A scalable hierarchical lasso for gene-environment interactions.
hierarchical variable selection
joint analysis
screening rules
Journal
Journal of computational and graphical statistics : a joint publication of American Statistical Association, Institute of Mathematical Statistics, Interface Foundation of North America
ISSN: 1061-8600
Titre abrégé: J Comput Graph Stat
Pays: United States
ID NLM: 101470926
Informations de publication
Date de publication:
2022
2022
Historique:
entrez:
16
2
2023
pubmed:
17
2
2023
medline:
17
2
2023
Statut:
ppublish
Résumé
We describe a regularized regression model for the selection of gene-environment (G×E) interactions. The model focuses on a single environmental exposure and induces a main-effect-before-interaction hierarchical structure. We propose an efficient fitting algorithm and screening rules that can discard large numbers of irrelevant predictors with high accuracy. We present simulation results showing that the model outperforms existing joint selection methods for (G×E) interactions in terms of selection performance, scalability and speed, and provide a real data application. Our implementation is available in the gesso R package.
Identifiants
pubmed: 36793591
doi: 10.1080/10618600.2022.2039161
pmc: PMC9928188
mid: NIHMS1798410
doi:
Types de publication
Journal Article
Langues
eng
Pagination
1091-1103Subventions
Organisme : NCI NIH HHS
ID : P01 CA196569
Pays : United States
Organisme : NIEHS NIH HHS
ID : T32 ES013678
Pays : United States
Références
J Stat Softw. 2010;33(1):1-22
pubmed: 20808728
Proc Natl Acad Sci U S A. 2000 Apr 11;97(8):4291-6
pubmed: 10760295
Cells. 2019 Nov 04;8(11):
pubmed: 31689891
Mol Cell. 2013 Jan 24;49(2):359-367
pubmed: 23177740
Genomics. 2013 Oct;102(4):189-94
pubmed: 23994599
PLoS Genet. 2014 Apr 17;10(4):e1004228
pubmed: 24743840
Genet Epidemiol. 2010 Dec;34(8):879-91
pubmed: 21104890
Ann Stat. 2013 Jun;41(3):1111-1141
pubmed: 26257447
J Comput Graph Stat. 2015;24(3):627-654
pubmed: 26759522
Lab Invest. 2005 Apr;85(4):502-11
pubmed: 15711569
Cell Mol Life Sci. 2020 Mar;77(5):859-874
pubmed: 31960115
J Transl Med. 2008 Jul 24;6:41
pubmed: 18652693
J Comput Graph Stat. 2016;25(4):981-1004
pubmed: 28316461
PLoS Genet. 2020 Oct 23;16(10):e1009141
pubmed: 33095761
Aging Cell. 2012 Oct;11(5):727-31
pubmed: 22888763
Biometrics. 2020 Mar;76(1):23-35
pubmed: 31424088
Biom J. 2017 Jul;59(4):685-701
pubmed: 27862181
Stat Med. 2018 Feb 10;37(3):437-456
pubmed: 29034484