Finding low-energy conformations of lattice protein models by quantum annealing

Cited by (371)

Items 101–200 of 371

1. Implementation of a Hybrid Classical-Quantum Annealing Algorithm for Logistic Network Design
   Yongcheng Ding, Xi Chen, Lucas Lamata, E. Solano, Mikel Sanz · 2021 · SN Computer Science
2. Enhancing combinatorial optimization with classical and quantum generative models
   Javier A. Alcazar, Mohammad Ghazi Vakili, Can B. Kalaycı, Alejandro Perdomo‐Ortiz · 2024 · Nature Communications
3. From near to eternity: Spin-glass planting, tiling puzzles, and constraint-satisfaction problems
   Firas Hamze, Darryl C. Jacob, Andrew J. Ochoa, Dilina Perera, Wenlong Wang, Helmut G. Katzgraber · 2018 · Physical review. E
4. Probabilistic nonunitary gate in imaginary time evolution
   Tong Liu, Jin-Guo Liu, Heng Fan · 2021 · Quantum Information Processing
5. Boltzmann Sampling by Degenerate Optical Parametric Oscillator Network for Structure-Based Virtual Screening
   Sakaguchi Hiromasa, Koji Ogata, Tetsu Isomura, Shoko Utsunomiya, Y. Yamamoto, Kazuyuki Aihara · 2016 · Entropy
6. A primer for quantum computing and its applications to healthcare and biomedical research
   Thomas J S Durant, Elizabeth Knight, Brent G. Nelson, Sarah Nixon Dudgeon, Seung Joon Lee, Dominic Walliman, Hobart P Young, Lucila Ohno-machado A, Wade L. Schulz · 2024 · Journal of the American Medical Informatics Association
7. Predicting toxicity by quantum machine learning
   Teppei Suzuki, Michio Katouda · 2020 · Journal of Physics Communications
8. A quantum annealing approach for boolean satisfiability problem
   Juexiao Su, Tianheng Tu, Lei He · 2016 · ACM/IEEE Design Automation Conference (DAC)
9. Quantum Catalysis of Magnetic Phase Transitions in a Quantum Simulator
   Philip Richerme, Crystal Senko, S. É. Korenblit, J. Smith, A. Lee, Rajibul Islam, Wesley C. Campbell, Christopher R. Monroe · 2013 · Physical Review Letters
10. Parity Quantum Optimization: Compiler
    Kilian Ender, Roeland ter Hoeven, Benjamin E. Niehoff, Maike Drieb-Schön, Wolfgang Lechner · 2023 · Quantum
11. A Performance Estimator for Quantum Annealers: Gauge selection and Parameter Setting
    Alejandro Perdomo‐Ortiz, Joseph Fluegemann, Rupak Biswas, Vadim Smelyanskiy · 2015 · arXiv (Cornell University)
12. Energetic Perspective on Rapid Quenches in Quantum Annealing
    Adam Callison, Max Z. Festenstein, Jie Chen, Laurentiu Nita, Viv M. Kendon, Nicholas Chancellor · 2021 · PRX Quantum
13. Folding lattice proteins with quantum annealing
    Anders Irbäck, Lucas Knuthson, Sandipan Mohanty, Carsten Peterson · 2022 · Physical Review Research
14. Identification of an X-Band Clock Transition in Cp′3Pr–Enabled by a 4f25d1Configuration
    Patrick William Smith, Jakub Hrubý, William J. Evans, Stephen Hill, Stefan G. Minasian · 2024 · Journal of the American Chemical Society
15. Fast quantum algorithm for protein structure prediction in hydrophobic-hydrophilic model
    Renata Wong, Weng-Long Chang · 2022 · Journal of Parallel and Distributed Computing
16. Towards optimization of photonic-crystal surface-emitting lasers via quantum annealing
    Takuya Inoue, Yuya Seki, Shu Tanaka, Nozomu Togawa, Kenji Ishizaki, Susumu Noda · 2022 · Optics Express
17. Probing entanglement in adiabatic quantum optimization with trapped ions
    Philipp Hauke, Lars Bonnes, Markus Heyl, Wolfgang Lechner · 2015 · Frontiers in Physics
18. Quantum computing cryptography: Finding cryptographic Boolean functions with quantum annealing by a 2000 qubit D-wave quantum computer
    Feng Hu, Lucas Lamata, Mikel Sanz, Xi Chen, Xingyuan Chen, Chao Wang, E. Solano · 2020 · Physics Letters A
19. A quantum-walk-inspired adiabatic algorithm for solving graph isomorphism problems
    Dario Tamascelli, Luca Zanetti · 2014 · Journal of Physics A Mathematical and Theoretical
