Cross-platform analysis of global microRNA expression technologies
<p>Abstract</p> <p>Background</p> <p>Although analysis of microRNAs (miRNAs) by DNA microarrays is gaining in popularity, these new technologies have not been adequately validated. We examined within and between platform reproducibility of four miRNA array technologies...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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BMC
2010-05-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/11/330 |
| _version_ | 1811251370213244928 |
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| author | Stead John DH Rowan-Carroll Andrea Yauk Carole L Williams Andrew |
| author_facet | Stead John DH Rowan-Carroll Andrea Yauk Carole L Williams Andrew |
| author_sort | Stead John DH |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Although analysis of microRNAs (miRNAs) by DNA microarrays is gaining in popularity, these new technologies have not been adequately validated. We examined within and between platform reproducibility of four miRNA array technologies alongside TaqMan PCR arrays.</p> <p>Results</p> <p>Two distinct pools of reference materials were selected in order to maximize differences in miRNA content. Filtering for miRNA that yielded signal above background revealed 54 miRNA probes (matched by sequence) across all platforms. Using this probeset as well as all probes that were present on an individual platform, within-platform analyses revealed Spearman correlations of >0.9 for most platforms. Comparing between platforms, rank analysis of the log ratios of the two reference pools also revealed high correlation (range 0.663-0.949). Spearman rank correlation and concordance correlation coefficients for miRNA arrays against TaqMan qRT-PCR arrays were similar for all of the technologies. Platform performances were similar to those of previous cross-platform exercises on mRNA and miRNA microarray technologies.</p> <p>Conclusions</p> <p>These data indicate that miRNA microarray platforms generated highly reproducible data and can be recommended for the study of changes in miRNA expression.</p> |
| first_indexed | 2024-04-12T16:18:36Z |
| format | Article |
| id | doaj.art-ccaad33891e94d09b60cc4caea348ec0 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-04-12T16:18:36Z |
| publishDate | 2010-05-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-ccaad33891e94d09b60cc4caea348ec02022-12-22T03:25:38ZengBMCBMC Genomics1471-21642010-05-0111133010.1186/1471-2164-11-330Cross-platform analysis of global microRNA expression technologiesStead John DHRowan-Carroll AndreaYauk Carole LWilliams Andrew<p>Abstract</p> <p>Background</p> <p>Although analysis of microRNAs (miRNAs) by DNA microarrays is gaining in popularity, these new technologies have not been adequately validated. We examined within and between platform reproducibility of four miRNA array technologies alongside TaqMan PCR arrays.</p> <p>Results</p> <p>Two distinct pools of reference materials were selected in order to maximize differences in miRNA content. Filtering for miRNA that yielded signal above background revealed 54 miRNA probes (matched by sequence) across all platforms. Using this probeset as well as all probes that were present on an individual platform, within-platform analyses revealed Spearman correlations of >0.9 for most platforms. Comparing between platforms, rank analysis of the log ratios of the two reference pools also revealed high correlation (range 0.663-0.949). Spearman rank correlation and concordance correlation coefficients for miRNA arrays against TaqMan qRT-PCR arrays were similar for all of the technologies. Platform performances were similar to those of previous cross-platform exercises on mRNA and miRNA microarray technologies.</p> <p>Conclusions</p> <p>These data indicate that miRNA microarray platforms generated highly reproducible data and can be recommended for the study of changes in miRNA expression.</p>http://www.biomedcentral.com/1471-2164/11/330 |
| spellingShingle | Stead John DH Rowan-Carroll Andrea Yauk Carole L Williams Andrew Cross-platform analysis of global microRNA expression technologies BMC Genomics |
| title | Cross-platform analysis of global microRNA expression technologies |
| title_full | Cross-platform analysis of global microRNA expression technologies |
| title_fullStr | Cross-platform analysis of global microRNA expression technologies |
| title_full_unstemmed | Cross-platform analysis of global microRNA expression technologies |
| title_short | Cross-platform analysis of global microRNA expression technologies |
| title_sort | cross platform analysis of global microrna expression technologies |
| url | http://www.biomedcentral.com/1471-2164/11/330 |
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