Contact and support
Need help, have a question, or want to contact the ResearchHub team?
© 2026 ResearchHub. Built for responsible scholarly connection.
Research graph
References from Longitudinal omics data analysis: approaches and applications. Local targets link to admitted publications; unresolved targets remain external evidence.
10.2337/dc15-2251
10.2337/dc15-2251 · External reference
10.2307/2529876
10.2307/2529876 · External reference
10.1002/sim.4780111406
10.1002/sim.4780111406 · External reference
10.1186/1471-2105-13-325
10.1186/1471-2105-13-325 · External reference
Unresolved reference
2013 · External reference
Unresolved reference
2009 · External reference
Longitudinal omics modeling and integration in clinical metabonomics research: challenges in childhood metabolic health research
10.3389/fmolb.2015.00044 · 2015 · External reference
10.1038/s41467-020-18148-7
10.1038/s41467-020-18148-7 · External reference
10.1038/s41586-019-1236-x
10.1038/s41586-019-1236-x · External reference
Robust identification of temporal biomarkers in longitudinal omics studies
10.1093/bioinformatics/btac403 · 2022 · External reference
Longitudinal multi-omics analysis identifies early blood-based predictors of anti-TNF therapy response in inflammatory bowel disease
10.1186/s13073-022-01112-z · 2022 · External reference
10.3390/metabo13040484
10.3390/metabo13040484 · External reference
Bias in cross-sectional analyses of longitudinal mediation
10.1037/1082-989x.12.1.23 · 2007 · External reference
10.18637/jss.v100.i20
10.18637/jss.v100.i20 · External reference
10.18637/jss.v046.i09
10.18637/jss.v046.i09 · External reference
10.32614/cran.package.lme4
10.32614/cran.package.lme4 · External reference
10.32614/cran.package.nlme
10.32614/cran.package.nlme · External reference
What if we ignore the random effects when analyzing RNA-seq data in a multifactor experiment
2016 · External reference
10.7717/peerj.4794
10.7717/peerj.4794 · External reference
10.1016/j.jtcvs.2023.08.006
10.1016/j.jtcvs.2023.08.006 · External reference
10.1016/j.xcrm.2021.100323
10.1016/j.xcrm.2021.100323 · External reference
10.1021/acs.jproteome.2c00391
10.1021/acs.jproteome.2c00391 · External reference
10.1080/15592294.2021.1982511
10.1080/15592294.2021.1982511 · External reference
10.1038/s41598-023-41052-1
10.1038/s41598-023-41052-1 · External reference
Model choice and diagnostics for linear mixed-effects models using statistics on street corners
10.1080/10618600.2017.1330207 · 2017 · External reference
10.1038/s41564-022-01107-x
10.1038/s41564-022-01107-x · External reference
10.18103/mra.v13i8.6888
10.18103/mra.v13i8.6888 · External reference
Unresolved reference
External reference
10.1371/journal.pone.0134540
10.1371/journal.pone.0134540 · External reference
10.1080/01621459.1993.10594284
10.1080/01621459.1993.10594284 · External reference
Glmmtmb balances speed and flexibility among packages for zero-inflated generalized linear mixed modeling
10.32614/rj-2017-066 · 2017 · External reference
Generalized linear models with clustered data: fixed and random effects models
10.1016/j.csda.2011.06.011 · 2011 · External reference
10.18637/jss.v033.i02
10.18637/jss.v033.i02 · External reference
10.18637/jss.v080.i01
10.18637/jss.v080.i01 · External reference
On fitting generalized linear mixed-effects models for binary responses using different statistical packages
10.1002/sim.4265 · 2011 · External reference
10.1371/journal.pcbi.1009442
10.1371/journal.pcbi.1009442 · External reference
10.1093/bioinformatics/btw308
10.1093/bioinformatics/btw308 · External reference
Aitchison’s compositional data analysis 40 years on: a reappraisal
10.1214/22-sts880 · 2023 · External reference
Estimating and accounting for unobserved covariates in high-dimensional correlated data
10.1080/01621459.2020.1769635 · 2022 · External reference
10.1186/gb-2013-14-5-r42
