WPU-Net: Boundary Learning by Using Weighted Propagation in Convolution Network

Deep learning has driven a great progress in natural and biological image processing. However, in material science and engineering, there are often some flaws and indistinctions in material microscopic images induced from complex sample preparation, even due to the material itself, hindering the detection of target objects. In this work, we propose WPU-net that redesigns the architecture and weighted loss of U-Net, which forces the network to integrate information from adjacent slices and pays more attention to the topology in boundary detection task. Then, the WPU-net is applied into a typical material example, i.e., the grain boundary detection of polycrystalline material. Experiments demonstrate that the proposed method achieves promising performance and outperforms state-of-the-art methods. Besides, we propose a new method for object tracking between adjacent slices, which can effectively reconstruct 3D structure of the whole material. Finally, we present a material microscopic image dataset with the goal of advancing the state-of-the-art in image processing for material science.Comment: technical repor

Revealing ensemble state transition patterns in multi-electrode neuronal recordings using hidden Markov models

In order to harness the computational capacity of dissociated cultured neuronal networks, it is necessary to understand neuronal dynamics and connectivity on a mesoscopic scale. To this end, this paper uncovers dynamic spatiotemporal patterns emerging from electrically stimulated neuronal cultures using hidden Markov models (HMMs) to characterize multi-channel spike trains as a progression of patterns of underlying states of neuronal activity. However, experimentation aimed at optimal choice of parameters for such models is essential and results are reported in detail. Results derived from ensemble neuronal data revealed highly repeatable patterns of state transitions in the order of milliseconds in response to probing stimuli

Ultra-Sharp Nanowire Arrays Natively Permeate, Record, and Stimulate Intracellular Activity in Neuronal and Cardiac Networks

Intracellular access with high spatiotemporal resolution can enhance our understanding of how neurons or cardiomyocytes regulate and orchestrate network activity, and how this activity can be affected with pharmacology or other interventional modalities. Nanoscale devices often employ electroporation to transiently permeate the cell membrane and record intracellular potentials, which tend to decrease rapidly to extracellular potential amplitudes with time. Here, we report innovative scalable, vertical, ultra-sharp nanowire arrays that are individually addressable to enable long-term, native recordings of intracellular potentials. We report large action potential amplitudes that are indicative of intracellular access from 3D tissue-like networks of neurons and cardiomyocytes across recording days and that do not decrease to extracellular amplitudes for the duration of the recording of several minutes. Our findings are validated with cross-sectional microscopy, pharmacology, and electrical interventions. Our experiments and simulations demonstrate that individual electrical addressability of nanowires is necessary for high-fidelity intracellular electrophysiological recordings. This study advances our understanding of and control over high-quality multi-channel intracellular recordings, and paves the way toward predictive, high-throughput, and low-cost electrophysiological drug screening platforms.Comment: Main manuscript: 33 pages, 4 figures, Supporting information: 43 pages, 27 figures, Submitted to Advanced Material

Technical note : TRACKFlow, a new versatile microscope system forfission track analysis

We here present TRACKFlow, a new system with dedicated modules for the fission track (FT) laboratory. It is based on the motorised Nikon Eclipse Ni-E upright microscope with the Nikon DS-Ri2 full frame camera and is embedded within the Nikon NIS-Elements Advanced Research software package. TRACKFlow decouples image acquisition from analysis to decrease schedule stress of the microscope. The system further has the aim of being versatile, adaptable to multiple preparation protocols and analysis approaches. It is both suited for small-scale laboratories and is also ready for upscaling to high-throughput imaging. The versatility of the system, based on the operators’ full access to the NIS-Elements package, exceeds that of other systems for FT and further expands to stepping away from the dedicated FT microscope towards a general microscope for Earth Sciences, including dedicated modules for FT research. TRACKFlow consists of a number of user-friendly protocols which are based on the well plate design that allows sequential scanning of multiple samples without the need of replacing the slide on the stage. All protocols include a sub-protocol to scan a map of the mount for easy navigation through the samples on the stage. Two protocols are designed for the External Detector Method (EDM) and the LA–ICP–MS apatite fission track (LAFT) approach, with tools for repositioning and calibration to the external detector. Two other tools are designed for large crystals, such as the Durango age standard and U-doped glass external detectors. These protocols generate a regular grid of points and inspect if each point is suitable for analysis. Both protocols also include an option to image each withheld point. One more protocol is included for the measurement of etch pit diameters and one last protocol prepares a list of coordinates for correlative microscopy. In a following phase of development TRACKFlow can be expanded towards fully autonomous calibration, grain detection and imaging

