DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning

Abstract Mapping the structure of the mammalian brain at cellular resolution is a challenging task and one that requires capturing key anatomical features at the appropriate level of analysis. Although neuroscientific methods have managed to provide significant insights at the micro and macro level,...

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Autores principales:	Asim Iqbal, Asfandyar Sheikh, Theofanis Karayannis
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2019
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/0c93a62486f44119a30a0c109bda08fa
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spelling	oai:doaj.org-article:0c93a62486f44119a30a0c109bda08fa2021-12-02T15:08:31ZDeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning10.1038/s41598-019-50137-92045-2322https://doaj.org/article/0c93a62486f44119a30a0c109bda08fa2019-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-019-50137-9https://doaj.org/toc/2045-2322Abstract Mapping the structure of the mammalian brain at cellular resolution is a challenging task and one that requires capturing key anatomical features at the appropriate level of analysis. Although neuroscientific methods have managed to provide significant insights at the micro and macro level, in order to obtain a whole-brain analysis at a cellular resolution requires a meso-scopic approach. A number of methods can be currently used to detect and count cells, with, nevertheless, significant limitations when analyzing data of high complexity. To overcome some of these constraints, we introduce a fully automated Artificial Intelligence (AI)-based method for whole-brain image processing to Detect Neurons in different brain Regions during Development (DeNeRD). We demonstrate a high performance of our deep neural network in detecting neurons labeled with different genetic markers in a range of imaging planes and imaging modalities.Asim IqbalAsfandyar SheikhTheofanis KarayannisNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 9, Iss 1, Pp 1-13 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Asim Iqbal Asfandyar Sheikh Theofanis Karayannis DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning
description	Abstract Mapping the structure of the mammalian brain at cellular resolution is a challenging task and one that requires capturing key anatomical features at the appropriate level of analysis. Although neuroscientific methods have managed to provide significant insights at the micro and macro level, in order to obtain a whole-brain analysis at a cellular resolution requires a meso-scopic approach. A number of methods can be currently used to detect and count cells, with, nevertheless, significant limitations when analyzing data of high complexity. To overcome some of these constraints, we introduce a fully automated Artificial Intelligence (AI)-based method for whole-brain image processing to Detect Neurons in different brain Regions during Development (DeNeRD). We demonstrate a high performance of our deep neural network in detecting neurons labeled with different genetic markers in a range of imaging planes and imaging modalities.
format	article
author	Asim Iqbal Asfandyar Sheikh Theofanis Karayannis
author_facet	Asim Iqbal Asfandyar Sheikh Theofanis Karayannis
author_sort	Asim Iqbal
title	DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning
title_short	DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning
title_full	DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning
title_fullStr	DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning
title_full_unstemmed	DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning
title_sort	denerd: high-throughput detection of neurons for brain-wide analysis with deep learning
publisher	Nature Portfolio
publishDate	2019
url	https://doaj.org/article/0c93a62486f44119a30a0c109bda08fa
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DeNeRD: high-throughput detection of neurons for brain-wide analysis with deep learning

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