The work is supported by the Engineering and Physical Sciences Research Council of the UK (EPSRC) Grant number EP/W032643/1.

1. Setting up Dwave Ocean Environment
<ol>
	<li>Download and install the ocean tools from the link: https://docs.ocean.dwavesys.com/en/stable/overview/install.html
	<ol>
		<li>At the terminal, type python -m venv ocean.</li>
		<li>At the terminal, type . ocean/bin/activate, as shown in Figure 1.</li>
		<li>At the terminal, type git clone https://github.com/dwavesystems/dwave-ocean-sdk.git 
		Next, type&#160;cd...

<ol>
	<li>Chen, J., Date, P., Chancellor, N., Atiquazzaman, M., Cormac, S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Controller-based+energy-aware+wireless+sensor+network+routing+using+quantum+algorithms.">Controller-based energy-aware wireless sensor network routing using quantum algorithms.</a> IEEE Transactions on Quantum Engineering. 3, 1-12 (2022).</li><li>Lin, H., Uster, H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Exact+and+heuristic+algorithms+for+data-gathering+cluster-based+wireless+sensor+network+design+problem.">Exact and heuristic algorithms for data-gathering cluster-based wireless sensor network design problem.</a> IEEE/ACM Transactions on Networking. 22 (3), 903-916 (2014).</li><li>Zhou, Y., Wang, N., Xiang, W. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Clustering+hierarchy+protocol+in+wireless+sensor+networks+using+an+improved+PSO+algorithm.">Clustering hierarchy protocol in wireless sensor networks using an improved PSO algorithm.</a> IEEE Access. 5, 2241-2253 (2017).</li><li>Seah, W. K. G., Mak, N. H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=How+long+is+the+lifetime+of+a+wireless+sensor+network.">How long is the lifetime of a wireless sensor network.</a> , 763-770 (2009).</li><li>Salahud din, M., Rehman, M. A. U., Ullah, R., Park, C., Kim, B. S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Towards+network+lifetime+enhancement+of+resource+constrained+IoT+devices+in+heterogeneous+wireless+sensor+networks+Sensors.">Towards network lifetime enhancement of resource constrained IoT devices in heterogeneous wireless sensor networks Sensors.</a> 20, 4156 (2020).</li><li>Wu, W., Xiong, N., Wu, C. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Improved+clustering+algorithm+based+on+energy+consumption+in+wireless+sensor+networks.">Improved clustering algorithm based on energy consumption in wireless sensor networks.</a> IET Network. 6 (3), 7-53 (2017).</li><li>Kumar, N., Kumar, V., Ali, T., Ayaz, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Prolong+network+lifetime+in+the+wireless+sensor+networks:+An+improved+approach.">Prolong network lifetime in the wireless sensor networks: An improved approach.</a> Arabian Journal for Science and Engineering. 46, 3631-3651 (2021).</li><li>Faris, H., Aljarah, I., Al-Betar, M. A., Mirjalili, S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Grey+wolf+optimizer:+A+review+of+recent+variants+and+applications.">Grey wolf optimizer: A review of recent variants and applications.</a> Neural Computing and Applications. 30, 413-435 (2018).</li><li>Kaur, J., Arifkhan, M., Iftikhar, M., Imran, M., Haq, A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Machine+learning+techniques+for+5G+and+beyond.">Machine learning techniques for 5G and beyond.</a> IEEEAccess. 9, 23472-23488 (2021).</li><li>Shor, P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Polynomial-time+algorithms+for+prime+factorization+and+discrete+logarithms+on+a+quantum+computer.">Polynomial-time algorithms for prime factorization and discrete logarithms on a quantum computer.</a> SIAMJournalonComputing. 26 (5), 1484-1509 (1997).</li><li>Qabouche, H., Sahel, A., Badri, A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Hybrid+energy+efficient+static+routing+protocol+for+homogeneous+and+heterogeneous+large+scale+WSN.">Hybrid energy efficient static routing protocol for homogeneous and heterogeneous large scale WSN.</a> Wireless Networks. 27, 575-587 (2021).</li><li>Farooq, M., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=POWER:+probabilistic+weight-based+energy-efficient+cluster+routing+for+large-scale+wireless+sensor+networks.">POWER: probabilistic weight-based energy-efficient cluster routing for large-scale wireless sensor networks.</a> The Journal of Supercomputing. 78, 12765-12791 (2022).</li><li>Maddams, W. F. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=The+scope+and+limitations+of+curve+fitting.">The scope and limitations of curve fitting.</a> Applied Spectroscopy. 34 (3), 245-267 (1980).</li><li>Wang, X., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=A+dynamic+opportunistic+routing+protocol+for+asynchronous+duty-cycled+WSNs.">A dynamic opportunistic routing protocol for asynchronous duty-cycled WSNs.</a> IEEE Transactions on Sustainable Computing. , (2023).</li><li>Ismail, A. S., Wang, X., Hawbani, A., Alsamhi, S., Aziz, S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Routing+protocols+classification+for+underwater+wireless+sensor+networks+based+on+localization+and+mobility.">Routing protocols classification for underwater wireless sensor networks based on localization and mobility.</a> Wireless Networks. 28, 797-826 (2022).</li><li>Garcia-Martin, E., Rodrigues, C. F., Riley, G., Grahn, H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Estimation+of+energy+consumption+in+machine+learning.">Estimation of energy consumption in machine learning.</a> Journal of Parallel Distributed Computing. 134, 75-88 (2019).</li><li>Egger, D. J., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Quantum+computing+for+finance:+State-of-the-art+and+future+prospects.">Quantum computing for finance: State-of-the-art and future prospects.</a> IEEE Transactions on Quantum Engineering. 1, 1-24 (2020).</li><li>Rasool, R. U., Ahmad, H. F., Rafique, W., Qayyum, A., Qadir, J. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Quantum+computing+for+healthcare+:+A+review.">Quantum computing for healthcare : A review.</a> TechRxiv. , (2021).</li></ol>

