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

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

Research output: Contribution to journalArticle

13 Citations (Scopus)

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
StatePublished - Apr 1 2012

Fingerprint

Protein Sequence Analysis
Chromatin
Visualization
Proteins
Sequencing
Reverse
Architecture
Vary
Protein

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Molecular Biology
  • Computational Theory and Mathematics
  • Computer Science Applications
  • Computational Mathematics
  • Statistics and Probability
  • Medicine(all)

Cite this

Lai, William ; Bard, Jonathan E. ; Buck, Michael J. / ArchTEx : Accurate extraction and visualization of next-generation sequence data. In: Bioinformatics. 2012 ; Vol. 28, No. 7. pp. 1021-1023.
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ArchTEx : Accurate extraction and visualization of next-generation sequence data. / Lai, William; Bard, Jonathan E.; Buck, Michael J.

In: Bioinformatics, Vol. 28, No. 7, bts063, 01.04.2012, p. 1021-1023.

Research output: Contribution to journalArticle

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