10.1186/gb-2013-14-5-r42 · External reference
10.1186/s12864-015-2034-y
10.1186/s12864-015-2034-y · External reference
10.1371/journal.pcbi.1010212
10.1371/journal.pcbi.1010212 · External reference
Variable selection for generalized linear mixed models by L1-penalized estimation
10.1007/s11222-012-9359-z · 2014 · External reference
Glmmlasso: an algorithm for high-dimensional generalized linear mixed models using ℓ1-penalization
10.1080/10618600.2013.773239 · 2014 · External reference
10.1128/iai.00629-19
10.1128/iai.00629-19 · External reference
10.1186/s12859-018-2023-7
10.1186/s12859-018-2023-7 · External reference
10.1093/bioinformatics/btad063
10.1093/bioinformatics/btad063 · External reference
10.1186/1471-2105-15-88
10.1186/1471-2105-15-88 · External reference
Regularization method for predicting an ordinal response using longitudinal high-dimensional genomic data
2015 · External reference
Outcome-dependent sampling for longitudinal binary response data based on a time-varying auxiliary variable
10.1002/sim.4359 · 2012 · External reference
10.1016/j.cell.2020.08.007
10.1016/j.cell.2020.08.007 · External reference
Longitudinal multi-omics study reveals common etiology underlying association between plasma proteome and bmi trajectories in adolescent and young adult twins
2023 · External reference
10.1093/bioinformatics/btz822
10.1093/bioinformatics/btz822 · External reference
Bayesian linear mixed model with multiple random effects for prediction analysis on high-dimensional multi-omics data
10.1093/bioinformatics/btad647 · 2023 · External reference
A penalized linear mixed model with generalized method of moments for prediction analysis on high-dimensional multi-omics data
10.1093/bib/bbac193 · 2022 · External reference
Longitudinal multi-omic evaluation of biomarkers of health and ageing over smoking cessation intervention
2025 · External reference
10.1186/1471-2105-14-6
10.1186/1471-2105-14-6 · External reference
Large scale maximum average power multiple inference on time-course count data with application to RNA-seq analysis
10.1111/biom.13144 · 2020 · External reference
10.1155/2013/203681
10.1155/2013/203681 · External reference
10.1186/s13059-014-0550-8
10.1186/s13059-014-0550-8 · External reference
10.1073/pnas.1710470114
10.1073/pnas.1710470114 · External reference
10.15252/msb.20209596
10.15252/msb.20209596 · External reference
Integrative analysis of longitudinal metabolomics data from a personal multi-omics profile
10.3390/metabo3030741 · 2013 · External reference
Differential expression analysis for pathways
10.1371/annotation/58cf4d21-f9b0-4292-94dd-3177f393a284 · 2013 · External reference
10.1093/nargab/lqad020
10.1093/nargab/lqad020 · External reference
10.1016/j.jcmgh.2021.04.004
10.1016/j.jcmgh.2021.04.004 · External reference
10.1016/j.neuron.2023.10.039
10.1016/j.neuron.2023.10.039 · External reference
10.1186/s12943-022-01635-4
10.1186/s12943-022-01635-4 · External reference
10.1126/sciadv.abm1831
10.1126/sciadv.abm1831 · External reference
10.1172/jci.insight.165299
10.1172/jci.insight.165299 · External reference
10.1038/s41467-023-44524-0
10.1038/s41467-023-44524-0 · External reference
Unresolved reference
External reference
Simulating longitudinal single-cell RNA sequencing data with RESCUE
2025 · External reference
Simulating paired and longitudinal single-cell RNA sequencing data with rescuesim
10.1093/bioinformatics/btaf442 · 2025 · External reference
10.1111/j.0006-341x.2000.00031.x
10.1111/j.0006-341x.2000.00031.x · External reference
10.1093/aje/kwk090
10.1093/aje/kwk090 · External reference
10.1007/b98888
10.1007/b98888 · 2005 · External reference
A time-varying group sparse additive model for genome-wide association studies of dynamic complex traits
10.1093/bioinformatics/btw347 · 2016 · External reference
An additive Gaussian process regression model for interpretable non-parametric analysis of longitudinal data
