Improved statistical analysis of budding yeast TAG microarrays revealed by defined spike-in pools.

TitleImproved statistical analysis of budding yeast TAG microarrays revealed by defined spike-in pools.
Publication TypeJournal Article
Year of Publication2005
AuthorsPeyser BD, Irizarry RA, Tiffany CW, Chen O, Yuan DS, Boeke JD, Spencer FA
JournalNucleic acids research
Volume33
Issue16
Paginatione140
Date Published2005
Abstract

Saccharomyces cerevisiae knockout collection TAG microarrays are an emergent platform for rapid, genome-wide functional characterization of yeast genes. TAG arrays report abundance of unique oligonucleotide 'TAG' sequences incorporated into each deletion mutation of the yeast knockout collection, allowing measurement of relative strain representation across experimental conditions for all knockout mutants simultaneously. One application of TAG arrays is to perform genome-wide synthetic lethality screens, known as synthetic lethality analyzed by microarray (SLAM). We designed a fully defined spike-in pool to resemble typical SLAM experiments and performed TAG microarray hybridizations. We describe a method for analyzing two-color array data to efficiently measure the differential knockout strain representation across two experimental conditions, and use the spike-in pool to show that the sensitivity and specificity of this method exceed typical current approaches.

Alternate JournalNucleic Acids Res.