Reactive Atom Plasma (RAP) figuring machine for meter class optical surfaces

A new surface figuring machine called Helios 1200 is presented in this paper. It is designed for the figuring of meter sized optical surfaces with form accuracy correction capability better than 20 nm rms within a reduced number of iterations. Unlike other large figuring facilities using energy beams, Helios 1200 operates a plasma torch at atmospheric pressure, offers a high material removal rate, and a relatively low running cost. This facility is ideal to process large optical components, lightweight optics, silicon based and difficult to machine materials, aspheric, and free form surfaces. Also, the surfaces processed by the reactive atom plasma (RAP) are easy to fine polish through hand conventional sub-aperture polishing techniques. These unique combined features lead to a new capability for the fabrication of optical components opening up novel design possibilities for optical engineers. The key technical features of this large RAP machine are fast figuring capabilities, non-contact material removal tool, the use of a near Gaussian footprint energy beam, and a proven tool path strategy for the management of the heat transfer. Helios 1200 complies with the European machine safety standard and can be used with different types of reactive gases using either fluorine or chlorine compounds. In this paper, first the need for large optical component is discussed. Then, the RAP facility is described: radio frequency R.F generator, plasma torch, and 3 axis computer numerically controlled motion system. Both the machine design and the performance of the RAP tool is assessed under specific production conditions and in the context of meter class mirror and lens fabrication

Modeling, Fabrication, and Optimization of Niobium Cavities – Phase I: Quarterly Progress Report November 20, 2001 - February 20, 2002

Multipacting is one of the major loss mechanisms in RF superconductivity cavities for accelerators. This loss mechanism limits the maximum amount of energy/power supported by the cavities. Optimal designs have been identified in others’ studies. In practice, these designs are not easily manufactured. Chemical etching processes used to polish the cavity walls result in a nonuniform surface etch. A nonuniform surface etch will leave some unclean areas with contaminants and micron size particles. These significantly affect multipacting. Further, a nonuniform etch will leave areas with damaged grain structure, which is not good for superconducting properties. Typically, the depth of chemical polishing etch ranges between 10 to 150 microns. It is the purpose of this study to examine the chemical etching process in the design of niobium cavities so to maximize the surface quality of the cavity walls while minimizing the multipacting losses. Single and multiple cavity cell geometries are to be investigated. Optimization techniques will be applied in search of the chemical etching processes, which will lead to cavity walls with near ideal properties

An electrostatic levitator for high-temperature containerless materials processing in 1-g

This article discusses recent developments in high-temperature electrostatic levitation technology for containerless processing of metals and alloys. Presented is the first demonstration of an electrostatic levitation technology which can levitate metals and alloys (2–4 mm diam spheres) in vacuum and of superheating-undercooling-recalescence cycles which can be repeated while maintaining good positioning stability. The electrostatic levitator (ESL) has several important advantages over the electromagnetic levitator. Most important is the wide range of sample temperature which can be achieved without affecting levitation. This article also describes the general architecture of the levitator, electrode design, position control hardware and software, sample heating, charging, and preparation methods, and operational procedures. Particular emphasis is given to sample charging by photoelectric and thermionic emission. While this ESL is more oriented toward ground-based operation, an extension to microgravity applications is also addressed briefly. The system performance was demonstrated by showing multiple superheating-undercooling-recalescence cycles in a zirconium sample (Tm=2128 K). This levitator, when fully matured, will be a valuable tool both in Earth-based and space-based laboratories for the study of thermophysical properties of undercooled liquids, nucleation kinetics, the creation of metastable phases, and access to a wide range of materials with novel properties