Dynex
Industries
Compute on Dynex
Dynex
Industries
Compute on Dynex
Dynex
Industries
Compute on Dynex
Advanced Examples
Advanced Examples
Advanced Examples
Here are some advanced code examples and notebooks to be used to compute them on the Dynex neuromorphic computing platform:
Quantum Computation of Fluid Dynamics on Dynex (QCFD)
Dynex offers an innovative platform for the efficient simulation of Computational Fluid Dynamics (QCFD), a powerful discipline within engineering and physics. With Dynex, QCFD simulations can be conducted seamlessly, providing engineers and researchers with a robust tool for analyzing fluid flow, heat transfer, and related phenomena. This capability is invaluable in numerous industries, including aerospace, automotive, and energy, where understanding and optimizing fluid behavior is crucial. By utilizing Dynex’s advanced computational capabilities, users can gain insights into aerodynamics, thermal management, and fluid interactions, ultimately aiding in the design and optimization of various systems and devices. Dynex empowers engineers to accelerate the QCFD simulation process, fostering innovation and driving advancements in fields reliant on fluid dynamics analyses.
> Github Repository Dynex QCFD
Scientific background: An Introduction to Algorithms in Quantum Computation of Fluid Dynamics, Sachin S. Bharadwaj and Katepalli R. Sreenivasan, Department of Mechanical and Aerospace Engineering, STO - Educational Notes Paper, 2022.
Using Dynex for particle tracking at the Large Hadron Collider (LHC)
The Large Hadron Collider (LHC) is the world’s largest and most powerful particle accelerator. It aims at discovering what our universe is made of by colliding particle beams at high speed, thus creating ‘mini big bangs’. The result of those collisions is a firework of new particles, whose study can help understand what our universe is made of. This repository uses Dynex for superlinear speedup for particle tracking.
> Github Repository HEPQPR.Qallse on Dynex
Drug Repurposing With 3D Molecular Quantum Methods
From concept to treating a patient, it can take 10 years for a single treatment. Drug repositioning, repurposing, re-tasking, re-profiling or drug rescue is the process by which approved drugs are employed to treat a disease they were not initially intended/designed for. Virtual screening has become essential at the early stages of drug discovery. However, the process still typically takes a long time to execute since it generally relies on measuring chemical similarities among molecules. Even for today’s processors, this exercise comprises a major challenge since it is computationally heavy and expensive. Accordingly, most of the well-known methods typically use 2D molecular fingerprints to include structural information that represents substructural characteristics of molecules as vectors. These methods do not take into consideration relevant aspects of molecular structures such as 3D folding, although they are efficient in terms of execution times. At the expense of higher computing times, considering 3D structural properties of molecules substantially increases the accuracy of results. The 3D molecular Quantum method is computed efficiently on the Dynex platform and provides a superior virtual screening method.
Scientific background: Drug repurposing based on a quantum-inspired method versus classical fingerprinting uncovers potential antivirals against SARS-CoV-2, Jimenez-Guardeño JM, Ortega-Prieto AM, Menendez Moreno B, Maguire TJA, Richardson A, Diaz-Hernandez JI, et al. (2022); PLoS Comput Biol 18(7): e1010330
RNA Folding
Finds the optimal stem configuration of the RNA sequence from the HIV virus and the Tobacco Mild Green Mosaic Virus using the Dynex platform. The example takes an RNA sequence and applies a quadratic model in pursuit of the optimal stem configuration.
> Jupyter Notebook
Scientific background: Fox DM, MacDermaid CM, Schreij AMA, Zwierzyna M, Walker RC. RNA folding using quantum computers,. PLoS Comput Biol. 2022 Apr 11;18(4):e1010032. doi: 10.1371/journal.pcbi.1010032. PMID: 35404931; PMCID: PMC9022793
Breast Cancer Prediction
This examples shows using the Dynex SDK Scikit package which provides a scikit-learn transformer for feature selection using the Dynex Neuromorphic Computing Platform. The number of features have impact on neural network training and accuracy. It will be demonstrated how a significant reduction of features lead to similar (or even better) results.
> Jupyter Notebook
Scientific background: Bhatia, H.S., Phillipson, F. (2021). Performance Analysis of Support Vector Machine Implementations on the D-Wave Quantum Annealer. In: Paszynski, M., Kranzlmüller, D., Krzhizhanovskaya, V.V., Dongarra, J.J., Sloot, P.M.A. (eds) Computational Science – ICCS 2021. ICCS 2021. Lecture Notes in Computer Science(), vol 12747. Springer, Cham
Enzyme-Target Prediction on the Dynex Platform
The Dynex SDK based program predicts potential interactions between enzymes and target molecules and leverages the principles of quantum mechanics.