The current state-of-the-art commercial quantum processor can be used in computational problems of any network topology1. Quantum processor application is not constrained by the number of physical qbits any of the quantum processors has been able to implement. 
In sensor network lifetime prolongation design, the results show an advancement in method to achieve even longer network life by using a quantum processor. The results imply that quantum advantage is ready to be ...

Energy conservation in sensor networks has been a very critical issue in design1. Classical methods normally tackle the problem using an ad hoc approach2,3,4,5,6. That said, these methods emulate the sensor nodes as individually managed intelligent assets that could also cooperate to serve both the interests of the individual and the community. Due to the volatile environment where sensors work, in some works, random algorithms are introduced in order to capture the environmental uncertainties, while in others, bio-intelligence is borrowed to devise heuristic algorithms that could achieve common sense acceptable results7. To illustrate further, for those random algorithms, for one hand, environmental uncertainties might not be as random as the random sequence generated by a classical CPU, for the other hand, even if the environmental uncertainties are absolutely random, they could not be captured by the random process simulator generated by classical CPU; for those bio-intelligence algorithms, first of all, no rigorous mathematical analysis has been derived to make a conceptual proof work, secondly, the convergence to truth or the error tolerance boundary can only be configured given an informed ground truth - though a significant amount of works in literature have demonstrated to some extent these heuristic algorithms work, for one thing, these algorithms are analyzed (not simulated) against well-defined use case scenarios, they stops at certain criteria that are still worth pondering in further research, for another, as said before, a majority of the algorithms have not been validated against software simulation that can be more readily deployed in the microprocessors that make a sensor into its being8.
We do not consider machine learning (ML) here because it needs to employ data analytics which requires a relatively large volume of computational power that is not portable in sensor devices9.
To address the above-mentioned concerns, we provide a hybrid quantum algorithm. The algorithm is hybrid in that the cluster head selection mechanism is implemented using a classical random algorithm during the routing computations conducted using a quantum processor once the network topology is set up. The method is justified as follows: (1) As discussed in the first paragraph regarding the environmental uncertainties, we do not want to endeavor further to apply a quantum sequence generator to capture the environmental dynamic because it might be historically traceable. The environmental dynamic that can be historically traceable has been justified by various machine learning research works in network science. For the current stage, we stay with the classical approach. (2) The exact method that relies on abstract mathematical analysis guarantees to arrive at ground truth. Quantum experimental physics has so far been sophisticatedly supported by physical mathematics. Moreover, algorithm applications like the Shor algorithm10 have existed to prove this rounded theory.
An adequate amount of literature survey is provided below for comparison. The HEESR protocol proposed11 has demonstrable merits in results, but the authors have specified the simulation configuration parameters well, for example, the exact random distribution function of the node position, the proper justification of the cluster head percentage p (0.2%), and the scaling parameter for distribution of energy level (1-2 joules) among nodes a_i. It prohibited the author from proceeding further to duplicate the experiments and conduct the comparison. The Power routing mechanism12 employs the curve fitting method to approximate converged continuous functions from discrete data sets obtained from unspecified sample space for determinants that impact the decision process of the optimal network routing. The curve fitting method13 requires prior information on the network topology. Real circumstances might not have prior information readily available. Even when prior information exists, network topology might not be regular enough to be able to be mapped onto fitting curves that are able to facilitate derivable computation. Following the same logic, DORAF protocol14 has not justified how and why to borrow the Boltzmann function and Logistic Function to approximate the network determinants. Ismail et al.15 have provided a sound reference for future research endeavors into energy-efficient routing protocol design in the underwater network.

