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dc.contributor.authorCALIA, G.
dc.contributor.authorMARGUERIT, S.
dc.contributor.authorMOTA, A. P. Z.
dc.contributor.authorVIDAL, M.
dc.contributor.authorSCHULER, H.
dc.contributor.authorBRASILEIRO, A. C. M.
dc.contributor.authorGUIMARAES, P. M.
dc.contributor.authorBOTTINI, S.
dc.date.accessioned2026-02-02T13:48:39Z-
dc.date.available2026-02-02T13:48:39Z-
dc.date.created2026-02-02
dc.date.issued2025
dc.identifier.citationPlant Physiology, v. 199, n. 4, kiaf618, 2025.
dc.identifier.urihttp://www.alice.cnptia.embrapa.br/alice/handle/doc/1184066-
dc.descriptionTo address these challenges, we developed HIVE (Horizontal Integration analysis using Variational AutoEncoders), a method to jointly analyze multiple transcriptomics data from different experiments (i.e. unpaired). The current implementation is based on the use of a VAE, a generative model that learns low-dimensional representations of the observed data, using a variational Bayes methodology in an unsupervised framework. By coupling a random forest regression model and the SHAP explainer, HIVE selects relevant genes for the studied phenotype. The application of a nested stratified cross-validation technique allowed us not only to treat datasets with unbalanced classes but also to overcome the small sample size challenges (Fig. 1, Supplementary Note S1, Supplementary Figs. S1 to S5, and Supplementary Tables S1 to S3).
dc.language.isoeng
dc.rightsopenAccess
dc.subjectOmics
dc.subjectHIVE
dc.subjectMultifactorial stress
dc.titleModeling omics integration with HIVE identifies response signatures to multifactorial stress in plants.
dc.typeFolhetos
dc.subject.thesagroPlanta
riaa.ainfo.id1184066
riaa.ainfo.lastupdate2026-02-02
dc.identifier.doihttps://doi.org/10.1093/plphys/kiaf618
dc.contributor.institutionGIULIA CALIA, UNIVERSITÉ CÔTE D’AZUR
dc.contributor.institutionSOPHIA MARGUERIT, UNIVERSITÉ CÔTE D’AZUReng
dc.contributor.institutionANA PAULA ZOTTA MOTA, UNIVERSITÉ CÔTE D’AZUReng
dc.contributor.institutionMANON VIDAL, UNIVERSITÉ CÔTE D’AZUReng
dc.contributor.institutionHANNES SCHULER, FREE UNIVERSITY OF BOLZANOeng
dc.contributor.institutionANA CRISTINA MIRANDA BRASILEIRO, CENARGENeng
dc.contributor.institutionPATRICIA MESSEMBERG GUIMARAES, CENARGENeng
dc.contributor.institutionSILVIA BOTTINI, UNIVERSITÉ CÔTE D’AZUR.eng
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