Affeldt S. auteur aut IRD Sokolovska N. auteur aut IRD Prifti E. auteur aut IRD Zucker Jean-Daniel auteur aut IRD text journalArticle eng text/pdf reformatted digital access Background: The last decades witnessed an explosion of large-scale biological datasets whose analyses require the continuous development of innovative algorithms. Many of these high-dimensional datasets are related to large biological networks with few or no experimentally proven interactions. A striking example lies in the recent gut bacterial studies that provided researchers with a plethora of information sources. Despite a deeper knowledge of microbiome composition, inferring bacterial interactions remains a critical step that encounters significant issues, due in particular to high-dimensional settings, unknown gut bacterial taxa and unavoidable noise in sparse datasets. Such data type make any a priori choice of a learning method particularly difficult and urge the need for the development of new scalable approaches. Results: We propose a consensus method based on spectral decomposition, named Spectral Consensus Strategy, to reconstruct large networks from high-dimensional datasets. This novel unsupervised approach can be applied to a broad range of biological networks and the associated spectral framework provides scalability to diverse reconstruction methods. The results obtained on benchmark datasets demonstrate the interest of our approach for high-dimensional cases. As a suitable example, we considered the human gut microbiome co-presence network. For this application, our method successfully retrieves biologically relevant relationships and gives new insights into the topology of this complex ecosystem. Conclusions: The Spectral Consensus Strategy improves prediction precision and allows scalability of various reconstruction methods to large networks. The integration of multiple reconstruction algorithms turns our approach into a robust learning method. All together, this strategy increases the confidence of predicted interactions from high-dimensional datasets without demanding computations. specialized Network reconstruction Community-based method Spectral theory High-dimensional data Microbiota 122 020 17 16 art. 493 [13 p.] 2016 1471-2105 https://www.documentation.ird.fr/hor/fdi:010068895 10.1186/s12859-016-1308-y 1471-2105 [F B010068895] https://www.documentation.ird.fr/hor/fdi:010068895 https://horizon.documentation.ird.fr/exl-doc/pleins_textes/divers17-02/010068895.pdf IRD - Base Horizon / Pleins textes 2017-03-02 2017-08-23 fdi:010068895 fre