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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...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2019
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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. |
format | Online Article Text |
id | pubmed-6395712 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
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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