Author Information

Paul L. Auer
R. W. Doerge

Abstract

High throughput deep-sequencing or next-generation sequencing has emerged as an exciting new tool in a great number of applications (e.g., variant discovery, profiling of histone modifications, identifying transcription factor binding sites, resequencing, and transcriptome characterization). Even though this technology has generated unprecedented amounts of data in the scientific community few studies have looked carefully at its inherent variability. Recent studies of mRNA expression levels found little appreciable technical variation in Illumina’s Solexa sequencing platform (a next-generation sequencing device). Although these results are encouraging, they are limited to a specific platform and application, and have been made without any attention to experimental design. This paper provides an overview of some key issues in data management and experimental design related to Illumina’s Solexa Genome Analyzer technology.

Keywords

next-generation sequencing, RNA-Seq, experimental design

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Apr 19th, 10:00 AM

STATISTICAL ISSUES IN NEXT-GENERATION SEQUENCING

High throughput deep-sequencing or next-generation sequencing has emerged as an exciting new tool in a great number of applications (e.g., variant discovery, profiling of histone modifications, identifying transcription factor binding sites, resequencing, and transcriptome characterization). Even though this technology has generated unprecedented amounts of data in the scientific community few studies have looked carefully at its inherent variability. Recent studies of mRNA expression levels found little appreciable technical variation in Illumina’s Solexa sequencing platform (a next-generation sequencing device). Although these results are encouraging, they are limited to a specific platform and application, and have been made without any attention to experimental design. This paper provides an overview of some key issues in data management and experimental design related to Illumina’s Solexa Genome Analyzer technology.