Phylogenetic convolutional neural networks in metagenomics

• Published in: BMC bioinformatics Vol. 19; no. S2; pp. 49 - 13
• Main Authors: Fioravanti, Diego, Giarratano, Ylenia, Maggio, Valerio, Agostinelli, Claudio, Chierici, Marco, Jurman, Giuseppe, Furlanello, Cesare
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 08.03.2018; BioMed Central; BMC
• Subjects: Algorithms; Analysis; Computational biology; Convolutional neural networks; Data Analysis; Databases, Genetic; Deep learning; Genomics; Humans; Inflammatory Bowel Diseases - genetics; Innovations; Metagenomics; Neural Networks (Computer); Phylogenetic trees; Phylogeny; Principal Component Analysis; Reproducibility of Results; Support Vector Machine; Deep learning; Metagenomics; Phylogenetic trees; Convolutional neural networks

Convolutional Neural Networks can be effectively used only when data are endowed with an intrinsic concept of neighbourhood in the input space, as is the case of pixels in images. We introduce here Ph-CNN, a novel deep learning architecture for the classification of metagenomics data based on the Co...