Deciphering the complex: methodological overview of statistical models to derive OMICS-based biomarkers

scientific article published on 05 August 2013

Deciphering the complex: methodological overview of statistical models to derive OMICS-based biomarkers is …
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scholarly articleQ13442814

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P356DOI10.1002/EM.21797
P8608Fatcat IDrelease_3revzbaj2faifnijw7lx7jlehq
P698PubMed publication ID23918146
P5875ResearchGate publication ID255689694

P50authorPaolo VineisQ25999450
Leonardo BottoloQ32652665
Gianluca CampanellaQ47502795
Benoit LiquetQ57551654
Thibaut JombartQ86470153
Marc Chadeau-HyamQ41606161
P2093author name stringRoel C H Vermeulen
Lutzen Portengen
P2860cites workThe importance of using multiple approaches for identifying emerging invasive species: the case of the Rasberry Crazy Ant in the United StatesQ21134046
Population structure and eigenanalysisQ21145248
The use of multiple measurements in taxonomic problemsQ22667799
Estimation of significance thresholds for genomewide association scansQ24289532
Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controlsQ24550675
Analysis of oligonucleotide array experiments with repeated measures using mixed modelsQ24803967
The exposome: from concept to utilityQ26821776
Principal components analysis corrects for stratification in genome-wide association studiesQ27860975
Complement factor H variant increases the risk of age-related macular degenerationQ28239239
Significance analysis of time course microarray experimentsQ28769495
Regularization Paths for Generalized Linear Models via Coordinate DescentQ29614491
Complementing the genome with an "exposome": the outstanding challenge of environmental exposure measurement in molecular epidemiologyQ29615804
Partial least squares: a versatile tool for the analysis of high-dimensional genomic dataQ31044156
Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite dataQ31132869
Genome-wide significance for dense SNP and resequencing dataQ31142964
Genome-wide sparse canonical correlation of gene expression with genotypesQ33332780
Integrated analysis of transcript, protein and metabolite data to study lignin biosynthesis in hybrid aspenQ33389315
The grapevine expression atlas reveals a deep transcriptome shift driving the entire plant into a maturation programQ42773393
A Lasso multi-marker mixed model for association mapping with population structure correction.Q45899443
Generalized additive models for medical researchQ46332360
Principal component analysis of genetic dataQ46712589
A mixture model-based strategy for selecting sets of genes in multiclass response microarray experiments.Q47674316
Detecting differential gene expression with a semiparametric hierarchical mixture methodQ47850306
Patterns of DNA methylation in individual colonic crypts reveal aging and cancer-related field defects in the morphologically normal mucosa.Q51571157
Fixed and random effects selection in linear and logistic models.Q51627083
On lines and planes of closest fit to systems of points in spaceQ55877462
The Bayesian LassoQ55922132
Orthogonal projections to latent structures (O-PLS)Q56435041
Analysis of a complex of statistical variables into principal componentsQ56445548
The Collinearity Problem in Linear Regression. The Partial Least Squares (PLS) Approach to Generalized InversesQ56454402
A sharper Bonferroni procedure for multiple tests of significanceQ56622251
A direct approach to false discovery ratesQ56622258
The positive false discovery rate: a Bayesian interpretation and the q -valueQ56622264
A review of Bayesian variable selection methods: what, how and whichQ57266200
Evolutionary stochastic search for Bayesian model explorationQ57274973
The evolution of partial least squares models and related chemometric approaches in metabonomics and metabolic phenotypingQ58045688
A study of variable selection using -prior distribution with ridge parameterQ58424442
Sparse Principal Component AnalysisQ59409958
Fast stable direct fitting and smoothness selection for generalized additive modelsQ59410296
Regularization and variable selection via the elastic netQ62065858
Model selection and estimation in regression with grouped variablesQ62065859
Theade4Package: Implementing the Duality Diagram for EcologistsQ63389659
OPLS-DA as a suitable method for selecting a set of gene transcripts discriminating RAS- and PTPN11-mutated cells in acute lymphoblastic leukaemiaQ85218367
Relaxed LassoQ105583591
Fast stable restricted maximum likelihood and marginal likelihood estimation of semiparametric generalized linear modelsQ106682697
Sparse canonical methods for biological data integration: application to a cross-platform study.Q33403099
Sparse canonical correlation analysis with application to genomic data integrationQ33409957
Genome-wide association study reveals multiple loci associated with primary tooth development during infancyQ33535894
New insights into the genetic control of gene expression using a Bayesian multi-tissue approachQ33553418
Prioritizing GWAS results: A review of statistical methods and recommendations for their applicationQ33571786
Sparse partial least squares regression for simultaneous dimension reduction and variable selectionQ33608112
Identification of novel biomarkers in seasonal allergic rhinitis by combining proteomic, multivariate and pathway analysisQ34009395
adegenet 1.3-1: new tools for the analysis of genome-wide SNP dataQ34021546
Mixed linear model approach adapted for genome-wide association studiesQ34097144
Genome-wide evolutionary analysis of eukaryotic DNA methylation.Q34110385
Metabolic profiling and the metabolome-wide association study: significance level for biomarker identificationQ34135639
Nonlinear mixed effects models for repeated measures dataQ34198168
BAYESIAN MODEL SEARCH AND MULTILEVEL INFERENCE FOR SNP ASSOCIATION STUDIESQ34416368
A novel approach for biomarker selection and the integration of repeated measures experiments from two assaysQ34502620
An efficient resampling method for assessing genome-wide statistical significance in mapping quantitative trait LociQ34569307
Human metabolic phenotype diversity and its association with diet and blood pressure.Q34772005
Variance component model to account for sample structure in genome-wide association studiesQ34971144
Global gene expression profiling of a population exposed to a range of benzene levelsQ34980955
Metabolome-wide association study identifies multiple biomarkers that discriminate north and south Chinese populations at differing risks of cardiovascular disease: INTERMAP studyQ35051204
Bayesian detection of expression quantitative trait loci hot spotsQ35620404
On the presence and role of human gene-body DNA methylation.Q36050706
An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations.Q36067252
A tutorial on statistical methods for population association studiesQ36597327
Biomarkers intersect with the exposomeQ36607005
Expression quantitative trait loci mapping with multivariate sparse partial least squares regressionQ37173430
A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysisQ37229908
Genetic markers in the playground of multivariate analysisQ37373336
A unified mixed-model method for association mapping that accounts for multiple levels of relatednessQ39513162
Regularization Paths for Cox's Proportional Hazards Model via Coordinate DescentQ39957756
Gene body-specific methylation on the active X chromosomeQ40166744
Statistically integrated metabonomic-proteomic studies on a human prostate cancer xenograft model in miceQ40223413
Epidemiology. Environment and disease risksQ40506446
Discriminant analysis of principal components: a new method for the analysis of genetically structured populationsQ41915386
Genome-wide efficient mixed-model analysis for association studiesQ41961596
Bayesian survival analysis in genetic association studiesQ41983289
ESS++: a C++ objected-oriented algorithm for Bayesian stochastic search model explorationQ42056072
P433issue7
P921main subjectstatisticsQ12483
biomarkerQ864574
P304page(s)542-557
P577publication date2013-08-05
P1433published inEnvironmental and Molecular MutagenesisQ15724469
P1476titleDeciphering the complex: methodological overview of statistical models to derive OMICS-based biomarkers
P478volume54

