Image Processing Filters for Grids of Cells Analogous to Filters Processing Grids of Pixels

Haase, Robert

doi:10.3389/fcomp.2021.774396

Cited by 5 publications

(2 citation statements)

References 20 publications

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“…Confocal images of individual DM1 glomeruli were processed using a custom code in python, with the package pyclesperanto (Haase, 2021). Images contained a brp-Short and nc82 channel.…”

Section: Brpshort Analysismentioning

confidence: 99%

Metabolic constraints on growth explain how developmental temperature scales synaptic connectivity relevant for behaviour.

Züfle,

Batista,

Brandão

et al. 2023

Preprint

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Environmental temperature dictates the developmental pace of poikilothermic animals, but it remains unclear whether this has consequences for brain wiring and function. InDrosophilatemperature scales synaptic connectivity in the visual system, yet the underlying reasons for such scaling, the generality of this scaling across neural circuits, and the functional implications for behaviour are not understood. Here we combine anatomical, functional, and theoretical approaches to gain insights into the nature and consequences of temperature dependent synaptic scaling within the fly olfactory pathway. We show that synaptic scaling leads to heterogeneous functional effects in different olfactory sub-circuits, with striking consequences for odour-driven behaviours. A first-principle model that imposes different metabolic constraints on the neural system and organism development explains these findings, and generalises to predict brain wiring under ecologically relevant temperature cycles. Our data argue that metabolic constraints dictate the extent of synaptic scaling within neural sub-circuit and that the resulting circuit architecture and function are contingent upon the availability of synaptic partners. This complex interplay between synaptic scaling and partner availability underscores the intricate impact of temperature-dependent developmental plasticity on the behaviour of poikilothermic animals.

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“…Confocal images of individual DM1 glomeruli were processed using a custom code in python, with the package pyclesperanto (Haase, 2021). Images contained a brp-Short and nc82 channel.…”

Section: Brpshort Analysismentioning

confidence: 99%

Metabolic constraints on growth explain how developmental temperature scales synaptic connectivity relevant for behaviour.

Züfle,

Batista,

Brandão

et al. 2023

Preprint

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show abstract

“…Graphics-Processing-Unit (GPU)-accelerated classical image processing [110][111][112][113] will play a major role for overcoming current limitations concerning processing times for large image data. From our perspective, such big-data capable solutions will also facilitate analysing spatial relationships in biological specimen and tissues using modern data-science approaches in the context of spatial-omics and transcriptomics [114][115][116][117][118][119].…”

Section: Emerging Softwarementioning

confidence: 99%

A Hitchhiker's guide through the bio‐image analysis software universe

et al. 2022

Self Cite

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Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualising information derived from microscopy imaging data of biological samples. In the past decade, we observed a dramatic increase in available software packages for these purposes. As it is increasingly difficult to keep track of the number of available image analysis platforms, tool collections, components and emerging technologies, we provide a conservative overview of software that we use in daily routine and give insights into emerging new tools. We give guidance on which aspects to consider when choosing the platform that best suits the user's needs, including aspects such as image data type, skills of the team, infrastructure and community at the institute and availability of time and budget.

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3D bioprinted breast cancer model reveals stroma-mediated modulation of extracellular matrix and radiosensitivity

Desigaux,

Comperat,

Dusserre

et al. 2024

Bioactive Materials

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Image Processing Filters for Grids of Cells Analogous to Filters Processing Grids of Pixels

Cited by 5 publications

References 20 publications

Metabolic constraints on growth explain how developmental temperature scales synaptic connectivity relevant for behaviour.

Metabolic constraints on growth explain how developmental temperature scales synaptic connectivity relevant for behaviour.

A Hitchhiker's guide through the bio‐image analysis software universe

3D bioprinted breast cancer model reveals stroma-mediated modulation of extracellular matrix and radiosensitivity

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