10.1038/s41467-019-09785-8 · 2019 · External reference
Unresolved reference
External reference
10.1016/j.cell.2016.04.007
10.1016/j.cell.2016.04.007 · External reference
10.1016/j.jprot.2017.10.004
10.1016/j.jprot.2017.10.004 · External reference
10.1093/bioinformatics/btab486
10.1093/bioinformatics/btab486 · External reference
Visualization and curve-parameter estimation strategies for efficient exploration of phenotype microarray kinetics
10.1371/journal.pone.0034846 · 2012 · External reference
10.1093/biostatistics/kxp053
10.1093/biostatistics/kxp053 · External reference
10.18637/jss.v059.i09
10.18637/jss.v059.i09 · External reference
Small sample methods for multilevel modeling: a colloquial elucidation of reml and the kenward-roger correction
10.1080/00273171.2017.1344538 · 2017 · External reference
10.1038/s41467-018-07261-3
10.1038/s41467-018-07261-3 · External reference
10.1186/s12864-016-3195-z
10.1186/s12864-016-3195-z · External reference
10.1158/2159-8290.cd-17-0891
10.1158/2159-8290.cd-17-0891 · External reference
10.1016/j.jocs.2021.101523
10.1016/j.jocs.2021.101523 · External reference
10.1016/j.cels.2019.05.010
10.1016/j.cels.2019.05.010 · External reference
10.1093/bioinformatics/btv261
10.1093/bioinformatics/btv261 · External reference
A comprehensive platform for analyzing longitudinal multi-omics data
10.1038/s41467-023-37432-w · 2023 · External reference
Linear discriminant models for unbalanced longitudinal data
10.1002/1097-0258(20000815)19:15<1969::aid-sim515>3.0.co;2-y · 2000 · External reference
10.1093/biostatistics/kxl003
10.1093/biostatistics/kxl003 · External reference
Cluster analysis using multivariate mixed effects models
10.1002/sim.3632 · 2009 · External reference
Discriminant analysis for longitudinal data with multiple continuous responses and possibly missing data
10.1111/j.1541-0420.2008.01016.x · 2009 · External reference
10.1016/j.csda.2014.04.008
10.1016/j.csda.2014.04.008 · External reference
10.1091/mbc.9.12.3273
10.1091/mbc.9.12.3273 · External reference
10.1126/science.1072152
10.1126/science.1072152 · External reference
Optimal Bayes classifiers for functional data and density ratios
2017 · External reference
Achieving near perfect classification for functional data
10.1111/j.1467-9868.2011.01003.x · 2012 · External reference
Classification of longitudinal data through a semiparametric mixed-effects model based on lasso-type estimators
10.1111/biom.12280 · 2015 · External reference
A classification for complex imbalanced data in disease screening and early diagnosis
10.1002/sim.9442 · 2022 · External reference
Sufficient dimension reduction for longitudinally measured predictors
10.1002/sim.4437 · 2012 · External reference
An introspective comparison of random forest-based classifiers for the analysis of cluster-correlated data by way of RF++
10.1371/journal.pone.0007087 · 2009 · External reference
Mixed-effects random forest for clustered data
10.1080/00949655.2012.741599 · 2014 · External reference
10.1111/biom.13284
10.1111/biom.13284 · External reference
The analysis of multivariate longitudinal data: a review
10.1177/0962280212445834 · 2014 · External reference
Multivariatetlinear mixed models for irregularly observed multiple repeated measures with missing outcomes
10.1002/bimj.201200001 · 2013 · External reference
Extending multivariate-t linear mixed models for multiple longitudinal data with censored responses and heavy tails
10.1177/0962280215620229 · 2018 · External reference
Multivariate linear mixed models with censored and nonignorable missing outcomes, with application to AIDS studies
10.1002/bimj.202100233 · 2022 · External reference
Bayesian analysis of multivariate linear mixed models with censored and intermittent missing responses
10.1002/sim.8554 · 2020 · External reference
