Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation

Abstract Classification and characterisation of cellular morphological states are vital for understanding cell differentiation, development, proliferation and diverse pathological conditions. As the onset of morphological changes transpires following genetic alterations in the chromatin configuratio...

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Autores principales:	Priyanka Rana, Arcot Sowmya, Erik Meijering, Yang Song
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a24838a0b04e4564adad24f065eaf9fc
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spelling	oai:doaj.org-article:a24838a0b04e4564adad24f065eaf9fc2021-12-02T14:11:32ZEstimation of three-dimensional chromatin morphology for nuclear classification and characterisation10.1038/s41598-021-82985-92045-2322https://doaj.org/article/a24838a0b04e4564adad24f065eaf9fc2021-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-82985-9https://doaj.org/toc/2045-2322Abstract Classification and characterisation of cellular morphological states are vital for understanding cell differentiation, development, proliferation and diverse pathological conditions. As the onset of morphological changes transpires following genetic alterations in the chromatin configuration inside the nucleus, the nuclear texture as one of the low-level properties if detected and quantified accurately has the potential to provide insights on nuclear organisation and enable early diagnosis and prognosis. This study presents a three dimensional (3D) nuclear texture description method for cell nucleus classification and variation measurement in chromatin patterns on the transition to another phenotypic state. The proposed approach includes third plane information using hyperplanes into the design of the Sorted Random Projections (SRP) texture feature and is evaluated on publicly available 3D image datasets of human fibroblast and human prostate cancer cell lines obtained from the Statistics Online Computational Resource. Results show that 3D SRP and 3D Local Binary Pattern provide better classification results than other feature descriptors. In addition, the proposed metrics based on 3D SRP validate the change in intensity and aggregation of heterochromatin on transition to another state and characterise the intermediate and ultimate phenotypic states.Priyanka RanaArcot SowmyaErik MeijeringYang SongNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Priyanka Rana Arcot Sowmya Erik Meijering Yang Song Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
description	Abstract Classification and characterisation of cellular morphological states are vital for understanding cell differentiation, development, proliferation and diverse pathological conditions. As the onset of morphological changes transpires following genetic alterations in the chromatin configuration inside the nucleus, the nuclear texture as one of the low-level properties if detected and quantified accurately has the potential to provide insights on nuclear organisation and enable early diagnosis and prognosis. This study presents a three dimensional (3D) nuclear texture description method for cell nucleus classification and variation measurement in chromatin patterns on the transition to another phenotypic state. The proposed approach includes third plane information using hyperplanes into the design of the Sorted Random Projections (SRP) texture feature and is evaluated on publicly available 3D image datasets of human fibroblast and human prostate cancer cell lines obtained from the Statistics Online Computational Resource. Results show that 3D SRP and 3D Local Binary Pattern provide better classification results than other feature descriptors. In addition, the proposed metrics based on 3D SRP validate the change in intensity and aggregation of heterochromatin on transition to another state and characterise the intermediate and ultimate phenotypic states.
format	article
author	Priyanka Rana Arcot Sowmya Erik Meijering Yang Song
author_facet	Priyanka Rana Arcot Sowmya Erik Meijering Yang Song
author_sort	Priyanka Rana
title	Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
title_short	Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
title_full	Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
title_fullStr	Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
title_full_unstemmed	Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
title_sort	estimation of three-dimensional chromatin morphology for nuclear classification and characterisation
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/a24838a0b04e4564adad24f065eaf9fc
work_keys_str_mv	AT priyankarana estimationofthreedimensionalchromatinmorphologyfornuclearclassificationandcharacterisation AT arcotsowmya estimationofthreedimensionalchromatinmorphologyfornuclearclassificationandcharacterisation AT erikmeijering estimationofthreedimensionalchromatinmorphologyfornuclearclassificationandcharacterisation AT yangsong estimationofthreedimensionalchromatinmorphologyfornuclearclassificationandcharacterisation
_version_	1718391860482801664

Estimation of three-dimensional chromatin morphology for nuclear classification and characterisation

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