Browse by author
Lookup NU author(s): Dr Ginikachukwu Izuogu, Dr Michael JacksonORCiD, Dr Mauro Santibanez Koref
Full text for this publication is not currently held within this repository. Alternative links are provided below where available.
© The Author(s), under exclusive licence to Springer Nature America, Inc. 2025. Correction to: Nature Methods https://doi.org/10.1038/s41592-023-01944-6, published online 13 July 2023. In the version of the article initially published, 55,238 of 1,137,055 (~ 5%) circRNAs were accidentally shifted one nucleotide in both the start (–1) and end position (+1) and therefore were wrongly annotated. For example, a circRNA with position chr18:8718424–8720495 in the original data became chr18:8718423–8720496. This set of circRNAs comes from 3 tools: KNIFE/NCLscan/NCLcomparator. This happened due to a wrongly performed ‘correction’ of 1-based to 0-based annotation. This affects the following items: The annotation of this subset of circRNAs The overlap between tools The amplicon sequencing precision and compound precision (subgroup BSJ count ≥5) are slightly higher for KNIFE and NCLcomparator The sensitivity has changed as there is more overlap between the tools than initially measured: the set of TP circRNAs is thus 949 unique circRNAs instead of 957 (this also slightly changes the tool ranking (Supplementary Table 6) All main tables and supplementary tables Figs. 2c,d, 3a,b, 4a,b Supplementary Figs. 4, 5, 6, 14, 21, 22, 23, 24, 25, 27, 29, 30, 33, 36, 37, 38, 40 The annotation of this subset of circRNAs The overlap between tools The amplicon sequencing precision and compound precision (subgroup BSJ count ≥5) are slightly higher for KNIFE and NCLcomparator The sensitivity has changed as there is more overlap between the tools than initially measured: the set of TP circRNAs is thus 949 unique circRNAs instead of 957 (this also slightly changes the tool ranking (Supplementary Table 6) All main tables and supplementary tables Figs. 2c,d, 3a,b, 4a,b Supplementary Figs. 4, 5, 6, 14, 21, 22, 23, 24, 25, 27, 29, 30, 33, 36, 37, 38, 40 However, this does not change the main conclusions of the study. The error has now been corrected in the HTML and PDF versions of the article and in the corresponding GitHub repository (https://github.com/OncoRNALab/circRNA_benchmarking). For comparison, the original, uncorrected article is included as Supplementary Information alongside the online version of this notice.
Author(s): Vromman M, Anckaert J, Bortoluzzi S, Buratin A, Chen C-Y, Chu Q, Chuang T-J, Dehghannasiri R, Dieterich C, Dong X, Flicek P, Gaffo E, Gu W, He C, Hoffmann S, Izuogu O, Jackson MS, Jakobi T, Lai EC, Nuytens J, Salzman J, Santibanez-Koref M, Stadler P, Thas O, Vanden Eynde E, Verniers K, Wen G, Westholm J, Yang L, Ye C-Y, Yigit N, Yuan G-H, Zhang J, Zhao F, Vandesompele J, Volders P-J
Publication type: Note
Publication status: Published
Journal: Nature Methods
Year: 2025
Volume: 22
Print publication date: 01/02/2025
Online publication date: 17/01/2025
Acceptance date: 02/04/2018
ISSN (print): 1548-7091
ISSN (electronic): 1548-7105
Publisher: Nature Research
URL: https://doi.org/10.1038/s41592-024-02569-z
DOI: 10.1038/s41592-024-02569-z
PubMed id: 39825083
