Improved canine exome designs, featuring ncRNAs and increased coverage of protein coding genes [Elektronisk resurs]
-
Broeckx, Bart J. G. (författare)
-
Hitte, Christophe (författare)
-
Coopman, Frank (författare)
-
Verhoeven, Geert E. C. (författare)
-
De Keulenaer, Sarah (författare)
-
De Meester, Ellen (författare)
-
Derrien, Thomas (författare)
-
Alfoldi, Jessica (författare)
-
- Lindblad-Toh, Kerstin (författare)
-
-
Alternativt namn: Toh, Kerstin Lindblad-
-
Bosmans, Tim (författare)
-
Gielen, Ingrid (författare)
-
Van Bree, Henri (författare)
-
Van Ryssen, Bernadette (författare)
-
Saunders, Jimmy H. (författare)
-
Van Nieuwerburgh, Filip (författare)
-
Deforce, Dieter (författare)
-
Uppsala universitet Science for Life Laboratory, SciLifeLab (utgivare)
-
Uppsala universitet Medicinska och farmaceutiska vetenskapsområdet (utgivare)
- 2015
- Engelska.
-
Ingår i: Scientific Reports. - 2045-2322. ; 5
-
Läs hela texten
-
Läs hela texten
-
Läs hela texten
Sammanfattning
Ämnesord
Stäng
- 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 approximate to 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 approximate 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.
Ämnesord
- Medical and Health Sciences (hsv)
- Basic Medicine (hsv)
- Medical Genetics (hsv)
- Medicin och hälsovetenskap (hsv)
- Medicinska grundvetenskaper (hsv)
- Medicinsk genetik (hsv)
Inställningar
Hjälp
Beståndsinformation saknas