Estimation in multivariatetlinear mixed models for longitudinal data with multiple outputs: application to pbcseq data analysis
10.1002/bimj.202000015 · 2022 · External reference
10.1093/aje/kwn287
10.1093/aje/kwn287 · External reference
A Bayesian order-restricted model for hormonal dynamics during menstrual cycles of healthy women
10.1002/sim.4419 · 2012 · External reference
10.1093/bioadv/vbad059
10.1093/bioadv/vbad059 · External reference
10.1093/bib/bbaf502
10.1093/bib/bbaf502 · External reference
Machine learning and deep learning applications in microbiome research
10.1038/s43705-022-00182-9 · 2022 · External reference
Tscytopred: a deep learning framework for inferring cytokine expression trajectories from irregular longitudinal gene expression data to enhance multi-omics analyses
10.7717/peerj.20270 · 2025 · External reference
Unresolved reference
External reference
10.7554/elife.27041
10.7554/elife.27041 · External reference
10.1038/s41591-023-02327-2
10.1038/s41591-023-02327-2 · External reference
10.1038/s41467-020-17358-3
10.1038/s41467-020-17358-3 · External reference
10.1093/bioinformatics/btad286
10.1093/bioinformatics/btad286 · External reference
A review of multi-omics data integration through deep learning approaches for disease diagnosis, prognosis, and treatment
10.3389/fgene.2023.1199087 · 2023 · External reference
Deep learning-based approaches for multi-omics data integration and analysis
10.1186/s13040-024-00391-z · 2024 · External reference
10.1093/bib/bbae339
10.1093/bib/bbae339 · External reference
10.1038/s41586-019-1237-9
10.1038/s41586-019-1237-9 · External reference
Mildint: deep learning-based multimodal longitudinal data integration framework
2019 · External reference
Timeomics: an r package for longitudinal multi-omics data integration
10.1093/bioinformatics/btab664 · 2022 · External reference
10.1093/nar/gkab1200
10.1093/nar/gkab1200 · External reference
10.1016/j.immuni.2020.11.017
10.1016/j.immuni.2020.11.017 · External reference
10.1002/sim.9953
10.1002/sim.9953 · External reference
10.1152/ajplung.00554.2018
10.1152/ajplung.00554.2018 · External reference
10.1073/pnas.1303236110
10.1073/pnas.1303236110 · External reference
A comparison of methods for clustering longitudinal data with slowly changing trends
10.1080/03610918.2020.1861464 · 2023 · External reference
Clustermld: an efficient hierarchical clustering method for multivariate longitudinal data
10.1080/10618600.2022.2149540 · 2023 · External reference
Early breast cancer evolution by autosomal broad copy number alterations
10.1155/2022/9332922 · 2022 · External reference
Kmlshape: an efficient method to cluster longitudinal data (time-series) according to their shapes
10.1371/journal.pone.0150738 · 2016 · External reference
Impulse model-based differential expression analysis of time course sequencing data
2018 · External reference
Modeling the relationship of survival to longitudinal data measured with error. Applications to survival and cd4 counts in patients with AIDS
10.1080/01621459.1995.10476485 · 1995 · External reference
Jointly modeling longitudinal and event time data with application to acquired immunodeficiency syndrome
10.1198/016214501753208591 · 2001 · External reference
Joint longitudinal-survival-cure models and their application to prostate cancer
2004 · External reference
Joint modeling of longitudinal data and informative dropout time in the presence of multiple changepoints
10.1002/sim.4119 · 2011 · External reference
10.1038/s43586-021-00092-5
10.1038/s43586-021-00092-5 · External reference
10.1101/cshperspect.a040501
10.1101/cshperspect.a040501 · External reference
Triangulating evidence from longitudinal and mendelian randomization studies of metabolomic biomarkers for type 2 diabetes
10.1038/s41598-021-85684-7 · 2021 · External reference
10.1002/gepi.22013
10.1002/gepi.22013 · External reference
10.1002/sim.7347
10.1002/sim.7347 · External reference