<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>Dell Laptop</td>
			<td>Dell</td>
			<td>N/A</td>
			<td></td>
		</tr>
		<tr>
			<td>Ubuntu 18.04.6 LTS</td>
			<td>Canonical Ltd</td>
			<td>18.04.6 LTS</td>
			<td></td>
		</tr>
		<tr>
			<td>Python3.8</td>
			<td>Python Software Foundation</td>
			<td>3.8.0</td>
			<td></td>
		</tr>
		<tr>
			<td>Dwave QPU</td>
			<td>Dwave</td>
			<td>https://docs.ocean.dwavesys.com/en/stable/overview/install.html</td>
			<td></td>
		</tr>
	</tbody>
</table>

large scale energy efficient sensor network routing using a quantum processor unit

The sensor network energy conservation method, which is a usage hybrid of a classical computer and quantum processor, has proved to perform better than the heuristic algorithm using a classical computer. In this manuscript, the technical context for the significance of the method is presented and justified. Then the experimental steps are demonstrated in an operational sequence with illustrations if ever needed. The method has been validated by positive results across a randomly generated sample set of network topologies. The successful experimental results of this method have provided a better approach for sensor network lifetime maximization problems and demonstrated that the current state of art quantum processor has been able to solve large practical engineering problems with merits that override current methods in the literature. In other words, quantum advantage can be exploited to best efforts. It has gone beyond the stage of proof of concept to proof of feasibility.

Results from one run sample are shown in Table 2, Table 3, and Table 4. The detailed datasets for the three batches of data are available in the Supplementary Data 1 folder.
<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td colspan="3">Dataset 1</td>
		</tr>
		<tr>
			<td>198 nodes in a circular area with a radius of 50m</td>
			<td>Hybrid Quantum Algorithm</td>
			<td>A...

Watch this Scientific Journal Video about Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit at JoVE.com

Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit

This study provides a method to use a quantum processor unit to compute the routes for various traffic dynamics that work to outperform classical methods in literature to maximize network lifetime.

The sensor network energy conservation method, which is a usage hybrid of a classical computer and quantum processor, has proved to perform better than ...

This protocol proves to be more energy-wise than legacy protocols. From a content computing research perspective, this protocol shows that current bottleneck of noisy qubit issue does not hold ceiling for the commerciality of content computing technology. This techniques demonstrates the feasibility of applying current state art content computing methods to network problems.Furthermore, it presents the merits of applying content computing methods to network problems over legacy methods. To begin, download and install the Ocean tools from the given link. At the terminal, type python space minus m space venv space ocean then ocean/bin/activate.Next, type git space clone space https:github.com/dwavesystems/dwave-ocean-sdk. git then cd space dwave-ocean-sdk, followed by python space setup. py space install.After downloading and installing Cplex, at the terminal, type pip space install space cplex. Using Python programming notation script, set up the experiment configuration parameters. Once the script is executed, the underlying language will process to store the variables in RAM.Next, create the Python scripts to generate 198 sensor node 2D positions that are equally scattered into six sectors, and divide the circular area with a radius of 50 meters. Within each sector, ensure that the 33 sensor nodes are scattered randomly by a normal distribution. Save the 2D positions into text files by each sector under the name spelling rule as posdata with single quotation mark, plus sector underscore no plus txt with single quotation.Segment the circular area with a radius of 50 meters into six sectors. For sector index I, set the pole length for the jth sensor node by entering the indicated command. If the sector index is L, set the angular value for the jth sensor node.Then set the Cartesian coordinates of the jth sensor node in the ith sector. To prepare the initial energy levels for all 198 sensor nodes, divide them equally, allocating an initial energy of 0.5 joules to half of the sensor nodes and one joule to the other half. Proceed to create an array to store each node's energy level and use a loop to assign cells sequenced in even numbers the value of one and those sequenced in odd numbers the value of 0.5.Next, prepare a functional script to select the cluster head. For each sensor node, attain a random number between zero and one, threshold_rm equal to random. random bracket.If threshold_RM is less than t_n, select this sensor node as the cluster head. For each noncluster_head node, select the closest cluster head sensor node to it as its cluster head. Prepare the command lines to calculate the energy depletion process across the whole network for this round.Finally, calculate the required transmission round metrics. To prepare a hybrid quantum algorithm script, run the selection procedure in a loop to ensure that the amount of cluster heads is six. Following this, for each of the non-cluster_head_valid nodes, calculate the distance to each selected cluster head and assign it to the cluster head whose cluster size hasn't exceeded six and where the distance value was smallest.Next, prepare a sub-function script where the rooting optimization problem per cluster is formed and submitted to the Dwave API. Using Python script, calculate the energy depletion across the entire network to quantitatively evaluate the algorithm by network lifetime in terms of the number of transmission rounds. Then record the moment when the first node is drained out and when half the nodes are drained out.In this study, it was observed that the hybrid quantum algorithm has more efficiency than the advanced_leach algorithm. The time complexity of the hybrid quantum algorithm and the hybrid quantum algorithm that complies with the advanced_leach are also shown here. These methods can be applied to other systems in objective optimization.For instance, machine-to-machine communication in manufacturing industry. According to content physics, the in content theory has paved issues for each fixed game setting. It can lead to new research in social science and economy.