> Jupyter Notebook
Scientific background: Hoang M Ngo, My T Thai, Tamer Kahveci, QuTIE: Quantum optimization for Target Identification by Enzymes, Bioinformatics Advances, 2023;, vbad112
Single Image Super-Resolution on the Dynex Platform
Implementation of a Quantum Single Image Super-Resolution algorithm to use on the Dynex platform. One of the well-known classical approaches for SISR relies on the well-established patch-wise sparse modeling of the problem. Yet, this field’s current state of affairs is that deep neural networks (DNNs) have demonstrated far superior results than traditional approaches. Nevertheless, quantum computing is expected to become increasingly prominent for machine learning problems soon. Among the two paradigms of quantum computing, namely universal gate quantum computing and adiabatic quantum computing (AQC), the latter has been successfully applied to practical computer vision problems, in which quantum parallelism has been exploited to solve combinatorial optimization efficiently. This algorithm demonstrates formulating quantum SISR as a sparse coding optimization problem, which is solved using the Dynex Neuromorphic Computing Platform via the Dynex SDK. This AQC-based algorithm is demonstrated to achieve improved SISR accuracy.
Scientific background: Choong HY, Kumar S, Van Gool L. Quantum Annealing for Single Image Super-Resolution. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition 2023 (pp. 1150-1159)
Stock Portfolio Optimisation with Quantum Algorithms on the Dynex Platform
Portfolio Optimization (PO) is a standard problem in the financial industry. The computational complexity of such combinatorial optimization problems tend to increase exponentially with the number of variables — here, the number of assets — which at large scale can make solvers incapable of providing only optimal solutions. Instead, the results are likely suboptimal. This article provides detailed introduction on how stock portfolio optimisation can be performed by using quantum computing algorithm on the Dynex Neuromorphic Computing Cloud overcoming these limitations.
> Real World Use Case: Stock Portfolio Optimisation with Quantum Algorithms on the Dynex Platform
Efficient Quantum State Tomography on Dynex
Quantum state tomography is a process used in quantum physics to characterize and reconstruct the quantum state of a system. In simple terms, it's like taking a snapshot of a quantum system to understand its properties fully. In quantum mechanics, a quantum state represents the complete description of a quantum system, including its position, momentum, energy, and other physical quantities. However, unlike classical systems where properties are well-defined, quantum systems often exist in superposition states, meaning they can simultaneously be in multiple states until measured. While traditional training methods perform rather poorly, Dynex computed training achieves near perfect fidelity.
> Quantum Mode-assisted unsupervised learning of Restricted Boltzmann Machines
Scientific background: Yuan-Hang Zhang. Efficient Quantum State Tomography with Mode-assisted Training. Physical Review A. 106. 10.1103/PhysRevA.106.042420.
Recommender System on the Dynex Platform
This example shows a recommender system exploiting community detection. Community detection, by partitioning users and items into densely connected clusters, can boost the accuracy of non-personalised recommendation by assuming that users within each community share similar tastes.
Scientific background: Nembrini, Riccardo & Carugno, Costantino & Ferrari Dacrema, Maurizio & Cremonesi, Paolo. (2022). Towards Recommender Systems with Community Detection and Quantum Computing. 579-585. 10.1145/3523227.3551478
Reinforcement Learning Using QBM on the Dynex Platform
We associate a transverse field Ising spin Hamiltonian with a layout of qubits similar to that of a deep Boltzmann machine (DBM) and use the Dynex Platform for sampling. We design a reinforcement learning algorithm in which the set of visible nodes representing the states and actions of an optimal policy are the first and last layers of the deep network. In absence of a transverse field, our simulations show that DBMs are trained more effectively than restricted Boltzmann machines (RBM) with the same number of nodes.
Scientific background: Crawford, Daniel & Levit, Anna & Ghadermarzy, Navid & Oberoi, Jaspreet Singh & Ronagh, Pooya. (2018). Reinforcement learning using quantum Boltzmann machines. Quantum Information and Computation. 18. 51-74. 10.26421/QIC18.1-2-3.
Optimal WiFi Hotspot positioning with the Dynex Platform
This notebook performs analysis on architectural plans, particularly focusing on identifying zones, walls, and other features. It then applies graph theory to optimise the placement of WiFi hotspots. It performs processing of the plan, applying edge detection and walls baselines extraction and finally calls the Dynex SDK sampler to find the optimum position of the WIFI hotspot.