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cites work (P2860)
Q28395570A Systematic Comparison of Linear Regression-Based Statistical Methods to Assess Exposome-Health Associations
Q52347355A multivariate approach to investigate the combined biological effects of multiple exposures.
Q30977795A statistical framework to model the meeting-in-the-middle principle using metabolomic data: application to hepatocellular carcinoma in the EPIC study
Q28074451Applying metabolomics to cardiometabolic intervention studies and trials: past experiences and a roadmap for the future
Q90716183Applying the exposome concept in birth cohort research: a review of statistical approaches
Q93020745Challenges of the heterogeneous nutrition response: interpreting the group mean
Q36591701Characterising the epigenome as a key component of the fetal exposome in evaluating in utero exposures and childhood cancer risk.
Q41485208Clustering analyses in peptidomics revealed that peptide profiles of infant formulae are descriptive
Q41671843Construction of environmental risk score beyond standard linear models using machine learning methods: application to metal mixtures, oxidative stress and cardiovascular disease in NHANES.
Q30239874Current approaches used in epidemiologic studies to examine short-term multipollutant air pollution exposures
Q58054727Data analysis strategies for targeted and untargeted LC-MS metabolomic studies: Overview and workflow
Q38223336Design and analysis of metabolomics studies in epidemiologic research: a primer on -omic technologies
Q37529167Diet-sourced carbon-based nanoparticles induce lipid alterations in tissues of zebrafish (Danio rerio) with genomic hypermethylation changes in brain
Q49962980EXPOsOMICS: final policy workshop and stakeholder consultation.
Q38384848Epidemiologic design and analysis for proteomic studies: a primer on -omic technologies
Q93024181Identification of cancer omics commonality and difference via community fusion
Q33768928Impacts of the Callipyge mutation on ovine plasma metabolites and muscle fibre type.
Q36344350Integrating multiple omics data for the discovery of potential Beclin-1 interactions in breast cancer
Q27310019Integration Analysis of Three Omics Data Using Penalized Regression Methods: An Application to Bladder Cancer
Q40264608Kidney injury biomarkers and urinary creatinine variability in nominally healthy adults
Q36316332Metabolic profiles of male meat eaters, fish eaters, vegetarians, and vegans from the EPIC-Oxford cohort
Q92131505Metabolic profiles to predict long-term cancer and mortality: the use of latent class analysis
Q38229889Metabolomics in pediatric nephrology: emerging concepts
Q47154406Modern methodologies and tools for human hazard assessment of chemicals
Q98161939OmicsON - Integration of omics data with molecular networks and statistical procedures
Q63865883Patterns in metabolite profile are associated with risk of more aggressive prostate cancer: A prospective study of 3,057 matched case–control sets from EPIC
Q48270857Phthalates, perfluoroalkyl acids, metals and organochlorines and reproductive function: a multipollutant assessment in Greenlandic, Polish and Ukrainian men.
Q41263145Prenatal exposure to environmental chemical contaminants and asthma and eczema in school-age children.
Q35437430Principles and practice of lipidomics
Q35417864Protein networks and activation of lymphocytes
Q53292551R2GUESS: A Graphics Processing Unit-Based R Package for Bayesian Variable Selection Regression of Multivariate Responses.
Q51652544Some challenges of studies aiming to relate the Exposome to human health.
Q30235960The Exposome Research Paradigm: an Opportunity to Understand the Environmental Basis for Human Health and Disease
Q38558531The Pregnancy Exposome
Q92889146The exposome and health: Where chemistry meets biology
Q39561828The exposome in practice: Design of the EXPOsOMICS project.
Q27908536Use of the "exposome" in the practice of epidemiology: a primer on -omic technologies

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