large-scale-energy-efficient-sensor-network-routing-using-quantum

Research

JoVE Journal

Engineering

346 ビュー.  Imperial College London. このプロトコルは、従来のプロトコルよりもエネルギー面で優れていることが証明されています。コンテンツコンピューティング研究の観点から、このプロトコルは、ノイズの多い量子ビット問題の現在のボトルネックが、コンテンツコンピューティング技術の商業性に上限を設けていないことを示しています。この手法は、現在の最先端のコンテンツコンピューティ?...

ビデオ: Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit

This study provides a method to use a quantum processor unit to compute the routes for various traffic dynamics that work to outperform classical methods in literature to maximize network...

optimizing tissue microarrays and area/polygon tiles for efficient large-scale imaging

Optimizing Tissue Microarrays and Area/Polygon Tiles for Efficient Large-Scale Imaging

a strategy for sensitive, large scale quantitative metabolomics

A Strategy for Sensitive, Large Scale Quantitative Metabolomics

Metabolite profiling has been a valuable asset in the study of metabolism in health and disease. Utilizing normal-phased liquid chromatography coupled to high-resolution mass spectrometry with polarity switching and a rapid duty cycle, we describe a protocol to analyze the polar metabolic composition of biological material with high sensitivity, accuracy, and...

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A Semiautomated ChIP-Seq Procedure for Large-scale Epigenetic Studies

This paper describes a semiautomated, microscaled ChIP-Seq protocol of DNA regions associated with a specific histone modification (H3K27ac) using a ChIP liquid-handler platform, followed by library preparation using tagmentation. The procedure includes control assessment for quality and quantity purposes and can be adopted to other histone modifications or transcription...

cultivating a three-dimensional reconstructed human epidermis at a large scale

Cultivating a Three-dimensional Reconstructed Human Epidermis at a Large Scale

This protocol describes a straightforward method to cultivate three-dimensional reconstituted human epidermis in a reproducible and robust manner. Additionally, it characterizes the structure-function relationship of the epidermal barrier model. The biological responses of the reconstituted human epidermis upon proinflammatory stimuli are also...

large-scale top-down proteomics using capillary zone electrophoresis tandem mass spectrometry

Large-scale Top-down Proteomics Using Capillary Zone Electrophoresis Tandem Mass Spectrometry

A detailed protocol is described for the separation, identification, and characterization of proteoforms in protein samples using capillary zone electrophoresis-electrospray ionization-tandem mass spectrometry (CZE-ESI-MS/MS). The protocol can be used for the high-resolution characterization of proteoforms in simple protein samples and the large-scale identification of proteoforms in complex proteome...

large-scale screens of metagenomic libraries

Large-Scale Screens of Metagenomic Libraries

Metagenomic libraries archive large fragments of contiguous genomic sequences from microorganisms without requiring prior cultivation.  Generating a ...

large-scale gravitaxis assay of caenorhabditis dauer larvae

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The present protocol outlines methods for conducting a large-scale gravitaxis assay with Caenorhabditis dauer larvae. This protocol allows for better detection of gravitaxis behavior compared with a plate-based...

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Infinium Assay for Large-scale SNP Genotyping Applications

A protocol is described that uses Illumina&#39;s Infinium assays to perform large-scale genotyping. These assays can reliably genotype millions of SNPs across hundreds of individual DNA samples in three days. Once generated, these genotypes can be used to check for associations with a variety of different diseases or...

large-scale production of recombinant rnas on a circular scaffold using a viroid-derived system in escherichia coli

Large-scale Production of Recombinant RNAs on a Circular Scaffold Using a Viroid-derived System in Escherichia coli

Here, we present a protocol to produce large amounts of recombinant RNA in Escherichia coli by co-expressing a chimeric RNA that contains the RNA of interest in a viroid scaffold and a plant tRNA ligase. The main product is a circular molecule that facilitates purification to...