Quantum-Boltzmann-Machine (QBM) on the Dynex Platform
We demonstrate a Quantum-Boltzmann-Machine (QBM) implementation using the Dynex platform to perform the computations and compare it with a traditional Restricted-Boltzmann-Machine (RBM) applied on the MNIST dataset of handwritten digital images with 60,000 training and 10,000 testing samples.
> Jupyter Notebook
Scientific background: Dixit V, Selvarajan R, Alam MA, Humble TS and Kais S (2021) Training Restricted Boltzmann Machines With a D-Wave Quantum Annealer. Front. Phys. 9:589626. doi: 10.3389/fphy.2021.589626; Sleeman, Jennifer, John E. Dorband and Milton Halem. “A Hybrid Quantum enabled RBM Advantage: Convolutional Autoencoders For Quantum Image Compression and Generative Learning.” Defense + Commercial Sensing (2020).
Quantum Support-Vector-Machine (QSVM) on the Dynex Platform
In this example a classical classification model, Kernel-Support Vector machine, is implemented as a Quadratic Unconstrained Binary Optimisation problem. Here, data points are classified by a separating hyperplane while maximizing the function margin. The problem is solved for a public Banknote Authentication dataset and the well- known Iris Dataset using the Dynex Neuromorphic Computing Platform.
> Jupyter Notebook
Scientific background: Rounds, Max and Phil Goddard. “Optimal feature selection in credit scoring and classification using a quantum annealer.” (2017).
Placement of EV Charging Stations
Determining optimal locations to build new electric vehicle charging stations is a complex optimization problem. Many factors should be taken into consideration, like existing charger locations, points of interest (POIs), quantity to build, etc. In this example, we take a look at how we might formulate this optimization problem and solve it using the Dynex Neuromorphic Platform.
> Jupyter Notebook
Scientific background: Pagany, Raphaela & Marquardt, Anna & Zink, Roland. (2019). Electric Charging Demand Location Model—A User-and Destination-Based Locating Approach for Electric Vehicle Charging Stations. Sustainability. 11. 2301. 10.3390/su11082301
Feature Selection
Feature selection for machine learning using mutual information to predict survivals of Titanic passengers. The method used is applicable to problems from a wide range of domains, for example financial portfolio optimization.
> Jupyter Notebook
Scientific background: Xuan Vinh Nguyen, Jeffrey Chan, Simone Romano, and James Bailey. 2014. Effective global approaches for mutual information based feature selection. In Proceedings of the 20th ACM SIGKDD international conference on Knowledge discovery and data mining (KDD '14). Association for Computing Machinery, New York, NY, USA, 512–521
Quantum Integer Factorization on the Dynex Platform
Identifying new methods for integer factorization plays an important role in modern information security. Shor’s algorithm is perhaps the most well-known method for integer factorization. An equally powerful model of quantum computing is the adiabatic quantum computing (AQC) model, which can also solve the integer factorization problem. In this example, we show how to convert an arbitrary integer factorization problem to an executable Ising model and tested it on the Dynex Neuromorphic Platform.
> Jupyter Notebook
Scientific background: Jiang, S., Britt, K.A., McCaskey, A.J. et al. Quantum Annealing for Prime Factorization. Sci Rep 8, 17667 (2018)
Here are some advanced code examples and notebooks to be used to compute them on the Dynex neuromorphic computing platform:
Quantum Computation of Fluid Dynamics on Dynex (QCFD)
Dynex offers an innovative platform for the efficient simulation of Computational Fluid Dynamics (QCFD), a powerful discipline within engineering and physics. With Dynex, QCFD simulations can be conducted seamlessly, providing engineers and researchers with a robust tool for analyzing fluid flow, heat transfer, and related phenomena. This capability is invaluable in numerous industries, including aerospace, automotive, and energy, where understanding and optimizing fluid behavior is crucial. By utilizing Dynex’s advanced computational capabilities, users can gain insights into aerodynamics, thermal management, and fluid interactions, ultimately aiding in the design and optimization of various systems and devices. Dynex empowers engineers to accelerate the QCFD simulation process, fostering innovation and driving advancements in fields reliant on fluid dynamics analyses.
> Github Repository Dynex QCFD
Scientific background: An Introduction to Algorithms in Quantum Computation of Fluid Dynamics, Sachin S. Bharadwaj and Katepalli R. Sreenivasan, Department of Mechanical and Aerospace Engineering, STO - Educational Notes Paper, 2022.
