title: Whole exome sequencing of mus musculus
design: Libraries  were  prepared  using  the  Agilent  SureSelectXT  Target  Enrichment  System  in  accordance  with  the manufacturers instructions. Briefly, 200ng of DNA was sheared using a Covaris LE220 sonicator (adaptive focused acoustics). DNA fragments were end-repaired, adenylated, ligated to Illumina sequencing adapters, and amplified by PCR (using 10 cycles). Exome capture was subsequently performed using 500-750ng of the DNA library and the Agilent  SureSelectXT  Mouse  All  Exon  capture  probe  set (version 1).  Captured exome  libraries  were  then  enriched  by  PCR (using  10  cycles).  Final  libraries  were  evaluated  using  fluorescent-based  assays  including  PicoGreen  (Life Technologies)  or  Qubit  Fluorometer  (invitrogen)  and  Fragment  Analyzer  (Advanced  Analytics)  or  BioAnalyzer (Agilent 2100), and were sequenced on an Illumina HiSeq2500 sequencer (v4 chemistry, v2 chemistry for Rapid Run) using 2 x 125bp cycles and aiming for a coverage of 150X. Actual coverage ranged from 110X to 150X