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Knockoff genotypes: value in counterfeit

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Virtualconference
Authors : Sabatti, Chiara (Author of the conference)
CIRM (Publisher )

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Abstract : The framework of knockoffs has been recently proposed to perform variable selection under rigorous type-I error control, without relying on strong modeling assumptions. We extend the methodology of knockoffs to a rich family of problems where the distribution of the covariates can be described by a hidden Markov model. We develop an exact and efficient algorithm to sample knockoff variables in this setting and then argue that, combined with the existing selective framework, this provides a natural and powerful tool for performing principled inference in genomewide association studies with guaranteed false discovery rate control. To handle the high level of dependence that can exist between SNPs in linkage disequilibrium, we propose a multi-resolution analysis, that simultaneously identifies loci of importance and provides results analogous to those obtained in fine mapping.

This is joint work with Matteo Sesia, Eugene Katsevich, Stephen Bates and Emmanuel Candes.

Keywords : FDR; knockhoff; gene mapping

MSC Codes :

Additional resources :
https://www.cirm-math.fr/RepOrga/2146/Slides/Sabatti.pdf

    Information on the Video

    Film maker : Hennenfent, Guillaume
    Language : English
    Available date : 15/06/2020
    Conference Date : 03/06/2020
    Subseries : Research talks
    arXiv category : Statistics Theory
    Mathematical Area(s) : Probability & Statistics
    Format : MP4 (.mp4) - HD
    Video Time : 00:56:18
    Targeted Audience : Researchers
    Download : https://videos.cirm-math.fr/2020-06-04_Sabatti.mp4

Information on the Event

Event Title : Mathematical Methods of Modern Statistics 2 / Méthodes mathématiques en statistiques modernes 2
Event Organizers : Bogdan, Malgorzata ; Graczyk, Piotr ; Panloup, Fabien ; Proïa, Frédéric ; Roquain, Etienne
Dates : 15/06/2020 - 19/06/2020
Event Year : 2020
Event URL : https://www.cirm-math.com/cirm-virtual-...

Citation Data

DOI : 10.24350/CIRM.V.19642903
Cite this video as: Sabatti, Chiara (2020). Knockoff genotypes: value in counterfeit. CIRM. Audiovisual resource. doi:10.24350/CIRM.V.19642903
URI : http://dx.doi.org/10.24350/CIRM.V.19642903

See Also

Bibliography

  • SESIA, Matteo, SABATTI, Chiara, et CANDÈS, Emmanuel J. Gene hunting with hidden Markov model knockoffs. Biometrika, 2019, vol. 106, no 1, p. 1-18. - https://doi.org/10.1093/biomet/asy033

  • SESIA, Matteo, KATSEVICH, Eugene, BATES, Stephen, et al. Multi-resolution localization of causal variants across the genome. Nature communications, 2020, vol. 11, no 1, p. 1-10. - http://dx.doi.org/10.1038/s41467-020-14791-2

  • KATSEVICH, Eugene et SABATTI, Chiara. Multilayer knockoff filter: Controlled variable selection at multiple resolutions. The annals of applied statistics, 2019, vol. 13, no 1, p. 1. - http://dx.doi.org/10.1214/18-AOAS1185

  • KATSEVICH, Eugene, SABATTI, Chiara, et BOGOMOLOV, Marina. Controlling FDR while highlighting selected discoveries. arXiv preprint arXiv:1809.01792, 2018. - https://arxiv.org/abs/1809.01792



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