Cargando…
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...
Autores principales: | , , , , , , , , , , , , , , , , |
---|---|
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 |
_version_ | 1783688724940324864 |
---|---|
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. |
format | Online Article Text |
id | pubmed-8100172 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
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 |
work_keys_str_mv | AT szkalisityabel regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT piccininifilippo regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT beleonattila regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT balassatamas regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT vargaistvangergely regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT mighede regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT molnarcsaba regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT paavolainenlassi regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT timonensanna regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT banerjeeindranil regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT ikonenelina regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT yamauchiyohei regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT andoistvan regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT peltonenjaakko regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT pietiainenvilja regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT hontiviktor regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning AT horvathpeter regressionplaneconceptforanalysingcontinuouscellularprocesseswithmachinelearning |