Claudia Prajescu

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Despite much progress over the past decade, current single nucleotide polymorphism (SNP) genotyping technologies still offer an insufficient degree of multiplexing when required to handle user selected sets of SNPs. In this paper we propose a new genotyping assay architecture combining multiplexed solution-phase single-base extension (SBE) reactions with(More)
In this paper we address two optimization problems arising in the design of genomic assays based on universal tag arrays. First, we address the universal array tag set design problem. For this problem, we extend previous formulations to incorporate antitag-to-antitag hybridization constraints in addition to constraints on antitag-to-tag hybridization(More)
• DNA microarrays provide a tool for answering a wide variety of questions about the dynamics of cells – In which cell tissues and under what environmental conditions is each gene active? – How does the activity level of a gene change with: cell cycle stage, environmental conditions, disease, etc.? – What genes seem to be regulated together? • Universal tag(More)
Despite much progress over the past decade, current Single Nucleotide Polymorphism (SNP) genotyping technologies still offer an insufficient degree of multiplexing when required to handle user-selected sets of SNPs. In this paper we propose a new genotyping assay architecture combining multiplexed solution-phase single-base extension (SBE) reactions with(More)
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