Using Dynex for particle tracking at the Large Hadron Collider (LHC)
The Large Hadron Collider (LHC) is the world’s largest and most powerful particle accelerator. It aims at discovering what our universe is made of by colliding particle beams at high speed, thus creating ‘mini big bangs’. The result of those collisions is a firework of new particles, whose study can help understand what our universe is made of. This repository uses Dynex for superlinear speedup for particle tracking.
> Github Repository HEPQPR.Qallse on Dynex
Drug Repurposing With 3D Molecular Quantum Methods
From concept to treating a patient, it can take 10 years for a single treatment. Drug repositioning, repurposing, re-tasking, re-profiling or drug rescue is the process by which approved drugs are employed to treat a disease they were not initially intended/designed for. Virtual screening has become essential at the early stages of drug discovery. However, the process still typically takes a long time to execute since it generally relies on measuring chemical similarities among molecules. Even for today’s processors, this exercise comprises a major challenge since it is computationally heavy and expensive. Accordingly, most of the well-known methods typically use 2D molecular fingerprints to include structural information that represents substructural characteristics of molecules as vectors. These methods do not take into consideration relevant aspects of molecular structures such as 3D folding, although they are efficient in terms of execution times. At the expense of higher computing times, considering 3D structural properties of molecules substantially increases the accuracy of results. The 3D molecular Quantum method is computed efficiently on the Dynex platform and provides a superior virtual screening method.
Scientific background: Drug repurposing based on a quantum-inspired method versus classical fingerprinting uncovers potential antivirals against SARS-CoV-2, Jimenez-Guardeño JM, Ortega-Prieto AM, Menendez Moreno B, Maguire TJA, Richardson A, Diaz-Hernandez JI, et al. (2022); PLoS Comput Biol 18(7): e1010330
RNA Folding
Finds the optimal stem configuration of the RNA sequence from the HIV virus and the Tobacco Mild Green Mosaic Virus using the Dynex platform. The example takes an RNA sequence and applies a quadratic model in pursuit of the optimal stem configuration.
> Jupyter Notebook
Scientific background: Fox DM, MacDermaid CM, Schreij AMA, Zwierzyna M, Walker RC. RNA folding using quantum computers,. PLoS Comput Biol. 2022 Apr 11;18(4):e1010032. doi: 10.1371/journal.pcbi.1010032. PMID: 35404931; PMCID: PMC9022793
Breast Cancer Prediction
This examples shows using the Dynex SDK Scikit package which provides a scikit-learn transformer for feature selection using the Dynex Neuromorphic Computing Platform. The number of features have impact on neural network training and accuracy. It will be demonstrated how a significant reduction of features lead to similar (or even better) results.
> Jupyter Notebook
Scientific background: Bhatia, H.S., Phillipson, F. (2021). Performance Analysis of Support Vector Machine Implementations on the D-Wave Quantum Annealer. In: Paszynski, M., Kranzlmüller, D., Krzhizhanovskaya, V.V., Dongarra, J.J., Sloot, P.M.A. (eds) Computational Science – ICCS 2021. ICCS 2021. Lecture Notes in Computer Science(), vol 12747. Springer, Cham
Enzyme-Target Prediction on the Dynex Platform
The Dynex SDK based program predicts potential interactions between enzymes and target molecules and leverages the principles of quantum mechanics.
> Jupyter Notebook
Scientific background: Hoang M Ngo, My T Thai, Tamer Kahveci, QuTIE: Quantum optimization for Target Identification by Enzymes, Bioinformatics Advances, 2023;, vbad112
Single Image Super-Resolution on the Dynex Platform
Implementation of a Quantum Single Image Super-Resolution algorithm to use on the Dynex platform. One of the well-known classical approaches for SISR relies on the well-established patch-wise sparse modeling of the problem. Yet, this field’s current state of affairs is that deep neural networks (DNNs) have demonstrated far superior results than traditional approaches. Nevertheless, quantum computing is expected to become increasingly prominent for machine learning problems soon. Among the two paradigms of quantum computing, namely universal gate quantum computing and adiabatic quantum computing (AQC), the latter has been successfully applied to practical computer vision problems, in which quantum parallelism has been exploited to solve combinatorial optimization efficiently. This algorithm demonstrates formulating quantum SISR as a sparse coding optimization problem, which is solved using the Dynex Neuromorphic Computing Platform via the Dynex SDK. This AQC-based algorithm is demonstrated to achieve improved SISR accuracy.
