Link-HD : a versatile framework to explore and integrate heterogeneous microbial communities
Zingaretti, Laura M. (Centre de Recerca en Agrigenòmica)
Renand, Gilles (Université Paris-Saclay. Institut National de la Recherche Agronomique. Génétique Animale et Biologie Intégrative (France))
Morgavi, Diego P. (Institut National de la Recherche Agronomique (França))
Ramayo-Caldas, Yuliaxis (Université Paris-Saclay. Institut National de la Recherche Agronomique. Génétique Animale et Biologie Intégrative (France))

Date:	2020
Abstract:	Motivation: We present Link-HD, an approach to integrate multiple datasets. Link-HD is a generalization of 'Structuration des Tableaux A Trois Indices de la Statistique-Analyse Conjointe de Tableaux', a family of methods designed to integrate information from heterogeneous data. Here, we extend the classical approach to deal with broader datasets (e. g. compositional data), methods for variable selection and taxon-set enrichment analysis. Results: The methodology is demonstrated by integrating rumen microbial communities from cows for which methane yield (CH4y) was individually measured. Our approach reproduces the significant link between rumen microbiota structure and CH4 emission. When analyzing the TARA's ocean data, Link-HD replicates published results, highlighting the relevance of temperature with members of phyla Proteobacteria on the structure and functionality of this ecosystem.
Grants:	Ministerio de Economía y Competitividad SEV-2015-0533 European Commission 665919
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, sempre que no sigui amb finalitats comercials, i sempre que es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Published in:	Bioinformatics, Vol. 36, Issue 7 (April 2020) , p. 2298-2299, ISSN 1367-4811

DOI: 10.1093/bioinformatics/btz862
PMID: 31738392

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