Open Access Research article

The cost of reducing starting RNA quantity for Illumina BeadArrays: A bead-level dilution experiment

Andy G Lynch12*, James Hadfield2, Mark J Dunning2, Michelle Osborne2, Natalie P Thorne3 and Simon Tavaré12

Author Affiliations

1 Department of Oncology, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK

2 Cancer Research UK - CRI, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK

3 Bioinformatics Division, Walter and Eliza Hall Institute of Medical Research, Parkville Victoria 3052, Australia

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BMC Genomics 2010, 11:540  doi:10.1186/1471-2164-11-540

Published: 6 October 2010

Additional files

Additional file 1:

Supplementary material. File giving details of 1) Experimental Design: Array Layout, 2) Lab Methods: Obtaining bead-level data, 3) Lab Methods: Quality assessment metrics, 4) Lab Methods: Quality assessment - comparison with MAQC, 5) Lab Methods: Quality assessment - Association between starting RNA quantity and intensity, 6) Criteria for including bead-types, 7) Results: Detection, 8) Results: Negative controls, 9) Results: Differential expression but no expression, and 10) Results: Differential expression - detection of small changes.

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