Scientific background: Choong HY, Kumar S, Van Gool L. Quantum Annealing for Single Image Super-Resolution. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition 2023 (pp. 1150-1159)
Stock Portfolio Optimisation with Quantum Algorithms on the Dynex Platform
Portfolio Optimization (PO) is a standard problem in the financial industry. The computational complexity of such combinatorial optimization problems tend to increase exponentially with the number of variables — here, the number of assets — which at large scale can make solvers incapable of providing only optimal solutions. Instead, the results are likely suboptimal. This article provides detailed introduction on how stock portfolio optimisation can be performed by using quantum computing algorithm on the Dynex Neuromorphic Computing Cloud overcoming these limitations.
> Real World Use Case: Stock Portfolio Optimisation with Quantum Algorithms on the Dynex Platform
Efficient Quantum State Tomography on Dynex
Quantum state tomography is a process used in quantum physics to characterize and reconstruct the quantum state of a system. In simple terms, it's like taking a snapshot of a quantum system to understand its properties fully. In quantum mechanics, a quantum state represents the complete description of a quantum system, including its position, momentum, energy, and other physical quantities. However, unlike classical systems where properties are well-defined, quantum systems often exist in superposition states, meaning they can simultaneously be in multiple states until measured. While traditional training methods perform rather poorly, Dynex computed training achieves near perfect fidelity.
> Quantum Mode-assisted unsupervised learning of Restricted Boltzmann Machines
Scientific background: Yuan-Hang Zhang. Efficient Quantum State Tomography with Mode-assisted Training. Physical Review A. 106. 10.1103/PhysRevA.106.042420.
Recommender System on the Dynex Platform
This example shows a recommender system exploiting community detection. Community detection, by partitioning users and items into densely connected clusters, can boost the accuracy of non-personalised recommendation by assuming that users within each community share similar tastes.
Scientific background: Nembrini, Riccardo & Carugno, Costantino & Ferrari Dacrema, Maurizio & Cremonesi, Paolo. (2022). Towards Recommender Systems with Community Detection and Quantum Computing. 579-585. 10.1145/3523227.3551478
Reinforcement Learning Using QBM on the Dynex Platform
We associate a transverse field Ising spin Hamiltonian with a layout of qubits similar to that of a deep Boltzmann machine (DBM) and use the Dynex Platform for sampling. We design a reinforcement learning algorithm in which the set of visible nodes representing the states and actions of an optimal policy are the first and last layers of the deep network. In absence of a transverse field, our simulations show that DBMs are trained more effectively than restricted Boltzmann machines (RBM) with the same number of nodes.
Scientific background: Crawford, Daniel & Levit, Anna & Ghadermarzy, Navid & Oberoi, Jaspreet Singh & Ronagh, Pooya. (2018). Reinforcement learning using quantum Boltzmann machines. Quantum Information and Computation. 18. 51-74. 10.26421/QIC18.1-2-3.
Optimal WiFi Hotspot positioning with the Dynex Platform
This notebook performs analysis on architectural plans, particularly focusing on identifying zones, walls, and other features. It then applies graph theory to optimise the placement of WiFi hotspots. It performs processing of the plan, applying edge detection and walls baselines extraction and finally calls the Dynex SDK sampler to find the optimum position of the WIFI hotspot.
Quantum-Boltzmann-Machine (QBM) on the Dynex Platform
We demonstrate a Quantum-Boltzmann-Machine (QBM) implementation using the Dynex platform to perform the computations and compare it with a traditional Restricted-Boltzmann-Machine (RBM) applied on the MNIST dataset of handwritten digital images with 60,000 training and 10,000 testing samples.
> Jupyter Notebook
Scientific background: Dixit V, Selvarajan R, Alam MA, Humble TS and Kais S (2021) Training Restricted Boltzmann Machines With a D-Wave Quantum Annealer. Front. Phys. 9:589626. doi: 10.3389/fphy.2021.589626; Sleeman, Jennifer, John E. Dorband and Milton Halem. “A Hybrid Quantum enabled RBM Advantage: Convolutional Autoencoders For Quantum Image Compression and Generative Learning.” Defense + Commercial Sensing (2020).
Quantum Support-Vector-Machine (QSVM) on the Dynex Platform
In this example a classical classification model, Kernel-Support Vector machine, is implemented as a Quadratic Unconstrained Binary Optimisation problem. Here, data points are classified by a separating hyperplane while maximizing the function margin. The problem is solved for a public Banknote Authentication dataset and the well- known Iris Dataset using the Dynex Neuromorphic Computing Platform.
> Jupyter Notebook
Scientific background: Rounds, Max and Phil Goddard. “Optimal feature selection in credit scoring and classification using a quantum annealer.” (2017).
Placement of EV Charging Stations
Determining optimal locations to build new electric vehicle charging stations is a complex optimization problem. Many factors should be taken into consideration, like existing charger locations, points of interest (POIs), quantity to build, etc. In this example, we take a look at how we might formulate this optimization problem and solve it using the Dynex Neuromorphic Platform.
