ArchTEx: Accurate extraction and visualization of next-generation sequence data

William K.M. Lai, Jonathan E. Bard, Michael J. Buck

Research output: Contribution to journalArticle

13 Scopus citations

Abstract

Motivation: The extension of mapped sequence tags is a common step in the analysis of single-end next-generation sequencing (NGS) data from protein localization and chromatin studies. The optimal extension can vary depending on experimental and technical conditions. Improper extension of sequence tags can obscure or mislead the interpretation of NGS results. We present an algorithm, ArchTEx (Architectural Tag Extender), which identifies the optimal extension of sequence tags based on the maximum correlation between forward and reverse tags and extracts and visualizes sites of interest using the predicted extension.

Original languageEnglish (US)
Article numberbts063
Pages (from-to)1021-1023
Number of pages3
JournalBioinformatics
Volume28
Issue number7
DOIs
Publication statusPublished - Apr 1 2012

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All Science Journal Classification (ASJC) codes

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

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