title: Lieb Lab at UNC-CH_Yeast Whole-genome and Chr III Tiling Array (PCR-based)
status: Public on May 04 2007
contact.city: Chapel Hill
contact.first: Jason
contact.middle: D
contact.last: Lieb
contact.email: jlieb@bio.unc.edu
contact.state: NC
contact.address: 203 Fordham Hall
contact.department: Department of Biology
contact.country: USA
contact.institute: University of North Carolina at Chapel Hill
contact.phone: 919-842-3228
organism: Saccharomyces cerevisiae
description: Microarrays consisted of two types of probes. The first type represents the whole genome based on annotated functional boundaries. These PCR-amplified products represent ORFs, intergenic regions, and other non-coding regions (rDNA, tRNA, transposons, transposon long terminal repeats, telomeres, centromeres, and introns). Generally, each ORF was represented from start codon to stop codon. The intergenic regions consisted of the DNA between annotated ORFs divided such that PCR products were not longer than 1.5 kb, with a few exceptions. The non-coding regions conform to boundaries as annotated by the Saccharomyces Genome Database (SGD) as of the year 2000. Mitochondrial segments did not necessarily conform to annotated functional boundaries. The second type of probes are higher resolution PCR-amplified products that span almost all of chromosome III at 200 base pair resolution with additional overlapping products covering on third of the chromosome at 100 base pair resolution (coordinates the 10,000 to 83,000). This platform covers several print runs, in which print plates were arranged in different orders.
manufacture_protocol: see Iyer et al. 2001, Nature 409: 533-538