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Dynamic bayesian networks for integrating multi-omics time series microbiome data
(American Society for Microbiology, 2021-03-30)
A key challenge in the analysis of longitudinal microbiome data is theinference of temporal interactions between microbial taxa, their genes, the metabolites that they consume and produce, and host genes. To address these ...
Multi-omic data integration using joint non-negative matrix and machine learning methods for clinical endpoints prediction and causal parameter estimation in cancer
(Universidad de los AndesDoctorado en IngenieríaFacultad de IngenieríaDepartamento de Ingeniería Industrial, 2022-06-30)
Currently, several data sources drive the understanding of biological or clinical processes. Although their purpose is to assist in optimal decision-making, they require strategies that facilitate these data sources¿ ...
IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses
(BioMed Central Ltd., 2016-12-16)
Existing workflows for the analysis of multi-omic microbiome datasets are lab-specific and often result in sub-optimal data usage. Here we present IMP, a reproducible and modular pipeline for the integrated and ...
Non-invasive biomarkers of fetal brain development reflecting prenatal stress: An integrative multi-scale multi-species perspective on data collection and analysis
(Pergamon-Elsevier Science Ltd, 2018-05)
Prenatal stress (PS) impacts early postnatal behavioural and cognitive development. This process of ‘fetal programming’ is mediated by the effects of the prenatal experience on the developing hypothalamic–pituitary–adrenal ...