title: H(O)TA: estimation of DNA methylation and hydroxylation levels and efficiencies from time course data.
abstract: BACKGROUND
  Methylation and hydroxylation of cytosines to form 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) belong to the most important epigenetic modifications and their vital role in the regulation of gene expression has been widely recognized. Recent experimental techniques allow to infer methylation and hydroxylation levels at CpG dinucleotides but require a sophisticated statistical analysis to achieve accurate estimates.
  
  
  RESULTS
  We present H(O)TA, a software tool based on a stochastic modeling approach, which simultaneously analyzes time course data from hairpin bisulfite sequencing and hairpin oxidative bisulfite sequencing.
  
  
  METHODS
  : https://mosi.uni-saarland.de/HOTA.
  
  
  BACKGROUND
  charalampos.kyriakopoulos@uni-saarland.de or verena.wolf@uni-saarland.de.
authors.affiliation: Computer Science Department, Saarland University, Saarbruecken, Germany.
authors.forename: Charalampos
authors.initials: C
authors.lastname: Kyriakopoulos
authors.affiliation: Department of Biological Sciences, Saarland University, Saarbruecken, Germany.
authors.forename: Pascal
authors.initials: P
authors.lastname: Giehr
authors.affiliation: Computer Science Department, Saarland University, Saarbruecken, Germany.
authors.forename: Verena
authors.initials: V
authors.lastname: Wolf
mesh_terms: D044503:5-Methylcytosine / Q000031:analogs & derivatives / Q000032:analysis; D018899:CpG Islands; D004247:DNA / Q000737:chemistry* / Q000378:metabolism; D019175:DNA Methylation; D044127:Epigenesis, Genetic; D006900:Hydroxylation; D015233:Models, Statistical; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: C011865:5-hydroxymethylcytosine; D044503:5-Methylcytosine; D004247:DNA