The DNA sequence quality machine at IFOM: A simple web-based tool for quantitative assessment of sequencing reactions

L. Lassandro, R. Lyons, S. Volorio, L. Bernard, A. Guffanti

Research output: Contribution to journalArticle

Abstract

DNA sequence quality is a factor of paramount importance in the world of modern genetic and genomics. Both the sequencing of Human Genome in the "post-draft" era [NHGRI Standard for quality of Human Genomic Sequences, Rev. 7 July (2002) where http://www.nhgri.nih.gov/Grant_info/Funding/ Statements/RFA/quality_standard.html is the HTTP address] and recent "high-throughput" approaches to genetic investigation such as SAGE [Velculescu, V.E., Zhang, L., Vogelstein, B. et al. (1995) "Serial analysis of gene expression", Science 270, 484-487] need a reliable, standardized measure of the quality of a sequencing reaction. The increasing importance of SNP studies also requires a stronger quality control on sequencing reactions by the final user. We propose here a simple, web-based tool for integrated sequence quality evaluation, high quality region quantitative value calculation and chromatogram display. This software is aimed at the small to medium DNA sequence laboratory or to the single researcher, interested in getting a quantitative measure of the sequence quality, browsing the chromatogram and checking the quality values base by base. The program is freely available from the IFOM bioinformatics web Server at http://bio.ifom-firc.it/Phred20/index.html.

Original languageEnglish
Pages (from-to)327-330
Number of pages4
JournalDNA Sequence - Journal of DNA Sequencing and Mapping
Volume14
Issue number4
DOIs
Publication statusPublished - Aug 2003

Keywords

  • DNA sequence
  • IFOM
  • Quantitative assessment
  • Sequencing reactions

ASJC Scopus subject areas

  • Genetics
  • Biochemistry
  • Endocrinology
  • Molecular Biology

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