title: Mobster: accurate detection of mobile element  insertions in next generation sequencing data.
abstract: Mobile elements are major drivers in changing genomic architecture and can cause disease. The detection of mobile elements is hindered due to the low mappability of their highly repetitive sequences. We have developed an algorithm, called Mobster, to detect non-reference mobile element insertions in next generation sequencing data from both whole genome and whole exome studies. Mobster uses discordant read pairs and clipped reads in combination with consensus sequences of known active mobile elements. Mobster has a low false discovery rateand high recall rate for both L1 and Alu elements. Mobster is available at http://sourceforge.net/projects/mobster.
authors.affiliation: Department of Human Genetics, RadboudUMC, P.O. Box 9101, 6500, HB, Nijmegen, the Netherlands.
authors.forename: Djie Tjwan
authors.initials: DT
authors.lastname: Thung
authors.forename: Joep
authors.initials: J
authors.lastname: de Ligt
authors.forename: Lisenka E M
authors.initials: LE
authors.lastname: Vissers
authors.forename: Marloes
authors.initials: M
authors.lastname: Steehouwer
authors.forename: Mark
authors.initials: M
authors.lastname: Kroon
authors.forename: Petra
authors.initials: P
authors.lastname: de Vries
authors.forename: Eline P
authors.initials: EP
authors.lastname: Slagboom
authors.forename: Kai
authors.initials: K
authors.lastname: Ye
authors.forename: Joris A
authors.initials: JA
authors.lastname: Veltman
authors.forename: Jayne Y
authors.initials: JY
authors.lastname: Hehir-Kwa
mesh_terms: D000465:Algorithms; D019985:Benchmarking; D004251:DNA Transposable Elements; D015894:Genome, Human; D006801:Humans; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D004251:DNA Transposable Elements