNAs have been reported. Here we present isomiR-eQTL, a user-friendly database designed to help researchers find single nucleotide polymorphisms (SNPs) that can impact miRNA (miR-eQTL) and isomiR expression (isomiR-eQTL) in 30 cancer types. The isomiR-eQTL includes a total of 152,671 miR-eQTLs and 2,390,805 isomiR-eQTLs at a false discovery rate (FDR) of 0.05. It also includes 65,733 miR-eQTLs overlapping known cancer-associated loci identified through genome-wide association studies (GWAS). To the best of our knowledge, this is the first study investigating the impact of SNPs on isomiR expression at the genome-wide level. This database may pave the way for researchers toward finding a model for personalised medicine in which miRNAs, isomiRs, and genotypes are utilised.https://www.mdpi.com/1422-0067/23/20/12493miRNAisomiRisomiR-eQTLmiR-eQTLGWAS |
| spellingShingle | Afshin Moradi Paul Whatmore Samaneh Farashi Roberto A. Barrero Jyotsna Batra IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms International Journal of Molecular Sciences miRNA isomiR isomiR-eQTL miR-eQTL GWAS |
| title | IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms |
| title_full | IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms |
| title_fullStr | IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms |
| title_full_unstemmed | IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms |
| title_short | IsomiR-eQTL: A Cancer-Specific Expression Quantitative Trait Loci Database of miRNAs and Their Isoforms |
| title_sort | isomir eqtl a cancer specific expression quantitative trait loci database of mirnas and their isoforms |
| topic | miRNA isomiR isomiR-eQTL miR-eQTL GWAS |
| url | https://www.mdpi.com/1422-0067/23/20/12493 |
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