title: Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology.
abstract: BACKGROUND
  The accuracy of reference genomes is important for downstream analysis but a low error rate requires expensive manual interrogation of the sequence. Here, we describe a novel algorithm (Iterative Correction of Reference Nucleotides) that iteratively aligns deep coverage of short sequencing reads to correct errors in reference genome sequences and evaluate their accuracy.
  
  
  RESULTS
  Using Plasmodium falciparum (81% A + T content) as an extreme example, we show that the algorithm is highly accurate and corrects over 2000 errors in the reference sequence. We give examples of its application to numerous other eukaryotic and prokaryotic genomes and suggest additional applications.
  
  
  BACKGROUND
  The software is available at http://icorn.sourceforge.net
authors.affiliation: Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA, UK. tdo@sanger.ac.uk
authors.forename: Thomas D
authors.initials: TD
authors.lastname: Otto
authors.forename: Mandy
authors.initials: M
authors.lastname: Sanders
authors.forename: Matthew
authors.initials: M
authors.lastname: Berriman
authors.forename: Chris
authors.initials: C
authors.lastname: Newbold
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D018503:Genome, Protozoan; D023281:Genomics / Q000379:methods*; D009711:Nucleotides / Q000737:chemistry*; D010963:Plasmodium falciparum; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D009711:Nucleotides