Link-HD

Link-HD integrates heterogeneous datasets by generalizing the STATIS-ACT framework to analyze compositional data from microbial communities and reveal associations across data types.

Key Features:

• Integration of Diverse Data Types: Generalizes STATIS-ACT (Structuration des Tableaux A Trois Indices de la Statistique-Analyse Conjointe de Tableaux) to integrate multiple heterogeneous datasets, including compositional datasets.
• Variable Selection: Implements advanced methods for variable selection to identify significant variables across integrated datasets.
• Taxon-set Enrichment Analysis: Provides taxon-set enrichment analysis to detect taxa or taxon sets that drive observed patterns in microbial data.
• Application to Microbial Communities: Applied to rumen microbiota data integrated with methane yield measurements to identify links between microbiota structure and methane emissions.
• Reproducibility of Published Results: Reproduces published analyses such as TARA ocean data and highlights ecological relationships, including temperature effects on Proteobacteria.

Scientific Applications:

• Microbial community analysis: Integrates compositional microbiome data with environmental or phenotypic measurements to identify associations between taxa and sample-level variables.
• Environmental and agricultural research: Relates rumen microbiota structure to methane yield for studies of greenhouse gas emissions in livestock.
• Ecosystem functionality studies: Analyzes large-scale datasets such as TARA ocean data to reveal ecological drivers, exemplified by temperature influences on Proteobacteria.

Methodology:

Generalizes the STATIS-ACT approach to integrate heterogeneous and compositional datasets and includes computational steps for variable selection and taxon-set enrichment analysis.