20. A flexible iron( ii ) complex in which zero-field splitting is resistant to structural variation
    Joseph M. Zadrozny, Samuel M. Greer, Stephen Hill, Danna E. Freedman · 2015 · Chemical Science
21. Quantum versus simulated annealing in wireless interference network optimization
    Chi Wang, Huo Chen, EDMOND A. JONCKHEERE · 2016 · Scientific Reports
22. Peptide conformational sampling using the Quantum Approximate Optimization Algorithm
    Boulebnane, Sami, Lucas, Xavier, Meyder, Agnes, Adaszewski, Stanislaw, Montanaro, Ashley · 2023 · npj Quantum Information
23. Optimization of neural networks via finite-value quantum fluctuations
    Masayuki Ohzeki, Shuntaro Okada, Masayoshi Terabe, Shinichiro Taguchi · 2018 · Scientific Reports
24. A Quantum Annealing Approach for Dynamic Multi-Depot Capacitated Vehicle Routing Problem
    Harikrishnakumar, Ramkumar, Saideep Nannapaneni, Nguyen, Nam H., James E. Steck, Elizabeth Behrman · 2020 · arXiv (Cornell University)
25. Quantum-Enhanced Reinforcement Learning for Finite-Episode Games with Discrete State Spaces
    Florian Neukart, David Von Dollen, Christian Seidel, G. Compostella · 2018 · Frontiers in Physics
26. Quantum algorithms with local particle-number conservation: Noise effects and error correction
    Michael Streif, Martin Leib, Filip Wudarski, Eleanor Gilbert Rieffel, Zhihui Wang · 2021 · Physical Review A
27. Bifurcation behaviors shape how continuous physical dynamics solves discrete Ising optimization
    Juntao Wang, Daniel Ebler, K. Y. Michael Wong, David Shui Wing Hui, Jie Sun · 2023 · Nature Communications
28. Comparative study of the performance of quantum annealing and simulated annealing
    Hidetoshi Nishimori, Junichi Tsuda, Sergey Knysh · 2015 · Physical Review E
29. Transient and elusive intermediate states in self‐assembly processes: An overview
    Ziyi Zhang, Ze Bo Hu, Junfei Xing, Quan Li · 2024 · Responsive materials
30. Toward Prediction of Financial Crashes with a D-Wave Quantum Annealer
    Yongcheng Ding, Javier Gonzalez-Conde, Lucas Lamata, José D. Martín‐Guerrero, Enrique Lizaso, Samuel Mugel, Xi Chen, Román Orús, E. Solano, Mikel Sanz · 2023 · Entropy
31. A Firefly-Inspired Method for Protein Structure Prediction in Lattice Models
    Brian Maher, Andreas A. Albrecht, Martin J. Loomes, Xin‐She Yang, Kathleen K. Steinhöfel · 2014 · Biomolecules
32. Assessment of image generation by quantum annealer
    Takehito Sato, Masayuki Ohzeki, Kazuyuki Tanaka · 2021 · Scientific Reports
33. Understanding domain-wall encoding theoretically and experimentally
    Jesse Berwald, Nicholas Chancellor, Raouf Dridi · 2022 · Philosophical Transactions of the Royal Society A Mathematical Physical and Engineering Sciences
34. Simulated-quantum-annealing comparison between all-to-all connectivity schemes
    Tameem Albash, Walter Vinci, Daniel A. Lidar · 2016 · Physical Review A
35. Quantum Machine Learning: Foundation, New Techniques, and Opportunities for Database Research
    Tobias Winker, Sven Groppe, Valter Uotila, Zhengtong Yan, Jiaheng Lu, Maja Franz, Wolfgang Mauerer · 2023 · ACM SIGMOD International Conference on Management of Data (SIGMOD)
36. Quantum-Assisted Cluster Analysis on a Quantum Annealing Device
    Florian Neukart, David Von Dollen, Christian Seidel · 2018 · Frontiers in Physics
37. Gate-based quantum computing for protein design
    Khatami, Mohammad Hassan, Mendes, Udson C., Wiebe, Nathan, Kim, Philip M. · 2023 · PLOS Computational Biology
38. Integer Programming Techniques for Minor-Embedding in Quantum Annealers
    David E. Bernal, Kyle E. C. Booth, Raouf Dridi, Hedayat Alghassi, Sridhar R. Tayur, Davide Venturelli · 2020 · Lecture notes in computer science
39. Exact representations of many-body interactions with restricted-Boltzmann-machine neural networks
    Ermal Rrapaj, Alessandro Roggero · 2021 · Physical review. E
