Performance evaluation of commercial miRNA expression array platforms

Sachin Sah; Matthew N. McCall; Deepa Eveleigh; Michael Wilson; Rafael A. Irizarry

doi:10.1186/1756-0500-3-80

Performance evaluation of commercial miRNA expression array platforms

Sachin Sah, Matthew N. McCall, Deepa Eveleigh, Michael Wilson, Rafael A. Irizarry

Research output: Contribution to journal › Article › peer-review

23 Scopus citations

Abstract

Background. microRNAs (miRNA) are short, endogenous transcripts that negatively regulate the expression of specific mRNA targets. The relative abundance of miRNAs is linked to function in vivo and miRNA expression patterns are potentially useful signatures for the development of diagnostic, prognostic and therapeutic biomarkers. Finding. We compared the performance characteristics of four commercial miRNA array technologies and found that all platforms performed well in separate measures of performance. Conclusions. The Ambion and Agilent platforms were more accurate, whereas the Illumina and Exiqon platforms were more specific. Furthermore, the data analysis approach had a large impact on the performance, predominantly by improving precision.

Original language	English (US)
Article number	80
Journal	BMC Research Notes
Volume	3
DOIs	https://doi.org/10.1186/1756-0500-3-80
State	Published - 2010
Externally published	Yes

ASJC Scopus subject areas

General Biochemistry, Genetics and Molecular Biology

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title = "Performance evaluation of commercial miRNA expression array platforms",

abstract = "Background. microRNAs (miRNA) are short, endogenous transcripts that negatively regulate the expression of specific mRNA targets. The relative abundance of miRNAs is linked to function in vivo and miRNA expression patterns are potentially useful signatures for the development of diagnostic, prognostic and therapeutic biomarkers. Finding. We compared the performance characteristics of four commercial miRNA array technologies and found that all platforms performed well in separate measures of performance. Conclusions. The Ambion and Agilent platforms were more accurate, whereas the Illumina and Exiqon platforms were more specific. Furthermore, the data analysis approach had a large impact on the performance, predominantly by improving precision.",

author = "Sachin Sah and McCall, {Matthew N.} and Deepa Eveleigh and Michael Wilson and Irizarry, {Rafael A.}",

note = "Funding Information: We thank Lance Ford of BIOO Scientific for administering the blinded study. The work of Rafael A. Irizarry is partially funded by 1R01GM083084-01 and 1R01RR021967-01A2. The work of Mathew McCall is partially funded by T32GM074906.",

year = "2010",

doi = "10.1186/1756-0500-3-80",

language = "English (US)",

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TY - JOUR

T1 - Performance evaluation of commercial miRNA expression array platforms

AU - Sah, Sachin

AU - McCall, Matthew N.

AU - Eveleigh, Deepa

AU - Wilson, Michael

AU - Irizarry, Rafael A.

N1 - Funding Information: We thank Lance Ford of BIOO Scientific for administering the blinded study. The work of Rafael A. Irizarry is partially funded by 1R01GM083084-01 and 1R01RR021967-01A2. The work of Mathew McCall is partially funded by T32GM074906.

PY - 2010

Y1 - 2010

N2 - Background. microRNAs (miRNA) are short, endogenous transcripts that negatively regulate the expression of specific mRNA targets. The relative abundance of miRNAs is linked to function in vivo and miRNA expression patterns are potentially useful signatures for the development of diagnostic, prognostic and therapeutic biomarkers. Finding. We compared the performance characteristics of four commercial miRNA array technologies and found that all platforms performed well in separate measures of performance. Conclusions. The Ambion and Agilent platforms were more accurate, whereas the Illumina and Exiqon platforms were more specific. Furthermore, the data analysis approach had a large impact on the performance, predominantly by improving precision.

AB - Background. microRNAs (miRNA) are short, endogenous transcripts that negatively regulate the expression of specific mRNA targets. The relative abundance of miRNAs is linked to function in vivo and miRNA expression patterns are potentially useful signatures for the development of diagnostic, prognostic and therapeutic biomarkers. Finding. We compared the performance characteristics of four commercial miRNA array technologies and found that all platforms performed well in separate measures of performance. Conclusions. The Ambion and Agilent platforms were more accurate, whereas the Illumina and Exiqon platforms were more specific. Furthermore, the data analysis approach had a large impact on the performance, predominantly by improving precision.

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Performance evaluation of commercial miRNA expression array platforms

Abstract

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