Large-scale Production of Recombinant RNAs on a Circular Scaffold Using a Viroid-derived System in Escherichia coli

simulating imaging of large scale radio arrays on the lunar surface

Simulating Imaging of Large Scale Radio Arrays on the Lunar Surface

A simulation framework for testing the imaging capabilities of large-scale radio arrays on the lunar surface is presented. Major noise components are discussed, and a software pipeline is walked through with details on how to customize it for novel scientific...

odelay: a large-scale method for multi-parameter quantification of yeast growth

ODELAY: A Large-scale Method for Multi-parameter Quantification of Yeast Growth

We present a method for quantifying growth phenotypes of individual yeast cells as they grow into colonies on solid media using time-lapse microscopy termed, One-cell Doubling Evaluation of Living Arrays of Yeast (ODELAY). Population heterogeneity of genetically identical cells growing into colonies can be directly observed and...

large-scale cell production based on gmp-grade dissolvable porous microcarriers

Author Spotlight: Advancing Cell Therapy Manufacturing with Dissolvable Microcarriers 

Here, we present a protocol to achieve the large-scale manufacturing of adherent cells through a fully closed system based on GMP-grade dissolvable microcarriers. The cultivation of human mesenchymal stem cells, HEK293T cells, and Vero cells was validated and met both quantity demands and quality criteria for the cell and gene therapy...

Large-Scale Cell Production Based on GMP-Grade Dissolvable Porous Microcarriers

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Here, we present a robust, fast and scalable cardiomyocyte differentiation protocol for human pluripotent stem cells (hPSCs). Cardiomyocytes derived using this large-scale method can provide sufficient cell numbers for their effective use in human cardiovascular disease modeling, high-throughput drug screening, and potentially clinical...

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Terahertz Microfluidic Sensing Using a Parallel-plate Waveguide Sensor

The procedure for implementing a refractive index sensor for terahertz frequencies based on a grooved parallel-plate waveguide geometry is described here.  The method yields a measurement of the refractive index of a small volume of liquid through monitoring of the shift in the resonant frequency of the waveguide...

using in vitro fluorescence resonance energy transfer to study the dynamics of protein complexes at a millisecond time scale

Using In Vitro Fluorescence Resonance Energy Transfer to Study the Dynamics Of Protein Complexes at a Millisecond Time Scale

Protein-protein interactions are critical for biological systems, and studies of the binding kinetics provide insights into the dynamics and function of protein complexes. We describe a method that quantifies the kinetic parameters of a protein complex using fluorescence resonance energy transfer and the stopped-flow technique.

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Extracellular recordings of neuronal activity using silicon probes in the anesthetized rat will be described. This technique allows information to be obtained across multiple brain areas from more than 100 neurons simultaneously. It provides information with single cell resolution about neuronal ensembles dynamics in multiple local...

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To analyse cardiac gene expression profiles during zebrafish heart development, total RNA has to be extracted from isolated hearts. Here, we present a protocol for collecting functional/beating hearts by rapid manual dissection from zebrafish embryos to obtain cardiac-specific...

a universal protocol for large-scale grna library production from any dna source

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Methods for generating large-scale gRNA libraries should be simple, efficient and cost-effective. We describe a protocol for the production of gRNA libraries based on enzymatic digestion of target DNA. This method, CORALINA (comprehensive gRNA library generation through controlled nuclease activity) presents an alternative to costly custom oligonucleotide...

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This contribution describes how to set up protein crystallization on crystal-on-crystal devices and how to perform automated serial data collection at room temperature using the on-chip crystallization...

Refractive index (RI) sensing is a powerful noninvasive and label-free sensing technique for the identification, detection and monitoring of microfluidic samples with a wide range of possible sensor designs such as interferometers and resonators 1,2. Most of the existing RI sensing applications focus on biological materials in aqueous solutions in visible and IR frequencies, such as DNA hybridization and genome sequencing. At terahertz frequencies, applications include quality control, monitoring of industrial processes and sensing and detection applications involving nonpolar materials.
Several potential designs for refractive index sensors in the terahertz regime exist, including photonic crystal waveguides 3, asymmetric split-ring resonators 4, and photonic band gap structures integrated into parallel-plate waveguides 5. Many of these designs are based on optical resonators such as rings or cavities. The resonant frequencies of these structures are dependent on the refractive index of the material in or around the resonator. By monitoring the shifts in resonant frequency the refractive index of a sample can be accurately measured and this in turn can be used to identify a material, monitor contamination or dilution, etc.
The sensor design we use here is based on a simple parallel-plate waveguide 6,7. A rectangular groove machined into one face acts as a resonant cavity (Figures 1 and 2). When terahertz radiation is coupled into the waveguide and propagates in the lowest-order transverse-electric (TE1) mode, the result is a single strong resonant feature with a tunable resonant frequency that is dependent on the geometry of the groove 6,8. This groove can be filled with nonpolar liquid microfluidic samples which cause a shift in the observed resonant frequency that depends on the amount of liquid in the groove and its refractive index 9.
Our technique has an advantage over other terahertz techniques in its simplicity, both in fabrication and implementation, since the procedure can be accomplished with standard laboratory equipment without the need for a clean room or any special fabrication or experimental techniques. It can also be easily expanded to multichannel operation by the incorporation of multiple grooves 10. In this video we will describe our complete experimental procedure, from the design of the sensor to the data analysis and determination of the sample refractive index.

