Metaball skinning of synthetic astroglial morphologies into realistic mesh models for visual analytics and in silico simulations

Marwan Abdellah; Alessandro Foni; Eleftherios Zisis; Nadir Román Guerrero; Samuel Lapere; Jay S Coggan; Daniel Keller; Henry Markram; Felix Schürmann

doi:10.1093/bioinformatics/btab280

Metaball skinning of synthetic astroglial morphologies into realistic mesh models for visual analytics and in silico simulations

Marwan Abdellah, Alessandro Foni, Eleftherios Zisis, Nadir Román Guerrero, Samuel Lapere, Jay S Coggan, Daniel Keller, Henry Markram, Felix Schürmann

Research output: Contribution to journal › Article › peer-review

7 Scopus citations

Abstract

Abstract Motivation Astrocytes, the most abundant glial cells in the mammalian brain, have an instrumental role in developing neuronal circuits. They contribute to the physical structuring of the brain, modulating synaptic activity and maintaining the blood–brain barrier in addition to other significant aspects that impact brain function. Biophysically, detailed astrocytic models are key to unraveling their functional mechanisms via molecular simulations at microscopic scales. Detailed, and complete, biological reconstructions of astrocytic cells are sparse. Nonetheless, data-driven digital reconstruction of astroglial morphologies that are statistically identical to biological counterparts are becoming available. We use those synthetic morphologies to generate astrocytic meshes with realistic geometries, making it possible to perform these simulations. .

Original language	English (US)
Pages (from-to)	i426-i433
Number of pages	1
Journal	Bioinformatics
Volume	37
Issue number	Supplement_1
DOIs	https://doi.org/10.1093/bioinformatics/btab280
State	Published - Jul 12 2021
Externally published	Yes

Bibliographical note

KAUST Repository Item: Exported on 2021-08-10
Acknowledged KAUST grant number(s): OSR-2017-CRG6-3438
Acknowledgements: This work was supported by funding to the Blue Brain Project, a research center of the E´ cole polytechnique fe´de´rale de Lausanne (EPFL), from the Swiss Government’s ETH Board of the Swiss Federal Institutes of Technology and also supported by the King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR) under Award No. OSR-2017-CRG6-3438.
This publication acknowledges KAUST support, but has no KAUST affiliated authors.

ASJC Scopus subject areas

Biochemistry
Computational Theory and Mathematics
Computational Mathematics
Molecular Biology
Statistics and Probability
Computer Science Applications

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10.1093/bioinformatics/btab280

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title = "Metaball skinning of synthetic astroglial morphologies into realistic mesh models for visual analytics and in silico simulations",

abstract = "Abstract Motivation Astrocytes, the most abundant glial cells in the mammalian brain, have an instrumental role in developing neuronal circuits. They contribute to the physical structuring of the brain, modulating synaptic activity and maintaining the blood–brain barrier in addition to other significant aspects that impact brain function. Biophysically, detailed astrocytic models are key to unraveling their functional mechanisms via molecular simulations at microscopic scales. Detailed, and complete, biological reconstructions of astrocytic cells are sparse. Nonetheless, data-driven digital reconstruction of astroglial morphologies that are statistically identical to biological counterparts are becoming available. We use those synthetic morphologies to generate astrocytic meshes with realistic geometries, making it possible to perform these simulations. .",

author = "Marwan Abdellah and Alessandro Foni and Eleftherios Zisis and Guerrero, {Nadir Rom{\'a}n} and Samuel Lapere and Coggan, {Jay S} and Daniel Keller and Henry Markram and Felix Sch{\"u}rmann",

note = "KAUST Repository Item: Exported on 2021-08-10 Acknowledged KAUST grant number(s): OSR-2017-CRG6-3438 Acknowledgements: This work was supported by funding to the Blue Brain Project, a research center of the E´ cole polytechnique fe´de´rale de Lausanne (EPFL), from the Swiss Government{\textquoteright}s ETH Board of the Swiss Federal Institutes of Technology and also supported by the King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR) under Award No. OSR-2017-CRG6-3438. This publication acknowledges KAUST support, but has no KAUST affiliated authors.",

year = "2021",

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doi = "10.1093/bioinformatics/btab280",

language = "English (US)",

volume = "37",

pages = "i426--i433",

journal = "Bioinformatics",

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T1 - Metaball skinning of synthetic astroglial morphologies into realistic mesh models for visual analytics and in silico simulations

AU - Abdellah, Marwan

AU - Foni, Alessandro

AU - Zisis, Eleftherios

AU - Guerrero, Nadir Román

AU - Lapere, Samuel

AU - Coggan, Jay S

AU - Keller, Daniel

AU - Markram, Henry

AU - Schürmann, Felix

N1 - KAUST Repository Item: Exported on 2021-08-10 Acknowledged KAUST grant number(s): OSR-2017-CRG6-3438 Acknowledgements: This work was supported by funding to the Blue Brain Project, a research center of the E´ cole polytechnique fe´de´rale de Lausanne (EPFL), from the Swiss Government’s ETH Board of the Swiss Federal Institutes of Technology and also supported by the King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR) under Award No. OSR-2017-CRG6-3438. This publication acknowledges KAUST support, but has no KAUST affiliated authors.

PY - 2021/7/12

Y1 - 2021/7/12

N2 - Abstract Motivation Astrocytes, the most abundant glial cells in the mammalian brain, have an instrumental role in developing neuronal circuits. They contribute to the physical structuring of the brain, modulating synaptic activity and maintaining the blood–brain barrier in addition to other significant aspects that impact brain function. Biophysically, detailed astrocytic models are key to unraveling their functional mechanisms via molecular simulations at microscopic scales. Detailed, and complete, biological reconstructions of astrocytic cells are sparse. Nonetheless, data-driven digital reconstruction of astroglial morphologies that are statistically identical to biological counterparts are becoming available. We use those synthetic morphologies to generate astrocytic meshes with realistic geometries, making it possible to perform these simulations. .

AB - Abstract Motivation Astrocytes, the most abundant glial cells in the mammalian brain, have an instrumental role in developing neuronal circuits. They contribute to the physical structuring of the brain, modulating synaptic activity and maintaining the blood–brain barrier in addition to other significant aspects that impact brain function. Biophysically, detailed astrocytic models are key to unraveling their functional mechanisms via molecular simulations at microscopic scales. Detailed, and complete, biological reconstructions of astrocytic cells are sparse. Nonetheless, data-driven digital reconstruction of astroglial morphologies that are statistically identical to biological counterparts are becoming available. We use those synthetic morphologies to generate astrocytic meshes with realistic geometries, making it possible to perform these simulations. .

UR - http://hdl.handle.net/10754/670505

UR - https://academic.oup.com/bioinformatics/article/37/Supplement_1/i426/6319688

U2 - 10.1093/bioinformatics/btab280

DO - 10.1093/bioinformatics/btab280

M3 - Article

C2 - 34252950

SN - 1367-4803

VL - 37

SP - i426-i433

JO - Bioinformatics

JF - Bioinformatics

IS - Supplement_1

ER -

Metaball skinning of synthetic astroglial morphologies into realistic mesh models for visual analytics and in silico simulations

Abstract

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