Fast macro-scale transmission imaging of microvascular networks using KESM

Mayerich, David; Kwon, Jaerock; Sung, Chul; Abbott, Louise C.; Keyser, John; Choe, Yoonsuck

doi:10.1364/boe.2.002888

Cited by 34 publications

(33 citation statements)

References 22 publications

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“…In contrast to the brain's electrical circuit diagram, which is far from complete in any mammalian model organism, recent breakthroughs in imaging and sectioning technology have resulted in high-resolution capillary-level reconstructions of the rodent brain angiome Mayerich et al, 2011;Pathak et al, 2011;Tsai et al, 2009;Xue et al, 2014). Tracing blood vessels is (A) At the microscale level, serial blockface scanning electron microscopy has been used to reconstruct a volume of rodent brain tissue and manually trace a segment of spiny dendrite (shown in red) to visualize synaptic connections.…”

Section: The Brain's Connectome Assessed By Multiple Measures and Scalesmentioning

confidence: 99%

“…Optimization of histological and sectioning techniques in combination with classic methods such as India ink perfusion has resulted in remarkably complete brain-wide capillary-level data sets for mice (Mayerich et al, 2011;Xue et al, 2014). Such data may be used to predict local vulnerability to vascular disruptions, but insight from the data with respect to stroke is still in progress.…”

Section: The Brain's Connectome Assessed By Multiple Measures and Scalesmentioning

confidence: 99%

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Stroke and the Connectome: How Connectivity Guides Therapeutic Intervention

Silasi

Murphy

2014

Neuron

185

146

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Connections between neurons are affected within 3 min of stroke onset by massive ischemic depolarization and then delayed cell death. Some connections can recover with prompt reperfusion; others associated with the dying infarct do not. Disruption in functional connectivity is due to direct tissue loss and indirect disconnections of remote areas known as diaschisis. Stroke is devastating, yet given the brain's redundant design, collateral surviving networks and their connections are well-positioned to compensate. Our perspective is that new treatments for stroke may involve a rational functional and structural connections-based approach. Surviving, affected, and at-risk networks can be identified and targeted with scenario-specific treatments. Strategies for recovery may include functional inhibition of the intact hemisphere, rerouting of connections, or setpoint-mediated network plasticity. These approaches may be guided by brain imaging and enabled by patient- and injury-specific brain stimulation, rehabilitation, and potential molecule-based strategies to enable new connections.

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Section: The Brain's Connectome Assessed By Multiple Measures and Scalesmentioning

confidence: 99%

Section: The Brain's Connectome Assessed By Multiple Measures and Scalesmentioning

confidence: 99%

Stroke and the Connectome: How Connectivity Guides Therapeutic Intervention

Silasi

Murphy

2014

Neuron

185

146

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“…To demonstrate the implementation of image-guided, laser-based hydrogel degradation to generate a 3D, vascular-derived microfluidic network, we utilized a 3D image stack of mouse brain vasculature that was acquired via knife-edged scanning microscopy (KESM) 26,27 . A selected 3D region of the larger microvascular dataset was converted into a series of virtual masks for image-guided microfluidic network formation, as described above.…”

Section: Representative Resultsmentioning

confidence: 99%

Image-guided, Laser-based Fabrication of Vascular-derived Microfluidic Networks

Heintz

Mayerich

Slater

2017

JoVE

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This detailed protocol outlines the implementation of image-guided, laser-based hydrogel degradation for the fabrication of vascular-derived microfluidic networks embedded in PEGDA hydrogels. Here, we describe the creation of virtual masks that allow for image-guided laser control; the photopolymerization of a micromolded PEGDA hydrogel, suitable for microfluidic network fabrication and pressure head-driven flow; the setup and use of a commercially available laser scanning confocal microscope paired with a femtosecond pulsed Ti:S laser to induce hydrogel degradation; and the imaging of fabricated microfluidic networks using fluorescent species and confocal microscopy. Much of the protocol is focused on the proper setup and implementation of the microscope software and microscope macro, as these are crucial steps in using a commercial microscope for microfluidic fabrication purposes that contain a number of intricacies. The image-guided component of this technique allows for the implementation of 3D image stacks or user-generated 3D models, thereby allowing for creative microfluidic design and for the fabrication of complex microfluidic systems of virtually any configuration. With an expected impact in tissue engineering, the methods outlined in this protocol could aid in the fabrication of advanced biomimetic microtissue constructs for organ-and human-on-a-chip devices. By mimicking the complex architecture, tortuosity, size, and density of in vivo vasculature, essential biological transport processes can be replicated in these constructs, leading to more accurate in vitro modeling of drug pharmacokinetics and disease.

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“…We have used the Shepp-Logan phantom (512 3 ), the Visible Human (512 2 × 1884), and a rat brain blood vessel (microvasculature) data set (1024 3 ) acquired using knife-edge scanning microscopy [29]. In this paper, all data sets use 8-bit voxels.…”

Section: Results and Comparisonsmentioning

confidence: 99%

Sparse PDF Volumes for Consistent Multi-Resolution Volume Rendering

Sicat

Krüger

Möller

et al. 2014

IEEE Trans. Visual. Comput. Graphics

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This paper presents a new multi-resolution volume representation called sparse pdf volumes, which enables consistent multi-resolution volume rendering based on probability density functions (pdfs) of voxel neighborhoods. These pdfs are defined in the 4D domain jointly comprising the 3D volume and its 1D intensity range. Crucially, the computation of sparse pdf volumes exploits data coherence in 4D, resulting in a sparse representation with surprisingly low storage requirements. At run time, we dynamically apply transfer functions to the pdfs using simple and fast convolutions. Whereas standard low-pass filtering and down-sampling incur visible differences between resolution levels, the use of pdfs facilitates consistent results independent of the resolution level used. We describe the efficient out-of-core computation of large-scale sparse pdf volumes, using a novel iterative simplification procedure of a mixture of 4D Gaussians. Finally, our data structure is optimized to facilitate interactive multi-resolution volume rendering on GPUs.

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Fast macro-scale transmission imaging of microvascular networks using KESM

Cited by 34 publications

References 22 publications

Stroke and the Connectome: How Connectivity Guides Therapeutic Intervention

Stroke and the Connectome: How Connectivity Guides Therapeutic Intervention

Image-guided, Laser-based Fabrication of Vascular-derived Microfluidic Networks

Sparse PDF Volumes for Consistent Multi-Resolution Volume Rendering

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