The procedure for implementing a refractive index sensor for terahertz frequencies based on a grooved parallel-plate waveguide geometry is described here. The method yields a measurement of the refractive index of a small volume of liquid through monitoring of the shift in the resonant frequency of the waveguide structure

Refractive index (RI) sensing is a powerful noninvasive and label-free sensing technique for the identification, detection and monitoring of microfluidic ...

Analysis of Contact Interfaces for Single GaN Nanowire Devices

Single GaN nanowire (NW) devices fabricated on SiO2 can exhibit a strong degradation after annealing due to the occurrence of void formation at the contact/SiO2 interface. This void formation can cause cracking and delamination of the metal film, which can increase the resistance or lead to a complete failure of the NW device. In order to address issues associated with void formation, a technique was developed that removes Ni/Au contact metal films from the substrates to allow for the examination and characterization of the contact/substrate and contact/NW interfaces of single GaN NW devices. This procedure determines the degree of adhesion of the contact films to the substrate and NWs and allows for the characterization of the morphology and composition of the contact interface with the substrate and nanowires. This technique is also useful for assessing the amount of residual contamination that remains from the NW suspension and from photolithographic processes on the NW-SiO2 surface prior to metal deposition. The detailed steps of this procedure are presented for the removal of annealed Ni/Au contacts to Mg-doped GaN NWs on a SiO2 substrate.

A technique was developed that removes Ni/Au contact metal films from their substrate to allow for the examination and characterization of the contact/substrate and contact/NW interfaces of single GaN nanowire devices.

Single GaN nanowire (NW) devices fabricated on SiO2 can exhibit  a strong degradation after annealing due to the  occurrence of void formation at the ...

How to Build a Vacuum Spring-transport Package for Spinning Rotor Gauges

The spinning rotor gauge (SRG) is a high-vacuum gauge often used as a secondary or transfer standard for vacuum pressures in the range of 1.0 x 10-4 Pa to 1.0 Pa. In this application, the SRGs are frequently transported to laboratories for calibration. Events can occur during transportation that change the rotor surface conditions, thus changing the calibration factor. To assure calibration stability, a spring-transport mechanism is often used to immobilize the rotor and keep it under vacuum during transport. It is also important to transport the spring-transport mechanism using packaging designed to minimize the risk of damage during shipping. In this manuscript, a detailed description is given on how to build a robust spring-transport mechanism and shipping container. Together these form a spring-transport package. The spring-transport package design was tested using drop-tests and the performance was found to be excellent. The present spring-transport mechanism design keeps the rotor immobilized when experiencing shocks of several hundred g (g = 9.8 m/sec2 and is the acceleration due to gravity), while the shipping container assures that the mechanism will not experience shocks greater than about 100 g during common shipping mishaps (as defined by industry standards).

Here we describe how to build a robust spring-transport mechanism for a spinning rotor gauge. This device securely immobilizes the rotor and keeps it under vacuum during transportation. We also describe packaging that minimizes the risk of damage during transport. Tests show our design works for typical shocks during transport.

The spinning rotor gauge (SRG) is a high-vacuum gauge often used as a secondary or transfer standard for vacuum pressures in the range of 1.0 x 10-4 Pa to ...

Resonance Fluorescence of an InGaAs Quantum Dot in a Planar Cavity Using Orthogonal Excitation and Detection

The ability to perform simultaneous resonant excitation and fluorescence detection is important for quantum optical measurements of quantum dots (QDs). Resonant excitation without fluorescence detection &#8211; for example, a differential transmission measurement &#8211; can determine some properties of the emitting system, but does not allow applications or measurements based on the emitted photons. For example, the measurement of photon correlations, observation of the Mollow triplet, and realization of single photon sources all require collection of the fluorescence. Incoherent excitation with fluorescence detection &#8211; for example, above band-gap excitation &#8211; can be used to create single photon sources, but the disturbance of the environment due to the excitation reduces the indistinguishability of the photons. Single photon sources based on QDs will have to be resonantly excited to have high photon indistinguishability, and simultaneous collection of the photons will be necessary to make use of them. We demonstrate a method to resonantly excite a single QD embedded in a planar cavity by coupling the excitation beam into this cavity from the cleaved face of the sample while collecting the fluorescence along the sample&#39;s surface normal direction. By carefully matching the excitation beam to the waveguide mode of the cavity, the excitation light can couple into the cavity and interact with the QD. The scattered photons can couple to the Fabry-Perot mode of the cavity and escape in the surface normal direction. This method allows complete freedom in the detection polarization, but the excitation polarization is restricted by the propagation direction of the excitation beam. The fluorescence from the wetting layer provides a guide to align the collection path with respect to the excitation beam. The orthogonality of the excitation and detection modes enables resonant excitation of a single QD with negligible laser scattering background.

