reGenotyper: Detecting mislabeled samples in genetic data

Konrad Zych, Basten L. Snoek, Mark Elvin, Miriam Rodriguez, K.J. Van Der Velde, Danny Arends, Harm-Jan Westra, Morris A. Swertz, Gino Poulin, Jan E. Kammenga, Rainer Breitling, Ritsert C. Jansen, Yang Li

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Abstract

In high-throughput molecular profiling studies, genotype labels can be wrongly assigned at various experimental steps; the resulting mislabeled samples seriously reduce the power to detect the genetic basis of phenotypic variation. We have developed an approach to detect potential mislabeling, recover the “ideal” genotype and identify “best-matched” labels for mislabeled samples. On average, we identified 4% of samples as mislabeled in eight published datasets, highlighting the necessity of applying a “data cleaning” step before standard data analysis.
Original languageEnglish
Article numbere0171324
JournalPLoS ONE
Volume12
Issue number2
DOIs
Publication statusPublished - 2017

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    Zych, K., Snoek, B. L., Elvin, M., Rodriguez, M., Van Der Velde, K. J., Arends, D., Westra, H-J., Swertz, M. A., Poulin, G., Kammenga, J. E., Breitling, R., Jansen, R. C., & Li, Y. (2017). reGenotyper: Detecting mislabeled samples in genetic data. PLoS ONE, 12(2), [e0171324]. https://doi.org/10.1371/journal.pone.0171324