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Tight clustering for large datasets with an application to gene expression data

This article proposes a practical and scalable version of the tight clustering algorithm. The tight clustering algorithm provides tight and stable relevant clusters as output while leaving a set of points as noise or scattered points, that would not go into any cluster. However, the computational li...

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Detalles Bibliográficos
Autores principales: Karmakar, Bikram, Das, Sarmistha, Bhattacharya, Sohom, Sarkar, Rohan, Mukhopadhyay, Indranil
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6395712/
https://www.ncbi.nlm.nih.gov/pubmed/30816195
http://dx.doi.org/10.1038/s41598-019-39459-w
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author Karmakar, Bikram
Das, Sarmistha
Bhattacharya, Sohom
Sarkar, Rohan
Mukhopadhyay, Indranil
author_facet Karmakar, Bikram
Das, Sarmistha
Bhattacharya, Sohom
Sarkar, Rohan
Mukhopadhyay, Indranil
author_sort Karmakar, Bikram
collection PubMed
description This article proposes a practical and scalable version of the tight clustering algorithm. The tight clustering algorithm provides tight and stable relevant clusters as output while leaving a set of points as noise or scattered points, that would not go into any cluster. However, the computational limitation to achieve this precise target of tight clusters prohibits it from being used for large microarray gene expression data or any other large data set, which are common nowadays. We propose a pragmatic and scalable version of the tight clustering method that is applicable to data sets of very large size and deduce the properties of the proposed algorithm. We validate our algorithm with extensive simulation study and multiple real data analyses including analysis of real data on gene expression.
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spelling pubmed-63957122019-03-04 Tight clustering for large datasets with an application to gene expression data Karmakar, Bikram Das, Sarmistha Bhattacharya, Sohom Sarkar, Rohan Mukhopadhyay, Indranil Sci Rep Article This article proposes a practical and scalable version of the tight clustering algorithm. The tight clustering algorithm provides tight and stable relevant clusters as output while leaving a set of points as noise or scattered points, that would not go into any cluster. However, the computational limitation to achieve this precise target of tight clusters prohibits it from being used for large microarray gene expression data or any other large data set, which are common nowadays. We propose a pragmatic and scalable version of the tight clustering method that is applicable to data sets of very large size and deduce the properties of the proposed algorithm. We validate our algorithm with extensive simulation study and multiple real data analyses including analysis of real data on gene expression. Nature Publishing Group UK 2019-02-28 /pmc/articles/PMC6395712/ /pubmed/30816195 http://dx.doi.org/10.1038/s41598-019-39459-w Text en © The Author(s) 2019 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/.
spellingShingle Article
Karmakar, Bikram
Das, Sarmistha
Bhattacharya, Sohom
Sarkar, Rohan
Mukhopadhyay, Indranil
Tight clustering for large datasets with an application to gene expression data
title Tight clustering for large datasets with an application to gene expression data
title_full Tight clustering for large datasets with an application to gene expression data
title_fullStr Tight clustering for large datasets with an application to gene expression data
title_full_unstemmed Tight clustering for large datasets with an application to gene expression data
title_short Tight clustering for large datasets with an application to gene expression data
title_sort tight clustering for large datasets with an application to gene expression data
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6395712/
https://www.ncbi.nlm.nih.gov/pubmed/30816195
http://dx.doi.org/10.1038/s41598-019-39459-w
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