> Jupyter Notebook
Scientific background: Pagany, Raphaela & Marquardt, Anna & Zink, Roland. (2019). Electric Charging Demand Location Model—A User-and Destination-Based Locating Approach for Electric Vehicle Charging Stations. Sustainability. 11. 2301. 10.3390/su11082301
Feature Selection
Feature selection for machine learning using mutual information to predict survivals of Titanic passengers. The method used is applicable to problems from a wide range of domains, for example financial portfolio optimization.
> Jupyter Notebook
Scientific background: Xuan Vinh Nguyen, Jeffrey Chan, Simone Romano, and James Bailey. 2014. Effective global approaches for mutual information based feature selection. In Proceedings of the 20th ACM SIGKDD international conference on Knowledge discovery and data mining (KDD '14). Association for Computing Machinery, New York, NY, USA, 512–521
Quantum Integer Factorization on the Dynex Platform
Identifying new methods for integer factorization plays an important role in modern information security. Shor’s algorithm is perhaps the most well-known method for integer factorization. An equally powerful model of quantum computing is the adiabatic quantum computing (AQC) model, which can also solve the integer factorization problem. In this example, we show how to convert an arbitrary integer factorization problem to an executable Ising model and tested it on the Dynex Neuromorphic Platform.
> Jupyter Notebook
Scientific background: Jiang, S., Britt, K.A., McCaskey, A.J. et al. Quantum Annealing for Prime Factorization. Sci Rep 8, 17667 (2018)
Here are some advanced code examples and notebooks to be used to compute them on the Dynex neuromorphic computing platform:
Quantum Computation of Fluid Dynamics on Dynex (QCFD)
Dynex offers an innovative platform for the efficient simulation of Computational Fluid Dynamics (QCFD), a powerful discipline within engineering and physics. With Dynex, QCFD simulations can be conducted seamlessly, providing engineers and researchers with a robust tool for analyzing fluid flow, heat transfer, and related phenomena. This capability is invaluable in numerous industries, including aerospace, automotive, and energy, where understanding and optimizing fluid behavior is crucial. By utilizing Dynex’s advanced computational capabilities, users can gain insights into aerodynamics, thermal management, and fluid interactions, ultimately aiding in the design and optimization of various systems and devices. Dynex empowers engineers to accelerate the QCFD simulation process, fostering innovation and driving advancements in fields reliant on fluid dynamics analyses.
> Github Repository Dynex QCFD
Scientific background: An Introduction to Algorithms in Quantum Computation of Fluid Dynamics, Sachin S. Bharadwaj and Katepalli R. Sreenivasan, Department of Mechanical and Aerospace Engineering, STO - Educational Notes Paper, 2022.
Using Dynex for particle tracking at the Large Hadron Collider (LHC)
The Large Hadron Collider (LHC) is the world’s largest and most powerful particle accelerator. It aims at discovering what our universe is made of by colliding particle beams at high speed, thus creating ‘mini big bangs’. The result of those collisions is a firework of new particles, whose study can help understand what our universe is made of. This repository uses Dynex for superlinear speedup for particle tracking.
> Github Repository HEPQPR.Qallse on Dynex
Drug Repurposing With 3D Molecular Quantum Methods
From concept to treating a patient, it can take 10 years for a single treatment. Drug repositioning, repurposing, re-tasking, re-profiling or drug rescue is the process by which approved drugs are employed to treat a disease they were not initially intended/designed for. Virtual screening has become essential at the early stages of drug discovery. However, the process still typically takes a long time to execute since it generally relies on measuring chemical similarities among molecules. Even for today’s processors, this exercise comprises a major challenge since it is computationally heavy and expensive. Accordingly, most of the well-known methods typically use 2D molecular fingerprints to include structural information that represents substructural characteristics of molecules as vectors. These methods do not take into consideration relevant aspects of molecular structures such as 3D folding, although they are efficient in terms of execution times. At the expense of higher computing times, considering 3D structural properties of molecules substantially increases the accuracy of results. The 3D molecular Quantum method is computed efficiently on the Dynex platform and provides a superior virtual screening method.
Scientific background: Drug repurposing based on a quantum-inspired method versus classical fingerprinting uncovers potential antivirals against SARS-CoV-2, Jimenez-Guardeño JM, Ortega-Prieto AM, Menendez Moreno B, Maguire TJA, Richardson A, Diaz-Hernandez JI, et al. (2022); PLoS Comput Biol 18(7): e1010330
RNA Folding
Finds the optimal stem configuration of the RNA sequence from the HIV virus and the Tobacco Mild Green Mosaic Virus using the Dynex platform. The example takes an RNA sequence and applies a quadratic model in pursuit of the optimal stem configuration.