40. An integrated programming and development environment for adiabatic quantum optimization
    Travis S. Humble, Alex McCaskey, Ryan S. Bennink, Jay Jay Billings, Eduardo F. D'Azevedo, Blair D. Sullivan, Christine Klymko, Hadayat Seddiqi · 2014 · Computational Science & Discovery
41. Folding simulation of small proteins by dissipative particle dynamics (DPD) with non-empirical interaction parameters based on fragment molecular orbital calculations
    Koji Okuwaki, Hideo Doi, Kaori Fukuzawa, Yuji Mochizuki · 2019 · Applied Physics Express
42. Using quantum annealing to design lattice proteins
    Anders Irbäck, Lucas Knuthson, Sandipan Mohanty, Carsten Peterson · 2024 · Physical Review Research
43. A Leap From Theory to Reality: Knowledge Visualization of Quantum Computing
    Keshav Singh Rawat, Tarun Kr. Sharma · 2024 · IEEE Transactions on Engineering Management
44. New classifications for quantum bioinformatics: Q-bioinformatics, QCt-bioinformatics, QCg-bioinformatics, and QCr-bioinformatics
    Majid Mokhtari, Samane Khoshbakht, Kobra Ziyaei, Mohammad Esmaeil Akbari, Sayyed Sajjad Moravveji · 2024 · Briefings in Bioinformatics
45. Quantum Annealing with Markov Chain Monte Carlo Simulations and D-Wave Quantum Computers
    Yazhen Wang, Shang Wu, Jian Zou · 2016 · Statistical Science
46. Parity Quantum Optimization: Benchmarks
    MICHAEL J. FELLNER, Kilian Ender, Roeland ter Hoeven, Wolfgang Lechner · 2023 · Quantum
47. HUBO and QUBO models for prime factorization
    Kyungtaek Jun, Hyunju Lee · 2023 · Scientific Reports
48. Native three-body interaction in superconducting circuits
    Simon Panyella Pedersen, K. S. Christensen, N. T. Zinner · 2019 · Physical Review Research
49. Reinforcement Learning for Branch-and-Bound Optimisation Using Retrospective Trajectories
    Christopher W. F. Parsonson, Alexandre Laterre, Thomas D. Barrett · 2023 · Proceedings of the AAAI Conference on Artificial Intelligence
50. Quantum adiabatic machine learning by zooming into a region of the energy surface
    Alexander Zlokapa, A. Mott, Joshua Job, Jean-Roch Vlimant, Daniel A. Lidar, M. Spiropulu · 2020 · Physical Review A
51. Structure and Thermodynamics of Polyelectrolyte Complexes
    Johannes Frueh, Meiyu Gai, Simon Halstead, Qiang Zhi He · 2014 · Engineering materials
52. Quantum simulations of localization effects with dipolar interactions
    Gonzalo A. Álvarez, Robin Kaiser, Dieter Suter · 2013 · Annalen der Physik
53. A QUBO Formulation of the Stereo Matching Problem for D-Wave Quantum Annealers
    William Cruz-Santos, Salvador Elías Venegas-Andraca, Marco O. Lanzagorta · 2018 · Entropy
54. Rational design using sequence information only produces a peptide that binds to the intrinsically disordered region of p53
    Kiyoto Kamagata, Eriko Mano, Yuji Itoh, Takuro Wakamoto, Ryo Kitahara, Saori Kanbayashi, Hiroto Takahashi, Agato Murata, Tomoshi Kameda · 2019 · Scientific Reports
55. Solving Set Cover with Pairs Problem using Quantum Annealing
    Yudong Cao, Shuxian Jiang, Debbie Perouli, Sabre Kais · 2016 · Scientific Reports
56. Direct estimation of the energy gap between the ground state and excited state with quantum annealing
    Yuichiro Matsuzaki, Hideaki Hakoshima, Kenji Sugisaki, Yuya Seki, Shiro Kawabata · 2021 · Japanese Journal of Applied Physics
57. Dominant Reaction Pathways by Quantum Computing
    Hauke, Philipp, Mattiotti, Giovanni, Faccioli, Pietro · 2021 · Physical Review Letters
58. G-Complexity, Quantum Computation and Anticipatory Processes
    Mihai Nadin · 2014 · PhilPapers (PhilPapers Foundation)
59. Integrating spin-based technologies with atomically controlled van der Waals interfaces
    Wen Zhang, Ping Kwan Johnny Wong, Sheng Jiang, Qian Chen, Wei Huang, Andrew T. S. Wee · 2021 · Materials Today
60. Quantum Annealing Boosts Prediction of Multimolecular Adsorption on Solid Surfaces Avoiding Combinatorial Explosion
