Efficient algorithms for tandem copy number variation reconstruction in repeat-rich regions

Detecting copy number variation with mated short reads

(2010) P. Medvedev et al.   GENOME RESEARCH

mrsFAST: a cache-oblivious algorithm for short-read mapping

(2010) Faraz Hach et al.   NATURE METHODS

Copy number variant detection in inbred strains from short read sequence data

(2009) J. T. Simpson et al.   BIOINFORMATICS

Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes

(2009) F. Hormozdiari et al.   GENOME RESEARCH

Personalized copy number and segmental duplication maps using next-generation sequencing

(2009) Can Alkan et al.   NATURE GENETICS

MoDIL: detecting small indels from clone-end sequencing with mixtures of distributions

(2009) Seunghak Lee et al.   NATURE METHODS

Computational methods for discovering structural variation with next-generation sequencing

(2009) Paul Medvedev et al.   NATURE METHODS

CNVDetector: locating copy number variations using array CGH data

(2008) Peng-An Chen et al.   BIOINFORMATICS

Major histocompatibility complex (Mhc) class Ib gene duplications, organization and expression patterns in mouse strain C57BL/6

(2008) Masato Ohtsuka et al.   BMC GENOMICS

Mouse segmental duplication and copy number variation

(2008) Xinwei She et al.   NATURE GENETICS

High-resolution mapping of copy-number alterations with massively parallel sequencing

(2008) Derek Y Chiang et al.   NATURE METHODS