> Jupyter Notebook
Scientific background: Fox DM, MacDermaid CM, Schreij AMA, Zwierzyna M, Walker RC. RNA folding using quantum computers,. PLoS Comput Biol. 2022 Apr 11;18(4):e1010032. doi: 10.1371/journal.pcbi.1010032. PMID: 35404931; PMCID: PMC9022793
Breast Cancer Prediction
This examples shows using the Dynex SDK Scikit package which provides a scikit-learn transformer for feature selection using the Dynex Neuromorphic Computing Platform. The number of features have impact on neural network training and accuracy. It will be demonstrated how a significant reduction of features lead to similar (or even better) results.
> Jupyter Notebook
Scientific background: Bhatia, H.S., Phillipson, F. (2021). Performance Analysis of Support Vector Machine Implementations on the D-Wave Quantum Annealer. In: Paszynski, M., Kranzlmüller, D., Krzhizhanovskaya, V.V., Dongarra, J.J., Sloot, P.M.A. (eds) Computational Science – ICCS 2021. ICCS 2021. Lecture Notes in Computer Science(), vol 12747. Springer, Cham
Enzyme-Target Prediction on the Dynex Platform
The Dynex SDK based program predicts potential interactions between enzymes and target molecules and leverages the principles of quantum mechanics.
> Jupyter Notebook
Scientific background: Hoang M Ngo, My T Thai, Tamer Kahveci, QuTIE: Quantum optimization for Target Identification by Enzymes, Bioinformatics Advances, 2023;, vbad112
Single Image Super-Resolution on the Dynex Platform
Implementation of a Quantum Single Image Super-Resolution algorithm to use on the Dynex platform. One of the well-known classical approaches for SISR relies on the well-established patch-wise sparse modeling of the problem. Yet, this field’s current state of affairs is that deep neural networks (DNNs) have demonstrated far superior results than traditional approaches. Nevertheless, quantum computing is expected to become increasingly prominent for machine learning problems soon. Among the two paradigms of quantum computing, namely universal gate quantum computing and adiabatic quantum computing (AQC), the latter has been successfully applied to practical computer vision problems, in which quantum parallelism has been exploited to solve combinatorial optimization efficiently. This algorithm demonstrates formulating quantum SISR as a sparse coding optimization problem, which is solved using the Dynex Neuromorphic Computing Platform via the Dynex SDK. This AQC-based algorithm is demonstrated to achieve improved SISR accuracy.
Scientific background: Choong HY, Kumar S, Van Gool L. Quantum Annealing for Single Image Super-Resolution. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition 2023 (pp. 1150-1159)
Stock Portfolio Optimisation with Quantum Algorithms on the Dynex Platform
Portfolio Optimization (PO) is a standard problem in the financial industry. The computational complexity of such combinatorial optimization problems tend to increase exponentially with the number of variables — here, the number of assets — which at large scale can make solvers incapable of providing only optimal solutions. Instead, the results are likely suboptimal. This article provides detailed introduction on how stock portfolio optimisation can be performed by using quantum computing algorithm on the Dynex Neuromorphic Computing Cloud overcoming these limitations.
> Real World Use Case: Stock Portfolio Optimisation with Quantum Algorithms on the Dynex Platform
Efficient Quantum State Tomography on Dynex
Quantum state tomography is a process used in quantum physics to characterize and reconstruct the quantum state of a system. In simple terms, it's like taking a snapshot of a quantum system to understand its properties fully. In quantum mechanics, a quantum state represents the complete description of a quantum system, including its position, momentum, energy, and other physical quantities. However, unlike classical systems where properties are well-defined, quantum systems often exist in superposition states, meaning they can simultaneously be in multiple states until measured. While traditional training methods perform rather poorly, Dynex computed training achieves near perfect fidelity.
> Quantum Mode-assisted unsupervised learning of Restricted Boltzmann Machines
Scientific background: Yuan-Hang Zhang. Efficient Quantum State Tomography with Mode-assisted Training. Physical Review A. 106. 10.1103/PhysRevA.106.042420.
Recommender System on the Dynex Platform
This example shows a recommender system exploiting community detection. Community detection, by partitioning users and items into densely connected clusters, can boost the accuracy of non-personalised recommendation by assuming that users within each community share similar tastes.