    Hiroshi Sampei, Koki Saegusa, Kenshin Chishima, Takuma Higo, Shu Tanaka, Yoshihiro Yayama, Nakamura Makoto, Kôichi Kimura, Yasushi Sekine · 2023 · JACS Au
61. Review and Comparative Analysis of Methods and Advancements in Predicting Protein Complex Structure
    Nan Zhao, Tong Wu, Wenda Wang, Lunchuan Zhang, Xinqi Gong · 2024 · Interdisciplinary Sciences Computational Life Sciences
62. Adiabatic quantum optimization for associative memory recall
    Hadayat Seddiqi, Travis S. Humble · 2014 · Frontiers in Physics
63. Versatile Configuration and Control Framework for Real-Time Data Acquisition Systems
    Nick Karcher, Richard Gebauer, R. Bauknecht, R. Illichmann, Oliver Sander · 2021 · IEEE Transactions on Nuclear Science
64. Computing: The quantum company
    Nicola Jones · 2013 · Nature
65. Quantum computing in drug discovery
    Ruby Srivastava · 2023 · Information System and Smart City
66. Chaotic Artificial Bee Colony algorithm: A new approach to the problem of minimization of energy of the 3D protein structure
    Y. Wang, Gongde Guo, Lifei Chen · 2013 · Molecular Biology
67. Quantum annealing – foundations and frontiers
    Eliahu Cohen, Boaz Tamir · 2015 · The European Physical Journal Special Topics
68. Efficient low temperature Monte Carlo sampling using quantum annealing
    Roland Sandt, Robert Spatschek · 2023 · Scientific Reports
69. Quantum Approximate Bayesian Optimization Algorithms With Two Mixers and Uncertainty Quantification
    Jungin E. Kim, Yan Wang · 2023 · IEEE Transactions on Quantum Engineering
70. Topologically nontrivial phases in superconducting transition metal carbides
    Richard Zhan, Xuan Luo · 2019 · Journal of Applied Physics
71. Reinforcement learning enhanced quantum-inspired algorithm for combinatorial optimization
    Dmitrii Beloborodov, Alexander E. Ulanov, Jakob Foerster, Shimon Whiteson, Alexander I. Lvovsky · 2020 · Machine Learning Science and Technology
72. Sampling rare conformational transitions with a quantum computer
    Danial Ghamari, Philipp Hauke, Roberto Covino, Pietro Faccioli · 2022 · Scientific Reports
73. Adiabatic quantum optimization in the presence of discrete noise: Reducing the problem dimensionality
    Salvatore Mandrà, Gian Giacomo Guerreschi, Alán Aspuru‐Guzik · 2015 · Physical Review A
74. Universal Quantum Optimization with Cold Atoms in an Optical Cavity
    Meng Ye, Ye Tian, Jian Hui Lin, Yuchen Luo, Jiaqi You, Jiazhong Hu, Wenjun Zhang, Wenlan Chen, Xiaopeng Li · 2023 · Physical Review Letters
75. Leveraging Quantum Computing for Database Index Selection
    Immanuel Trummer, Davide Venturelli · 2024 · Workshop on Quantum Computing and Quantum-Inspired Technology for Data-Intensive Systems and Applications (Q-Data)
76. Quantum Molecular Docking with a Quantum-Inspired Algorithm
    Yunting Li, Xiaopeng Cui, Zhaoping Xiong, Bowen Liu, Bi-Ying Wang, Runqiu Shu, Nan Qiao, Man‐Hong Yung · 2024 · Journal of Chemical Theory and Computation
77. A Variable Neighbourhood Descent Heuristic for Conformational Search Using a Quantum Annealer
    D. J. J. Marchand, Moslem Noori, A. Roberts, Gili Rosenberg, Brad Woods, U. Yildiz, Marc P. Coons, David D. Devore, Peter M. Margl · 2019 · Scientific Reports
78. Optimizing resource allocation in precision farming using quantum enhanced algorithms and quantum sensor networks
    Hatoon S. AlSagri, Ankit Kumar, Abdul Khader Jilani Saudagar, Abhishek Kumar, Linesh Raja · 2025 · Journal of Cloud Computing Advances Systems and Applications
79. Investigating the Chinese postman problem on a quantum annealer
    Ilaria Siloi, Virginia Carnevali, Bibek Pokharel, Marco Fornari, Rosa Di Felice · 2021 · Quantum Machine Intelligence
80. Experimental test of search range in quantum annealing
    Nicholas Chancellor, Viv M. Kendon · 2021 · Physical Review A
