Automation of cDNA Synthesis and Labelling Improves Reproducibility
2009 (English)In: Journal of Biomedicine and Biotechnology, ISSN 1110-7243, E-ISSN 1110-7251, Vol. 2009, 396808- p.Article in journal (Refereed) Published
Background. Several technologies, such as in-depth sequencing and microarrays, enable large-scale interrogation of genomes and transcriptomes. In this study, we asses reproducibility and throughput by moving all laboratory procedures to a robotic workstation, capable of handling superparamagnetic beads. Here, we describe a fully automated procedure for cDNA synthesis and labelling for microarrays, where the puriﬁcation steps prior to and after labelling are based on precipitation of DNA on carboxylic acid-coated paramagnetic beads. Results. The fully automated procedure allows for samples arrayed on a microtiter plate to be processed in parallel without manual intervention and ensuring high reproducibility. We compare our results to a manual sample preparation procedure and, in addition, use a comprehensive reference dataset to show that the protocol described performs better than similar manual procedures. Conclusions. We demonstrate, in an automated gene expression microarray experiment, a reduced variance between replicates, resulting in an increase in the statistical power to detect diﬀerentially expressed genes, thus allowing smaller diﬀerences between samples to be identiﬁed. This protocol can with minor modiﬁcations be used to create cDNA libraries for other applications such as in-depth analysis using next-generation sequencing technologies.
Place, publisher, year, edition, pages
2009. Vol. 2009, 396808- p.
control maqc project; microarray; gene; platforms; database; ncbi
Other Biological Topics
IdentifiersURN: urn:nbn:se:kth:diva-11442DOI: 10.1155/2009/396808ISI: 000271697700001OAI: oai:DiVA.org:kth-11442DiVA: diva2:276123
QC 201007232009-11-102009-11-102010-12-06Bibliographically approved