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Regression plane concept for analysing continuous cellular processes with machine learning

Biological processes are inherently continuous, and the chance of phenotypic discovery is significantly restricted by discretising them. Using multi-parametric active regression we introduce the Regression Plane (RP), a user-friendly discovery tool enabling class-free phenotypic supervised machine l...

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Autores principales: Szkalisity, Abel, Piccinini, Filippo, Beleon, Attila, Balassa, Tamas, Varga, Istvan Gergely, Migh, Ede, Molnar, Csaba, Paavolainen, Lassi, Timonen, Sanna, Banerjee, Indranil, Ikonen, Elina, Yamauchi, Yohei, Ando, Istvan, Peltonen, Jaakko, Pietiäinen, Vilja, Honti, Viktor, Horvath, Peter
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8100172/
https://www.ncbi.nlm.nih.gov/pubmed/33953203
http://dx.doi.org/10.1038/s41467-021-22866-x
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author Szkalisity, Abel
Piccinini, Filippo
Beleon, Attila
Balassa, Tamas
Varga, Istvan Gergely
Migh, Ede
Molnar, Csaba
Paavolainen, Lassi
Timonen, Sanna
Banerjee, Indranil
Ikonen, Elina
Yamauchi, Yohei
Ando, Istvan
Peltonen, Jaakko
Pietiäinen, Vilja
Honti, Viktor
Horvath, Peter
author_facet Szkalisity, Abel
Piccinini, Filippo
Beleon, Attila
Balassa, Tamas
Varga, Istvan Gergely
Migh, Ede
Molnar, Csaba
Paavolainen, Lassi
Timonen, Sanna
Banerjee, Indranil
Ikonen, Elina
Yamauchi, Yohei
Ando, Istvan
Peltonen, Jaakko
Pietiäinen, Vilja
Honti, Viktor
Horvath, Peter
author_sort Szkalisity, Abel
collection PubMed
description Biological processes are inherently continuous, and the chance of phenotypic discovery is significantly restricted by discretising them. Using multi-parametric active regression we introduce the Regression Plane (RP), a user-friendly discovery tool enabling class-free phenotypic supervised machine learning, to describe and explore biological data in a continuous manner. First, we compare traditional classification with regression in a simulated experimental setup. Second, we use our framework to identify genes involved in regulating triglyceride levels in human cells. Subsequently, we analyse a time-lapse dataset on mitosis to demonstrate that the proposed methodology is capable of modelling complex processes at infinite resolution. Finally, we show that hemocyte differentiation in Drosophila melanogaster has continuous characteristics.
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spelling pubmed-81001722021-05-11 Regression plane concept for analysing continuous cellular processes with machine learning Szkalisity, Abel Piccinini, Filippo Beleon, Attila Balassa, Tamas Varga, Istvan Gergely Migh, Ede Molnar, Csaba Paavolainen, Lassi Timonen, Sanna Banerjee, Indranil Ikonen, Elina Yamauchi, Yohei Ando, Istvan Peltonen, Jaakko Pietiäinen, Vilja Honti, Viktor Horvath, Peter Nat Commun Article Biological processes are inherently continuous, and the chance of phenotypic discovery is significantly restricted by discretising them. Using multi-parametric active regression we introduce the Regression Plane (RP), a user-friendly discovery tool enabling class-free phenotypic supervised machine learning, to describe and explore biological data in a continuous manner. First, we compare traditional classification with regression in a simulated experimental setup. Second, we use our framework to identify genes involved in regulating triglyceride levels in human cells. Subsequently, we analyse a time-lapse dataset on mitosis to demonstrate that the proposed methodology is capable of modelling complex processes at infinite resolution. Finally, we show that hemocyte differentiation in Drosophila melanogaster has continuous characteristics. Nature Publishing Group UK 2021-05-05 /pmc/articles/PMC8100172/ /pubmed/33953203 http://dx.doi.org/10.1038/s41467-021-22866-x Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Szkalisity, Abel
Piccinini, Filippo
Beleon, Attila
Balassa, Tamas
Varga, Istvan Gergely
Migh, Ede
Molnar, Csaba
Paavolainen, Lassi
Timonen, Sanna
Banerjee, Indranil
Ikonen, Elina
Yamauchi, Yohei
Ando, Istvan
Peltonen, Jaakko
Pietiäinen, Vilja
Honti, Viktor
Horvath, Peter
Regression plane concept for analysing continuous cellular processes with machine learning
title Regression plane concept for analysing continuous cellular processes with machine learning
title_full Regression plane concept for analysing continuous cellular processes with machine learning
title_fullStr Regression plane concept for analysing continuous cellular processes with machine learning
title_full_unstemmed Regression plane concept for analysing continuous cellular processes with machine learning
title_short Regression plane concept for analysing continuous cellular processes with machine learning
title_sort regression plane concept for analysing continuous cellular processes with machine learning
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8100172/
https://www.ncbi.nlm.nih.gov/pubmed/33953203
http://dx.doi.org/10.1038/s41467-021-22866-x
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