81. A molecular computing approach to solving optimization problems via programmable microdroplet arrays
    Si Yue Guo, Pascal Friederich, Yudong Cao, Tony Wu, Christopher J. Forman, Douglas Mendoza, Matthias Degroote, Andrew C. Cavell, Veronica K. Krasecki, Riley J. Hickman et al. · 2021 · Matter
82. Counterdiabatic reverse annealing
    Gianluca Passarelli, Procolo Lucignano · 2023 · Physical Review A
83. Guided quantum walk
    Sebastian Schulz, Dennis Willsch, Kristel F. L. Michielsen · 2024 · Physical Review Research
84. Quantum synergy in peptide folding: A comparative study of CVaR-variational quantum eigensolver and molecular dynamics simulation
    Akshay Uttarkar, Vidya Niranjan · 2024 · International Journal of Biological Macromolecules
85. Quantum natural language processing and its applications in bioinformatics: a comprehensive review of methodologies, concepts, and future directions
    Gundala Pallavi, Rangarajan Prasanna Kumar · 2025 · Frontiers in Computer Science
86. Standard quantum annealing outperforms adiabatic reverse annealing with decoherence
    Gianluca Passarelli, Ka-Wa Yip, Daniel A. Lidar, Procolo Lucignano · 2022 · Physical Review A
87. Boosting quantum amplitude exponentially in variational quantum algorithms
    Thi Ha Kyaw, Micheline B. Soley, Brandon Allen, Paul Bergold, Chong Sun, Víctor S. Batista, Alán Aspuru‐Guzik · 2023 · Quantum Science and Technology
88. On Macroscopic Quantum Phenomena in Biomolecules and Cells: From Levinthal to Hopfield
    Dejan I. Raković, M. Dugić, J. Jeknić-Dugić, Milenko B. Plavsic, Stevo Jaćimovski, Jovan P. Šetrajčić · 2014 · BioMed Research International
89. Viewing vanilla quantum annealing through spin glasses
    Helmut G. Katzgraber · 2018 · Quantum Science and Technology
90. Practical designs for permutation-symmetric problem Hamiltonians on hypercubes
    A. Ben Dodds, Viv M. Kendon, Charles S. Adams, Nicholas Chancellor · 2019 · Physical Review A
91. Applying the Hubbard-Stratonovich Transformation to Solve Scheduling Problems Under Inequality Constraints With Quantum Annealing
    Sizhuo Yu, Tahar Nabil · 2021 · Frontiers in Physics
92. Deep learning optimal quantum annealing schedules for random Ising models
    Pratibha Raghupati Hegde, Gianluca Passarelli, Giovanni Cantele, Procolo Lucignano · 2023 · New Journal of Physics
93. On the Characterization and Software Implementation of General Protein Lattice Models
    Alessio Bechini · 2013 · PLoS ONE
94. The prospects of Monte Carlo antibody loop modelling on a fault-tolerant quantum computer
    Allcock, Jonathan, Vangone, Anna, Meyder, Agnes, Adaszewski, Stanislaw, Strahm, Martin, Hsieh, Chang-Yu, Zhang, Shengyu · 2022 · Frontiers in Drug Discovery
95. Resource analysis of quantum algorithms for coarse-grained protein folding models
    Hanna Linn, Isak Lyngfelt, Laura García-Álvarez, Göran Johansson · 2024 · Physical Review Research
96. New advanced computing architecture for cryptography design and analysis by D-Wave quantum annealer
    Xiangmin Ji, Baonan Wang, Feng Hu, Chao Wang, Huanguo Zhang · 2021 · Tsinghua Science & Technology
97. Magnetoelectric oxide based stochastic spin device towards solving combinatorial optimization problems
    Saima Sharmin, Yong Sub Shim, Kaushik Roy · 2017 · Scientific Reports
98. A graphene-based hybrid material with quantum bits prepared by the double Langmuir–Schaefer method
    Jakub Hrubý, Vinícius T. Santana, Dmytro Kostiuk, Martin Bouček, Samuel Lenz, Michal Kern, Peter Šiffalovič, Joris van Slageren, Petr Neugebauer · 2019 · RSC Advances
99. An Improved Noise Quantum Annealing Method for TSP
    Yumin Dong, Zhijie Huang · 2020 · International Journal of Theoretical Physics
100. Modernizing quantum annealing II: genetic algorithms with the inference primitive formalism
     Nicholas Chancellor · 2022 · Natural Computing