Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma
Despite advancements in therapeutic strategies, diagnostic and prognostic molecular markers of kidney cancer remain scarce, particularly in patients who do not harbour well-defined driver mutations. Recent evidence suggests that a large proportion of the human noncoding transcriptome has escaped det...
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| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Wiley
2018-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2018/6972397 |
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| _version_ | 1832549067455987712 |
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| author | Adam P. Sage Brenda C. Minatel Erin A. Marshall Victor D. Martinez Greg L. Stewart Katey S. S. Enfield Wan L. Lam |
| author_facet | Adam P. Sage Brenda C. Minatel Erin A. Marshall Victor D. Martinez Greg L. Stewart Katey S. S. Enfield Wan L. Lam |
| author_sort | Adam P. Sage |
| collection | DOAJ |
| description | Despite advancements in therapeutic strategies, diagnostic and prognostic molecular markers of kidney cancer remain scarce, particularly in patients who do not harbour well-defined driver mutations. Recent evidence suggests that a large proportion of the human noncoding transcriptome has escaped detection in early genomic explorations. Here, we undertake a large-scale analysis of small RNA-sequencing data from both clear cell renal cell carcinoma (ccRCC) and nonmalignant samples to generate a robust set of miRNAs that remain unannotated in kidney tissues. We find that these novel kidney miRNAs are also expressed in renal cancer cell lines. Moreover, these sequences are differentially expressed between ccRCC and matched nonmalignant tissues, implicating their involvement in ccRCC biology and potential utility as tumour-specific markers of disease. Indeed, we find some of these miRNAs to be significantly associated with patient survival. Finally, target prediction and subsequent pathway analysis reveals that miRNAs previously unannotated in kidney tissues may target genes involved in ccRCC tumourigenesis and disease biology. Taken together, our results represent a new resource for the study of kidney cancer and underscore the need to characterize the unexplored areas of the transcriptome. |
| format | Article |
| id | doaj-art-f54a107c85904e1e86d81ac0b2fbf2cc |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2018-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-f54a107c85904e1e86d81ac0b2fbf2cc2025-02-03T06:12:27ZengWileyInternational Journal of Genomics2314-436X2314-43782018-01-01201810.1155/2018/69723976972397Expanding the miRNA Transcriptome of Human Kidney and Renal Cell CarcinomaAdam P. Sage0Brenda C. Minatel1Erin A. Marshall2Victor D. Martinez3Greg L. Stewart4Katey S. S. Enfield5Wan L. Lam6Department of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDepartment of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDepartment of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDepartment of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDepartment of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDepartment of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDepartment of Integrative Oncology, British Columbia Cancer Research Centre, Vancouver, BC, CanadaDespite advancements in therapeutic strategies, diagnostic and prognostic molecular markers of kidney cancer remain scarce, particularly in patients who do not harbour well-defined driver mutations. Recent evidence suggests that a large proportion of the human noncoding transcriptome has escaped detection in early genomic explorations. Here, we undertake a large-scale analysis of small RNA-sequencing data from both clear cell renal cell carcinoma (ccRCC) and nonmalignant samples to generate a robust set of miRNAs that remain unannotated in kidney tissues. We find that these novel kidney miRNAs are also expressed in renal cancer cell lines. Moreover, these sequences are differentially expressed between ccRCC and matched nonmalignant tissues, implicating their involvement in ccRCC biology and potential utility as tumour-specific markers of disease. Indeed, we find some of these miRNAs to be significantly associated with patient survival. Finally, target prediction and subsequent pathway analysis reveals that miRNAs previously unannotated in kidney tissues may target genes involved in ccRCC tumourigenesis and disease biology. Taken together, our results represent a new resource for the study of kidney cancer and underscore the need to characterize the unexplored areas of the transcriptome.http://dx.doi.org/10.1155/2018/6972397 |
| spellingShingle | Adam P. Sage Brenda C. Minatel Erin A. Marshall Victor D. Martinez Greg L. Stewart Katey S. S. Enfield Wan L. Lam Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma International Journal of Genomics |
| title | Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma |
| title_full | Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma |
| title_fullStr | Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma |
| title_full_unstemmed | Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma |
| title_short | Expanding the miRNA Transcriptome of Human Kidney and Renal Cell Carcinoma |
| title_sort | expanding the mirna transcriptome of human kidney and renal cell carcinoma |
| url | http://dx.doi.org/10.1155/2018/6972397 |
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