Hendrik Marks1, Hindrik H D Kerstens2, Tahsin Stefan Barakat3, Erik Splinter4, René A M Dirks2, Guido van Mierlo2, Onkar Joshi2, Shuang-Yin Wang2, Tomas Babak5, Cornelis A Albers6, Tüzer Kalkan7, Austin Smith7, Alice Jouneau8, Wouter de Laat4, Joost Gribnau3, Hendrik G Stunnenberg9. 1. Radboud University, Faculty of Science, Department of Molecular Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, 6500HB, The Netherlands. H.Marks@ncmls.ru.nl. 2. Radboud University, Faculty of Science, Department of Molecular Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, 6500HB, The Netherlands. 3. Department of Reproduction and Development, Erasmus MC, University Medical Center, Rotterdam, The Netherlands. 4. Hubrecht Institute, University Medical Center Utrecht, Uppsalalaan 8, Utrecht, 3584CT, The Netherlands. 5. Biology Department, Queen's University, Kingston, ON, Canada. 6. Radboud University, Faculty of Science, Department of Molecular Developmental Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, 6500HB, The Netherlands. 7. Wellcome Trust-Medical Research Council Stem Cell Institute, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QR, UK. 8. INRA, UMR1198 Biologie du Développement et Reproduction, Jouy-en-Josas, F-78350, France. 9. Radboud University, Faculty of Science, Department of Molecular Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Nijmegen, 6500HB, The Netherlands. H.Stunnenberg@ncmls.ru.nl.
After the publication of this work [1], we noticed there was an error in Fig. 5 where −1,0 and 1 are incorrectly displayed in the y-axis in panel b. Please see the corrected Fig. 5 below. We apologize for this error.
Fig. 5
llele-specific RNA-seq on three NPC lines identifies three distal regions of genes that escape XCI. a Ratio of Xi/Xa (y-axis; for each of the three NPC lines sorted from highest to lowest) for genes showing a log2 ratio of at least −5. We set the cutoff for escape on 10 % relative expression from the Xi versus the Xa (log 2 ratio of > −3.32; similar to Yang et al. [37]). b Xi/Xa ratio of genes that escape XCI in all three NPC lines. c Distribution of the escape genes identified in *NPC_129-Xi over the four clusters as characterized in Fig. 4a. d Localization of the escape genes within each NPC line over the linear X chromosome (see also Table 1). The black dots on the fourth row represent all X-linked genes for which high-confidence allele-specific ratios were obtained in NPCs. e Validation of the escape genes within the three escape regions by Sanger sequencing of cDNA. See Additional file 1: Figure S13 for the full panel of 13 genes that we validated, and for further details
llele-specific RNA-seq on three NPC lines identifies three distal regions of genes that escape XCI. a Ratio of Xi/Xa (y-axis; for each of the three NPC lines sorted from highest to lowest) for genes showing a log2 ratio of at least −5. We set the cutoff for escape on 10 % relative expression from the Xi versus the Xa (log 2 ratio of > −3.32; similar to Yang et al. [37]). b Xi/Xa ratio of genes that escape XCI in all three NPC lines. c Distribution of the escape genes identified in *NPC_129-Xi over the four clusters as characterized in Fig. 4a. d Localization of the escape genes within each NPC line over the linear X chromosome (see also Table 1). The black dots on the fourth row represent all X-linked genes for which high-confidence allele-specific ratios were obtained in NPCs. e Validation of the escape genes within the three escape regions by Sanger sequencing of cDNA. See Additional file 1: Figure S13 for the full panel of 13 genes that we validated, and for further details
Authors: Hendrik Marks; Hindrik H D Kerstens; Tahsin Stefan Barakat; Erik Splinter; René A M Dirks; Guido van Mierlo; Onkar Joshi; Shuang-Yin Wang; Tomas Babak; Cornelis A Albers; Tüzer Kalkan; Austin Smith; Alice Jouneau; Wouter de Laat; Joost Gribnau; Hendrik G Stunnenberg Journal: Genome Biol Date: 2015-08-03 Impact factor: 13.583
Authors: Megan D Schertzer; Keean C A Braceros; Joshua Starmer; Rachel E Cherney; David M Lee; Gabriela Salazar; Megan Justice; Steven R Bischoff; Dale O Cowley; Pablo Ariel; Mark J Zylka; Jill M Dowen; Terry Magnuson; J Mauro Calabrese Journal: Mol Cell Date: 2019-06-27 Impact factor: 17.970