Statistical and Machine-Learning Analyses in Nutritional Genomics Studies

Bioregional Alterations in Gut Microbiome Contribute to the Plasma Metabolomic Changes in Pigs Fed with Inulin

(2020) Weida Wu et al.   Microorganisms

An Integrated Multi-Omics Analysis Defines Key Pathway Alterations in a Diet-Induced Obesity Mouse Model

(2020) Ulrik K. Sundekilde et al.   Metabolites

Human postprandial responses to food and potential for precision nutrition

(2020) Sarah E. Berry et al.   NATURE MEDICINE

A Bayesian framework that integrates multi-omics data and gene networks predicts risk genes from schizophrenia GWAS data

(2019) Quan Wang et al.   NATURE NEUROSCIENCE

A Data Integration Multi-Omics Approach to Study Calorie Restriction-Induced Changes in Insulin Sensitivity

(2019) Maria Carlota Dao et al.   Frontiers in Physiology

Multi-Omic Analysis of the Microbiome and Metabolome in Healthy Subjects Reveals Microbiome-Dependent Relationships Between Diet and Metabolites

(2019) Zheng-Zheng Tang et al.   Frontiers in Genetics

A Multi-omics Approach to Unraveling the Microbiome-Mediated Effects of Arabinoxylan Oligosaccharides in Overweight Humans

(2019) Alfonso Benítez-Páez et al.   mSystems

Fecal Metaproteomic Analysis Reveals Unique Changes of the Gut Microbiome Functions After Consumption of Sourdough Carasau Bread

(2019) Marcello Abbondio et al.   Frontiers in Microbiology

Increased Dairy Product Intake Alters Serum Metabolite Profiles in Subjects at Risk of Developing Type 2 Diabetes

(2019) Sarah O'Connor et al.   MOLECULAR NUTRITION & FOOD RESEARCH

An application of machine learning with feature selection to improve diagnosis and classification of neurodegenerative disorders

(2019) Josefa Díaz Álvarez et al.   BMC BIOINFORMATICS

Lower Circulating Branched‐Chain Amino Acid Concentrations Among Vegetarians are Associated with Changes in Gut Microbial Composition and Function

(2019) Fenglei Wang et al.   MOLECULAR NUTRITION & FOOD RESEARCH

Integrative Network Analysis of Multi-Omics Data in the Link between Plasma Carotenoid Concentrations and Lipid Profile

(2019) Bénédicte L. Tremblay et al.   Lifestyle Genomics

Dietary fat intake associated with bone mineral density among visfatin genotype in obese people

(2018) Leila Khorrami-Nezhad et al.   BRITISH JOURNAL OF NUTRITION

A comparison of statistical and machine-learning techniques in evaluating the association between dietary patterns and 10-year cardiometabolic risk (2002–2012): the ATTICA study

(2018) Dimitris Panaretos et al.   BRITISH JOURNAL OF NUTRITION

An Integrated Understanding of the Rapid Metabolic Benefits of a Carbohydrate-Restricted Diet on Hepatic Steatosis in Humans

(2018) Adil Mardinoglu et al.   Cell Metabolism

WASP (Write a Scientific Paper): Multivariate analysis

(2018) Victor Grech et al.   EARLY HUMAN DEVELOPMENT

Multi-omics approach to elucidate the gut microbiota activity: Metaproteomics and metagenomics connection

(2018) Maria Guirro et al.   ELECTROPHORESIS

Integrated Omics: Tools, Advances, and Future Approaches

(2018) Biswapriya B Misra et al.   JOURNAL OF MOLECULAR ENDOCRINOLOGY

Supervised Machine Learning for Population Genetics: A New Paradigm

(2018) Daniel R. Schrider et al.   TRENDS IN GENETICS

Associations between Single Nucleotide Polymorphisms and Total Energy, Carbohydrate, and Fat Intakes: A Systematic Review

(2018) Theresa Drabsch et al.   Advances in Nutrition

Integrative Personal Omics Profiles during Periods of Weight Gain and Loss

(2018) Brian D. Piening et al.   Cell Systems

Overview of MicroRNA Biogenesis, Mechanisms of Actions, and Circulation

(2018) Jacob O'Brien et al.   Frontiers in Endocrinology

Application of a new dietary pattern analysis method in nutritional epidemiology

(2018) Fengqing Zhang et al.   BMC Medical Research Methodology

A Metabologenomic Approach Reveals Changes in the Intestinal Environment of Mice Fed on American Diet

(2018) Chiharu Ishii et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Proposed guidelines to evaluate scientific validity and evidence for genotype-based dietary advice

