title: Mapping personal functional data to personal genomes.
abstract: BACKGROUND
  The sequencing of personal genomes enabled analysis of variation in transcription factor (TF) binding, chromatin structure and gene expression and indicated how they contribute to phenotypic variation. It is hypothesized that using the reference genome for mapping ChIP-seq or RNA-seq reads may introduce errors, especially at polymorphic genomic regions.
  
  
  RESULTS
  We developed a Personal Genome Editor (perEditor) that changes the reference human genome (NCBI36/hg18) into an individual genome, taking into account single nucleotide polymorphisms (SNPs), insertions and deletions, copy number variation, and chromosomal rearrangements. perEditor outputs two alleles (maternal, paternal) of the individual genome that is ready for mapping ChIP-seq and RNA-seq reads, and enabling the analyses of allele specific binding, chromatin structure and gene expression.
  
  
  BACKGROUND
  perEditor is available at http://biocomp.bioen.uiuc.edu/perEditor.
  
  
  BACKGROUND
  szhong@illinois.edu.
authors: Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
authors: Marcelo
authors: M
authors: Rivas-Astroza
authors: Dan
authors: D
authors: Xie
authors: Xiaoyi
authors: X
authors: Cao
authors: Sheng
authors: S
authors: Zhong
mesh_terms: D056915:DNA Copy Number Variations; D015894:Genome, Human; D023281:Genomics; D006801:Humans; D007206:Individuality; D020411:Oligonucleotide Array Sequence Analysis; D011110:Polymorphism, Genetic; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA