%0 Journal Article %T Improved canine exome designs, featuring ncRNAs and increased coverage of protein coding genes %+ Institut de Génétique et Développement de Rennes (IGDR) %+ Broad Institute of MIT and Harvard (BROAD INSTITUTE) %+ Science for Life Laboratory %A Broeckx, Bart J. G. %A Hitte, Christophe %A Coopman, Frank %A Verhoeven, Geert E. C. %A de Keulenaer, Sarah %A de Meester, Ellen %A Derrien, Thomas %A Alföldi, Jessica %A Lindblad-Toh, Kerstin %A Bosmans, Tim %A Gielen, Ingrid %A van Bree, Henri %A van Ryssen, Bernadette %A Saunders, Jimmy H. %A van Nieuwerburgh, Filip %A Deforce, Dieter %< avec comité de lecture %@ 2045-2322 %J Scientific Reports %I Nature Publishing Group %V 5 %N 1 %P 12810 %8 2015 %D 2015 %R 10.1038/srep12810 %M 26235384 %Z Life Sciences [q-bio]Journal articles %X By limiting sequencing to those sequences transcribed as mRNA, whole exome sequencing is a cost-efficient technique often used in disease-association studies. We developed two target enrichment designs based on the recently released annotation of the canine genome: the exome-plus design and the exome-CDS design. The exome-plus design combines the exons of the CanFam 3.1 Ensembl annotation, more recently discovered protein-coding exons and a variety of non-coding RNA regions (microRNAs, long non-coding RNAs and antisense transcripts), leading to a total size of ≈152 Mb. The exome-CDS was designed as a subset of the exome-plus by omitting all 3' and 5' untranslated regions. This reduced the size of the exome-CDS to ≈71 Mb. To test the capturing performance, four exome-plus captures were sequenced on a NextSeq 500 with each capture containing four pre-capture pooled, barcoded samples. At an average sequencing depth of 68.3x, 80% of the regions and well over 90% of the targeted base pairs were completely covered at least 5 times with high reproducibility. Based on the performance of the exome-plus, we estimated the performance of the exome-CDS. Overall, these designs provide flexible solutions for a variety of research questions and are likely to be reliable tools in disease studies %G English %2 https://univ-rennes.hal.science/hal-01187322/document %2 https://univ-rennes.hal.science/hal-01187322/file/srep12810.pdf %L hal-01187322 %U https://univ-rennes.hal.science/hal-01187322 %~ UNIV-RENNES1 %~ CNRS %~ IGDR %~ STATS-UR1 %~ IGDR-GC %~ UR1-UFR-SVE %~ UR1-HAL %~ UR1-SDV %~ TEST-UNIV-RENNES %~ TEST-UR-CSS %~ UNIV-RENNES %~ UR1-BIO-SA