Browsing by Author "Chen, Nan-Yow"

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Kaleido: Visualizing Big Brain Data with Automatic Color Assignment for Single-Neuron Images
(2018-04-01)
Wang, Ting-Yuan
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Chen, Nan-Yow
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He, Guan-Wei
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Wang, Guo-Tzau
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Shih, Chi-Tin
Effective 3D visualization is essential for connectomics analysis, where the number of neural images easily reaches over tens of thousands. A formidable challenge is to simultaneously visualize a large number of distinguishable single-neuron images, with reasonable processing time and memory for file management and 3D rendering. In the present study, we proposed an algorithm named "Kaleido" that can visualize up to at least ten thousand single neurons from the Drosophila brain using only a fraction of the memory traditionally required, without increasing computing time. Adding more brain neurons increases memory only nominally. Importantly, Kaleido maximizes color contrast between neighboring neurons so that individual neurons can be easily distinguished. Colors can also be assigned to neurons based on biological relevance, such as gene expression, neurotransmitters, and/or development history. For cross-lab examination, the identity of every neuron is retrievable from the displayed image. To demonstrate the effectiveness and tractability of the method, we applied Kaleido to visualize the 10,000 Drosophila brain neurons obtained from the FlyCircuit database Thus, Kaleido visualization requires only sensible computer memory for manual examination of big connectomics data.
Thickness Effect of Nanocrystalline Layer on the Deformation Mechanism of Amorphous/Crystalline Multilayered Structure
(2019-01-01)
Lee, Wen-Jay
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Lo, Yu-Chien
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Yang, Anchen
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Chen, Kuanpeng
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Chen, Nan-Yow
Different thickness of amorphous/nanocrystalline multi-layered structure can be used to modulate the strength and ductility of the composite materials. In this work, molecular dynamics simulations were conducted to study the thickness effect of nanocrystalline layer on mechanical properties and deformation behavior of the Cu64Zr36/Cu multi-layer structure. The stress-strain relationship, local stress, local strain, and deformation mechanism are investigated. The results reveal that the change of thickness of the crystalline layer significantly affects the mechanical properties and deformation behavior. As the strain at the elastic region, the amorphous Cu64Zr36 layer dominates the mechanical behavior, leading the fact that Young's modulus, first yielding stress, and first yielding strain are close to that of Cu64Zr36 BMG. As the strain at the plastic region, the contribution of the crystalline layer on the mechanical behavior becomes more and more significant with increasing the thickness of the crystalline layer. For the thickness ratio (amorphous/crystalline) of 4, the shear band deformation of amorphous layer dominates the mechanical properties. For the thickness ratio is 1, the glide dislocation of the crystalline layer dominates the stress-strain behavior.