Resonant excitation of a single self-assembled quantum dot can be achieved using an excitation mode orthogonal to the fluorescence collection mode. We demonstrate a method using the waveguide and Fabry-Perot modes of a planar microcavity surrounding the quantum dots. The method allows complete freedom in the detection polarization.

The ability to perform simultaneous resonant excitation and fluorescence detection is important for quantum optical measurements of quantum dots (QDs). ...

Enhanced Electron Injection and Exciton Confinement for Pure Blue Quantum-Dot Light-Emitting Diodes by Introducing Partially Oxidized Aluminum Cathode

Stable and efficient red (R), green (G), and blue (B) light sources based on solution-processed quantum dots (QDs) play important roles in next-generation displays and solid-state lighting technologies. The brightness and efficiency of blue QDs-based light-emitting diodes (LEDs) remain inferior to their red and green counterparts, due to the inherently unfavorable energy levels of different colors of light. To solve these problems, a device structure should be designed to balance the injection holes and electrons into the emissive QD layer. Herein, through a simple autoxidation strategy, pure blue QD-LEDs which are highly bright and efficient are demonstrated, with a structure of ITO/PEDOT:PSS/Poly-TPD/QDs/Al:Al2O3. The autoxidized Al:Al2O3 cathode can effectively balance the injected charges and enhance radiative recombination without introducing an additional electron transport layer (ETL). As a result, high color-saturated blue QD-LEDs are achieved with a maximum luminance over 13,000 cd m-2, and a maximum current efficiency of 1.15 cd A-1. The easily controlled autoxidation procedure paves the way for achieving high-performance blue QD-LEDs.

A protocol is presented for fabricating high-performance, pure blue ZnCdS/ZnS-based quantum dots light-emitting diodes by employing an autoxidized aluminum cathode.

Stable and efficient red (R), green (G), and blue (B) light sources based on solution-processed quantum dots (QDs) play important roles in next-generation ...

Generation and Coherent Control of Pulsed Quantum Frequency Combs

We present a method for the generation and coherent manipulation of pulsed quantum frequency combs. Until now, methods of preparing high-dimensional states on-chip in a practical way have remained elusive due to the increasing complexity of the quantum circuitry needed to prepare and process such states. Here, we outline how high-dimensional, frequency-bin entangled, two-photon states can be generated at a stable, high generation rate by using a nested-cavity, actively mode-locked excitation of a nonlinear micro-cavity. This technique is used to produce pulsed quantum frequency combs. Moreover, we present how the quantum states can be coherently manipulated using standard telecommunications components such as programmable filters and electro-optic modulators. In particular, we show in detail how to accomplish state characterization measurements such as density matrix reconstruction, coincidence detection, and single photon spectrum determination. The presented methods form an accessible, reconfigurable, and scalable foundation for complex high-dimensional state preparation and manipulation protocols in the frequency domain.

A protocol is presented for the practical generation and coherent manipulation of high-dimensional frequency-bin entangled photon states using integrated micro-cavities and standard telecommunications components, respectively.

We present a method for the generation and coherent manipulation of pulsed quantum frequency combs. Until now, methods of preparing high-dimensional ...

An Efficient Method for Selective Desalination of Radioactive Iodine Anions by Using Gold Nanoparticles-Embedded Membrane Filter

Here, we demonstrate a detail protocol for the preparation of nanomaterials-embedded composite membranes and its application to the efficient and ion-selective removal of radioactive iodines. By using citrate-stabilized gold nanoparticles (mean diameter: 13 nm) and cellulose acetate membranes, gold nanoparticle-embedded cellulose acetate membranes (Au-CAM) have easily been fabricated. The nano-adsorbents on Au-CAM were highly stable in the presence of high concentration of inorganic salts and organic molecules. The iodide ions in aqueous solutions could rapidly be captured by this engineered membrane. Through a filtration process using an Au-CAM containing filter unit, excellent removal efficiency (&gt;99%) as well as ion-selective desalination result was achieved in a short time. Moreover, Au-CAM provided good reusability without significant decrease of its performances. These results suggested that the present technology using the engineered hybrid membrane will be a promising process for the large-scale decontamination of radioactive iodine from liquid wastes.