(2017) Keith A. Grimaldi et al.   Genes and Nutrition

DNA methylation and DNA methyltransferases

(2017) John R. Edwards et al.   Epigenetics & Chromatin

Individual Diet Modeling Shows How to Balance the Diet of French Adults with or without Excessive Free Sugar Intakes

(2017) Anne Lluch et al.   Nutrients

Translation of Nutritional Genomics into Nutrition Practice: The Next Step

(2017) Chiara Murgia et al.   Nutrients

Transcriptomics and the Mediterranean Diet: A Systematic Review

(2017) Luis Herrera-Marcos et al.   Nutrients

Meta-analytic support vector machine for integrating multiple omics data

(2017) SungHwan Kim et al.   BioData Mining

More Is Better: Recent Progress in Multi-Omics Data Integration Methods

(2017) Sijia Huang et al.   Frontiers in Genetics

Proposed guidelines to evaluate scientific validity and evidence for genotype-based dietary advice

(2017) Keith A. Grimaldi et al.   Genes and Nutrition

Integration of multi-omics data for prediction of phenotypic traits using random forest

(2016) Animesh Acharjee et al.   BMC BIOINFORMATICS

Mice Fed a High-Fat Diet Supplemented with Resistant Starch Display Marked Shifts in the Liver Metabolome Concurrent with Altered Gut Bacteria

(2016) Dorothy A Kieffer et al.   JOURNAL OF NUTRITION

Proteomics reveals the effects of sustained weight loss on the human plasma proteome

(2016) Philipp E Geyer et al.   Molecular Systems Biology

Interactions with the MC4R rs17782313 variant, mental stress and energy intake and the risk of obesity in Genome Epidemiology Study

(2016) Sunmin Park et al.   Nutrition & Metabolism

Personalized Nutrition by Prediction of Glycemic Responses

(2015) David Zeevi et al.   CELL

Interactions between Obesity-Related Copy Number Variants and Dietary Behaviors in Childhood Obesity

(2015) Dandan Zhang et al.   Nutrients

Dietary Modulation of Gut Microbiota Contributes to Alleviation of Both Genetic and Simple Obesity in Children

(2015) Chenhong Zhang et al.   EBioMedicine

Genome-wide association study of the plasma triglyceride response to an n-3 polyunsaturated fatty acid supplementation

(2014) Iwona Rudkowska et al.   JOURNAL OF LIPID RESEARCH

MicroRNAs Are Absorbed in Biologically Meaningful Amounts from Nutritionally Relevant Doses of Cow Milk and Affect Gene Expression in Peripheral Blood Mononuclear Cells, HEK-293 Kidney Cell Cultures, and Mouse Livers

(2014) Scott R. Baier et al.   JOURNAL OF NUTRITION

An Integrated Multi-Omics Study Revealed Metabolic Alterations Underlying the Effects of Coffee Consumption

(2014) Shoko Takahashi et al.   PLoS One

OMICtools: an informative directory for multi-omic data analysis

(2014) V. J. Henry et al.   Database-The Journal of Biological Databases and Curation

Associations between red meat intake and biomarkers of inflammation and glucose metabolism in women

(2013) Sylvia H Ley et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Associations between dietary patterns and gene expression profiles of healthy men and women: a cross-sectional study

(2013) Annie Bouchard-Mercier et al.   Nutrition Journal

Modulation of Histone Acetylation by Garlic Sulfur Compounds

(2012) Nathalie Druesne-Pecollo et al.   Anti-Cancer Agents in Medicinal Chemistry

Dietary patterns obtained through principal components analysis: the effect of input variable quantification

(2012) Andrew D. A. C. Smith et al.   BRITISH JOURNAL OF NUTRITION

Epigenetic changes induced by curcumin and other natural compounds

(2011) Simone Reuter et al.   Genes and Nutrition

An Essential Role for Diet in Exercise-Mediated Protection against Dyslipidemia, Inflammation and Atherosclerosis in ApoE-/- Mice

(2011) Liliana Cesar et al.   PLoS One

Statistics and bioinformatics in nutritional sciences: analysis of complex data in the era of systems biology☆

(2010) Wenjiang J. Fu et al.   JOURNAL OF NUTRITIONAL BIOCHEMISTRY

Histone modification levels are predictive for gene expression

(2010) R. Karlic et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multivariate paired data analysis: multilevel PLSDA versus OPLSDA

(2009) Johan A. Westerhuis et al.   Metabolomics

Publishing Nutrition Research: A Review of Sampling, Sample Size, Statistical Analysis, and Other Key Elements of Manuscript Preparation, Part 2

(2008) Carol J. Boushey et al.   JOURNAL OF THE AMERICAN DIETETIC ASSOCIATION