Re: [Geuvadis_rnaseq] GEUVADIS QC paper submitted

Hoi PB. Goed gedaan! Met die >65% bedoel je wsch >65% GC? Gr GJ Sent from handheld, sorry for typo's From: Hoen, P.A.C. 't (HG) Sent: Sunday, April 28, 2013 10:12 PM To: 'Jonas Carlsson' <jonas.carlsson(a)medsci.uu.se>se>; 'Marc Friedlaender' <Marc.Friedlaender(a)crg.eu>eu>; 'M.Sammeth' <micha(a)sammeth.net>et>; Pulyakhina, I. (HG); Laros, J.F.J. (HG); Anvar, S.Y. (HG); 'olof.karlberg(a)medsci.uu.se' <olof.karlberg(a)medsci.uu.se>se>; 'Ann-Christine Syvänen' <ann-christine.syvanen(a)medsci.uu.se>se>; 'Roderic Guigo' <roderic.guigo(a)crg.cat>at>; 'xavier.estivill(a)crg.eu' <xavier.estivill(a)crg.eu>eu>; Ommen, G.J.B. van (HG); 'Manolis Dermitzakis' <Emmanouil.Dermitzakis(a)unige.ch>ch>; 'Tuuli.Lappalainen(a)unige.ch' <Tuuli.Lappalainen(a)unige.ch>ch>; Mathias Brännvall (mathias.brannvall(a)medsci.uu.se) <mathias.brannvall(a)medsci.uu.se>se>; Buermans, H.P.J. (HG); Dunnen, J. den Cc: geuvadis_rnaseq(a)lists.crg.es <geuvadis_rnaseq(a)lists.crg.es>es>; Hoen, P.A.C. 't (HG) Subject: GEUVADIS QC paper submitted Dear all I just submitted the revised version of the QC paper. Attached the most important files. An important last minute addition, with possible consequences for current sequencing practice in our laboratories, is the relatively poor representation of exons with >65% in laboratories CNAG, MPIMG, and HMGU (Suppl Figure 6B). This is likely an effect of thermocyclers with high ramp speed, which are actually too fast for proper melting of high GC products. See also Aird et al. Genome Biol 2011. Thank you very much for all your contributions and let’s hope for the best Best wishes Peter