An efficient method for the rapid and ion-selective desalination of radioactive iodine in several aqueous solutions is described by using gold nanoparticles-immobilized cellulose acetate membrane filters.

Here, we demonstrate a detail protocol for the preparation of nanomaterials-embedded composite membranes and its application to the efficient and ...

Measuring Sub-23 Nanometer Real Driving Particle Number Emissions Using the Portable DownToTen Sampling System

The current particle size threshold of the European Particle Number (PN) emission standards is 23 nm. This threshold could change because future combustion engine vehicle technology may emit large amounts of sub-23 nm particles. The Horizon 2020 funded project DownToTen (DTT) developed a sampling and measurement method to characterize particle emissions in this currently unregulated size range. A PN measurement system was developed based on an extensive review of the literature and laboratory experiments testing a variety of PN measurement and sampling approaches. The measurement system developed is characterized by high particle penetration and versatility, which enables the assessment of primary particles, delayed primary particles, and secondary aerosols, starting from a few nanometers in diameter. This paper provides instruction on how to install and operate this Portable Emission Measurement System (PEMS) for Real Drive Emissions (RDE) measurements and assess particle number emissions below the current legislative limit of 23 nm.

Presented here is the DownToTen (DTT) portable emission measurement system to assess real driving automotive emissions of sub-23 nm particles.

The current particle size threshold of the European Particle Number (PN) emission standards is 23 nm. This threshold could change because future ...

In recent years there has been a renewed interest in returning to the Moon for reasons both scientific and exploratory in nature. The Moon provides the perfect training ground for building large scale bases that one may apply to other planets like Mars. The existence of a radio quiet zone on the lunar far side has promise for early universe studies and exoplanet searches, while the near side provides a stable base that may be used to observe low frequency emissions from Earth&#8217;s magnetosphere that may help gauge its response to incoming space weather. The construction of a large-scale radio array would provide large scientific returns as well as acting as a test of humanity&#8217;s ability to build structures on other planets. This work focuses on simulating the response of small to large-scale radio arrays on the Moon consisting of hundreds or thousands of antennas. The response of the array is dependent on the structure of the emission along with the configuration and sensitivity of the array. A set of locations are selected for the simulated radio receivers, using Digital Elevation Models from the Lunar Orbiter Laser Altimeter instrument on Lunar Reconnaissance Orbiter to characterize the elevation of the receiver locations. A custom Common Astronomy Software Applications code is described and used to process the data from the simulated receivers, aligning the lunar and sky coordinate frames using SPICE to ensure the proper projections are used for imaging. This simulation framework is useful for iterating array design for imaging any given scientific target in a small field of view. This framework does not currently support all sky imaging.

A simulation framework for testing the imaging capabilities of large-scale radio arrays on the lunar surface is presented. Major noise components are discussed, and a software pipeline is walked through with details on how to customize it for novel scientific uses.

In recent years there has been a renewed interest in returning to the Moon for reasons both scientific and exploratory in nature. The Moon provides the ...

Performing In Situ Closed-Cell Gas Reactions in the Transmission Electron Microscope

Gas reactions studied by in situ electron microscopy can be used to capture the real-time morphological and microchemical transformations of materials at length scales down to the atomic level. In situ closed-cell gas reaction (CCGR) studies performed using (scanning) transmission electron microscopy (STEM) can separate and identify localized dynamic reactions, which are extremely challenging to capture using other characterization techniques. For these experiments, we used a CCGR holder that utilizes microelectromechanical systems (MEMS)-based heating microchips (hereafter referred to as &#34;E-chips&#34;). The experimental protocol described here details the method for performing in situ gas reactions in dry and wet gases in an aberration-corrected STEM. This method finds relevance in many different materials systems, such as catalysis and high-temperature oxidation of structural materials at atmospheric pressure and in the presence of various gases with or without water vapor. Here, several sample preparation methods are described for various material form factors. During the reaction, mass spectra obtained with a residual gas analyzer (RGA) system with and without water vapor further validates gas exposure conditions during reactions. Integrating an RGA with an in situ CCGR-STEM system can, therefore, provide critical insight to correlate gas composition with the dynamic surface evolution of materials during reactions. In situ/operando studies using this approach allow&#160;for detailed investigation of the fundamental reaction mechanisms and kinetics that occur at specific environmental conditions (time, temperature, gas, pressure), in real-time, and at high spatial resolution.

Performing In Situ Closed-Cell Gas Reactions in the Transmission Electron Microscope

Here, we present a protocol for performing in situ TEM closed-cell gas reaction experiments while detailing several commonly used sample preparation methods.

Gas reactions studied by in situ electron microscopy can be used to capture the real-time morphological and microchemical transformations of materials at ...