4.6 Article

A Generic Multivariate Framework for the Integration of Microbiome Longitudinal Studies With Other Data Types

Related references

Note: Only part of the references are listed.
Article Engineering, Environmental

Ecological consequences of abrupt temperature changes in anaerobic digesters

Celine Madigou et al.

CHEMICAL ENGINEERING JOURNAL (2019)

Article Biochemical Research Methods

DIABLO: an integrative approach for identifying key molecular drivers from multi-omics assays

Amrit Singh et al.

BIOINFORMATICS (2019)

Review Gastroenterology & Hepatology

The influence of antibiotics and dietary components on gut microbiota

Ruth K. Dudek-Wicher et al.

GASTROENTEROLOGY REVIEW-PRZEGLAD GASTROENTEROLOGICZNY (2018)

Article Microbiology

SplinectomeR Enables Group Comparisons in Longitudinal Microbiome Studies

Robin R. Shields-Cutler et al.

FRONTIERS IN MICROBIOLOGY (2018)

Article Endocrinology & Metabolism

Intestinal Metaproteomics Reveals Host-Microbiota Interactions in Subjects at Risk for Type 1 Diabetes

Patrick G. Gavin et al.

DIABETES CARE (2018)

Article Biochemical Research Methods

FROGS: Find, Rapidly, OTUs with Galaxy Solution

Frederic Escudie et al.

BIOINFORMATICS (2018)

Article Biochemical Research Methods

Temporal probabilistic modeling of bacterial compositions derived from 16S rRNA sequencing

Tarmo Aijo et al.

BIOINFORMATICS (2018)

Article Ecology

Modeling time-series data from microbial communities

Benjamin J. Ridenhour et al.

ISME JOURNAL (2017)

Article Multidisciplinary Sciences

DynOmics to identify delays and co-expression patterns across time course experiments

Jasmin Straube et al.

SCIENTIFIC REPORTS (2017)

Article Biochemical Research Methods

Multidomain analyses of a longitudinal human microbiome intestinal cleanout perturbation experiment

Julia Fukuyama et al.

PLOS COMPUTATIONAL BIOLOGY (2017)

Article Biochemical Research Methods

mixOmics: An R package for 'omics feature selection and multiple data integration

Florian Rohart et al.

PLOS COMPUTATIONAL BIOLOGY (2017)

Article Microbiology

Microbiome Datasets Are Compositional: And This Is Not Optional

Gregory B. Gloor et al.

FRONTIERS IN MICROBIOLOGY (2017)

Article Multidisciplinary Sciences

propr: An R-package for Identifying Proportionally Abundant Features Using Compositional Data Analysis

Thomas P. Quinn et al.

SCIENTIFIC REPORTS (2017)

Review Biochemistry & Molecular Biology

Introduction to the human gut microbiota

Elizabeth Thursby et al.

BIOCHEMICAL JOURNAL (2017)

Article Multidisciplinary Sciences

Plankton networks driving carbon export in the oligotrophic ocean

Lionel Guidi et al.

NATURE (2016)

Article Multidisciplinary Sciences

MixMC: A Multivariate Statistical Framework to Gain Insight into Microbial Communities

Kim-Anh Le Cao et al.

PLOS ONE (2016)

Article Biotechnology & Applied Microbiology

MDSINE: Microbial Dynamical Systems INference Engine for microbiome time-series analyses

Vanni Bucci et al.

GENOME BIOLOGY (2016)

Review Microbiology

Metagenomics meets time series analysis: unraveling microbial community dynamics

Karoline Faust et al.

CURRENT OPINION IN MICROBIOLOGY (2015)

Article Multidisciplinary Sciences

A Linear Mixed Model Spline Framework for Analysing Time Course 'Omics' Data

Jasmin Straube et al.

PLOS ONE (2015)

Article Biochemical Research Methods

Proportionality: A Valid Alternative to Correlation for Relative Data

David Lovell et al.

PLOS COMPUTATIONAL BIOLOGY (2015)

Article Multidisciplinary Sciences

Compact graphical representation of phylogenetic data and metadata with GraPhlAn

Francesco Asnicar et al.

PEERJ (2015)

Article Mathematical & Computational Biology

Variable selection for generalized canonical correlation analysis

Arthur Tenenhaus et al.

BIOSTATISTICS (2014)

Review Microbiology

Vaginal Microbiome: Rethinking Health and Disease

Bing Ma et al.

ANNUAL REVIEW OF MICROBIOLOGY, VOL 66 (2012)

Article Biotechnology & Applied Microbiology

Unlocking the potential of metagenomics through replicated experimental design

Rob Knight et al.

NATURE BIOTECHNOLOGY (2012)

Article Biochemical Research Methods

Inferring Dynamic Signatures of Microbes in Complex Host Ecosystems

Georg K. Gerber et al.

PLOS COMPUTATIONAL BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

Syntrophomonadaceae-Affiliated Species as Active Butyrate-Utilizing Syntrophs in Paddy Field Soil

Pengfei Liu et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2011)

Review Microbiology

The skin microbiome

Elizabeth A. Grice et al.

NATURE REVIEWS MICROBIOLOGY (2011)

Article Mathematics, Interdisciplinary Applications

Regularized Generalized Canonical Correlation Analysis

Arthur Tenenhaus et al.

PSYCHOMETRIKA (2011)

Article Statistics & Probability

Sparse Discriminant Analysis

Line Clemmensen et al.

TECHNOMETRICS (2011)

Letter Biochemical Research Methods

QIIME allows analysis of high-throughput community sequencing data

J. Gregory Caporaso et al.

NATURE METHODS (2010)

Article Mathematical & Computational Biology

A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis

Daniela M. Witten et al.

BIOSTATISTICS (2009)

Article Biochemistry & Molecular Biology

A Sparse PLS for Variable Selection when Integrating Omics Data

Kim-Anh Le Cao et al.

STATISTICAL APPLICATIONS IN GENETICS AND MOLECULAR BIOLOGY (2008)

Article Biochemistry & Molecular Biology

Development of the human infant intestinal microbiota

Chana Palmer et al.

PLOS BIOLOGY (2007)

Article Computer Science, Interdisciplinary Applications

Robust forecasting of mortality and fertility rates: A functional data approach

Rob J. Hyndman et al.

COMPUTATIONAL STATISTICS & DATA ANALYSIS (2007)

Article Statistics & Probability

Functional linear regression analysis for longitudinal data

F Yao et al.

ANNALS OF STATISTICS (2005)

Article Mathematical & Computational Biology

Simple fitting of subject-specific curves for longitudinal data

M Durbán et al.

STATISTICS IN MEDICINE (2005)

Article Biochemistry & Molecular Biology

Regulation of the mhp cluster responsible for 3-(3-hydroxyphenyl)propionic acid degradation in Escherichia coli

B Torres et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2003)

Review Plant Sciences

Lignin biosynthesis

W Boerjan et al.

ANNUAL REVIEW OF PLANT BIOLOGY (2003)

Article Statistics & Probability

Selecting the number of knots for penalized splines

D Ruppert

JOURNAL OF COMPUTATIONAL AND GRAPHICAL STATISTICS (2002)