Scientific background: Nembrini, Riccardo & Carugno, Costantino & Ferrari Dacrema, Maurizio & Cremonesi, Paolo. (2022). Towards Recommender Systems with Community Detection and Quantum Computing. 579-585. 10.1145/3523227.3551478
Reinforcement Learning Using QBM on the Dynex Platform
We associate a transverse field Ising spin Hamiltonian with a layout of qubits similar to that of a deep Boltzmann machine (DBM) and use the Dynex Platform for sampling. We design a reinforcement learning algorithm in which the set of visible nodes representing the states and actions of an optimal policy are the first and last layers of the deep network. In absence of a transverse field, our simulations show that DBMs are trained more effectively than restricted Boltzmann machines (RBM) with the same number of nodes.
Scientific background: Crawford, Daniel & Levit, Anna & Ghadermarzy, Navid & Oberoi, Jaspreet Singh & Ronagh, Pooya. (2018). Reinforcement learning using quantum Boltzmann machines. Quantum Information and Computation. 18. 51-74. 10.26421/QIC18.1-2-3.
Optimal WiFi Hotspot positioning with the Dynex Platform
This notebook performs analysis on architectural plans, particularly focusing on identifying zones, walls, and other features. It then applies graph theory to optimise the placement of WiFi hotspots. It performs processing of the plan, applying edge detection and walls baselines extraction and finally calls the Dynex SDK sampler to find the optimum position of the WIFI hotspot.
Quantum-Boltzmann-Machine (QBM) on the Dynex Platform
We demonstrate a Quantum-Boltzmann-Machine (QBM) implementation using the Dynex platform to perform the computations and compare it with a traditional Restricted-Boltzmann-Machine (RBM) applied on the MNIST dataset of handwritten digital images with 60,000 training and 10,000 testing samples.
> Jupyter Notebook
Scientific background: Dixit V, Selvarajan R, Alam MA, Humble TS and Kais S (2021) Training Restricted Boltzmann Machines With a D-Wave Quantum Annealer. Front. Phys. 9:589626. doi: 10.3389/fphy.2021.589626; Sleeman, Jennifer, John E. Dorband and Milton Halem. “A Hybrid Quantum enabled RBM Advantage: Convolutional Autoencoders For Quantum Image Compression and Generative Learning.” Defense + Commercial Sensing (2020).
Quantum Support-Vector-Machine (QSVM) on the Dynex Platform
In this example a classical classification model, Kernel-Support Vector machine, is implemented as a Quadratic Unconstrained Binary Optimisation problem. Here, data points are classified by a separating hyperplane while maximizing the function margin. The problem is solved for a public Banknote Authentication dataset and the well- known Iris Dataset using the Dynex Neuromorphic Computing Platform.
> Jupyter Notebook
Scientific background: Rounds, Max and Phil Goddard. “Optimal feature selection in credit scoring and classification using a quantum annealer.” (2017).
Placement of EV Charging Stations
Determining optimal locations to build new electric vehicle charging stations is a complex optimization problem. Many factors should be taken into consideration, like existing charger locations, points of interest (POIs), quantity to build, etc. In this example, we take a look at how we might formulate this optimization problem and solve it using the Dynex Neuromorphic Platform.
> Jupyter Notebook
Scientific background: Pagany, Raphaela & Marquardt, Anna & Zink, Roland. (2019). Electric Charging Demand Location Model—A User-and Destination-Based Locating Approach for Electric Vehicle Charging Stations. Sustainability. 11. 2301. 10.3390/su11082301
Feature Selection
Feature selection for machine learning using mutual information to predict survivals of Titanic passengers. The method used is applicable to problems from a wide range of domains, for example financial portfolio optimization.
> Jupyter Notebook
Scientific background: Xuan Vinh Nguyen, Jeffrey Chan, Simone Romano, and James Bailey. 2014. Effective global approaches for mutual information based feature selection. In Proceedings of the 20th ACM SIGKDD international conference on Knowledge discovery and data mining (KDD '14). Association for Computing Machinery, New York, NY, USA, 512–521
Quantum Integer Factorization on the Dynex Platform
Identifying new methods for integer factorization plays an important role in modern information security. Shor’s algorithm is perhaps the most well-known method for integer factorization. An equally powerful model of quantum computing is the adiabatic quantum computing (AQC) model, which can also solve the integer factorization problem. In this example, we show how to convert an arbitrary integer factorization problem to an executable Ising model and tested it on the Dynex Neuromorphic Platform.
> Jupyter Notebook
Scientific background: Jiang, S., Britt, K.A., McCaskey, A.J. et al. Quantum Annealing for Prime Factorization. Sci Rep 8, 17667 (2018)