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2017 | OriginalPaper | Chapter

Phenotype Inference from Text and Genomic Data

Authors : Maria Brbić, Matija Piškorec, Vedrana Vidulin, Anita Kriško, Tomislav Šmuc, Fran Supek

Published in: Machine Learning and Knowledge Discovery in Databases

Publisher: Springer International Publishing

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Abstract

We describe ProTraits, a machine learning pipeline that systematically annotates microbes with phenotypes using a large amount of textual data from scientific literature and other online resources, as well as genome sequencing data. Moreover, by relying on a multi-view non-negative matrix factorization approach, ProTraits pipeline is also able to discover novel phenotypic concepts from unstructured text. We present the main components of the developed pipeline and outline challenges for the application to other fields.

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Metadata
Title
Phenotype Inference from Text and Genomic Data
Authors
Maria Brbić
Matija Piškorec
Vedrana Vidulin
Anita Kriško
Tomislav Šmuc
Fran Supek
Copyright Year
2017
Book
Machine Learning and Knowledge Discovery in Databases

Print ISBN: 978-3-319-71272-7

Electronic ISBN: 978-3-319-71273-4

Copyright Year: 2017

DOI
https://doi.org/10.1007/978-3-319-71273-4_34

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