Untangling the Mysteries of Knots with Quantum Computers
What Quantum Advantage actually looks like
By Konstantinos Meichanetzidis
One of the greatest privileges of working directly with the world’s most powerful quantum computer at Quantinuum is building meaningful experiments that convert theory into practice. The privilege becomes even more compelling when considering that our current quantum processor – our H2 system – will soon be enhanced by Helios, a quantum computer potentially a stunning trillion times more powerful, and due for launch in just a few months. The moment has now arrived when we can build a timeline for applications that quantum computing professionals have anticipated for decades and which are experimentally supported.
Quantinuum’s applied algorithms team has released an end-to-end implementation of a quantum algorithm to solve a central problem in knot theory. Along with an efficiently verifiable benchmark for quantum processors, it allows for concrete resource estimates for quantum advantage in the near-term. The research team, included Quantinuum researchers Enrico Rinaldi, Chris Self, Eli Chertkov, Matthew DeCross, David Hayes, Brian Neyenhuis, Marcello Benedetti, and Tuomas Laakkonen of the Massachusetts Institute of Technology. In this article, Konstantinos Meichanetzidis, a team leader from Quantinuum’s AI group who led the project, writes about the problem being addressed and how the team, adopting an aggressively practical mindset, quantified the resources required for quantum advantage:
Knot theory is a field of mathematics called ‘low-dimensional topology’, with a rich history, stemming from a wild idea proposed by Lord Kelvin, who conjectured that chemical elements are different knots formed by vortices in the aether. Of course, we know today that the aether theory was falsified by the Michelson-Morley experiment, but mathematicians have been classifying, tabulating, and studying knots ever since. Regarding applications, the pure mathematics of knots can find their way into cryptography, but knot theory is also intrinsically related to many aspects of the natural sciences. For example, it naturally shows up in certain spin models in statistical mechanics, when one studies thermodynamic quantities, and the magnetohydrodynamical properties of knotted magnetic fields on the surface of the sun are an important indicator of solar activity, to name a few examples. Remarkably, physical properties of knots are important in understanding the stability of macromolecular structures. This is highlighted by work of Cozzarelli and Sumners in the 1980’s, on the topology of DNA, particularly how it forms knots and supercoils. Their interdisciplinary research helped explain how enzymes untangle and manage DNA topology, crucial for replication and transcription, laying the foundation for using mathematical models to predict and manipulate DNA behavior, with broad implications in drug development and synthetic biology. Serendipitously, this work was carried out during the same decade as Richard Feynman, David Deutsch, and Yuri Manin formed the first ideas for a quantum computer.
Most importantly for our context, knot theory has fundamental connections to quantum computation, originally outlined by Witten’s work in topological quantum field theory, concerning spacetimes without any notion of distance but only shape. In fact, this connection formed the very motivation for attempting to build topological quantum computers, where anyons – exotic quasiparticles that live in two-dimensional materials – are braided to perform quantum gates. The relation between knot theory and quantum physics is the most beautiful and bizarre facts you have never heard of.
The fundamental problem in knot theory is distinguishing knots, or more generally, links. To this end, mathematicians have defined link invariants, which serve as ‘fingerprints’ of a link. As there are many equivalent representations of the same link, an invariant, by definition, is the same for all of them. If the invariant is different for two links then they are not equivalent. The specific invariant our team focused on is the Jones polynomial.
They all have the same Jones polynomial, as it is an invariant.
The mind-blowing fact here is that any quantum computation corresponds to evaluating the Jones polynomial of some link, as shown by the works of Freedman, Larsen, Kitaev, Wang, Shor, Arad, and Aharonov. It reveals that this abstract mathematical problem is truly quantum native. In particular, the problem our team tackled was estimating the value of the Jones polynomial at the 5th root of unity. This is a well-studied case due to its relation to the infamous Fibonacci anyons, whose braiding is capable of universal quantum computation.
Building and improving on the work of Shor, Aharonov, Landau, Jones, and Kauffman, our team developed an efficient quantum algorithm that works end-to end. That is, given a link, it outputs a highly optimized quantum circuit that is readily executable on our processors and estimates the desired quantity. Furthermore, our team designed problem-tailored error detection and error mitigation strategies to achieve a higher accuracy.
In addition to providing a full pipeline for solving this problem, a major aspect of this work was to use the fact that the Jones polynomial is an invariant to introduce a benchmark for noisy quantum computers. Most importantly, this benchmark is efficiently verifiable, a rare property since for most applications, exponentially costly classical computations are necessary for verification. Given a link whose Jones polynomial is known, the benchmark constructs a large set of topologically equivalent links of varying sizes. In turn, these result in a set of circuits of varying numbers of qubits and gates, all of which should return the same answer. Thus, one can characterize the effect of noise present in a given quantum computer by quantifying the deviation of its output from the known result.
The benchmark introduced in this work allows one to identify the link sizes for which there is exponential quantum advantage in terms of time to solution against the state-of-the-art classical methods. These resource estimates indicate our next processor, Helios, with 96 qubits and at least 99.95% two-qubit gate-fidelity, is extremely close to meeting these requirements. Furthermore, Quantinuum’s hardware roadmap includes even more powerful machines that will come online by the end of the decade. Notably, an advantage in energy consumption emerges for even smaller link sizes. Meanwhile, our teams aim to continue reducing errors through improvements in both hardware and software, thereby moving deeper into quantum advantage territory.
The importance of this work, indeed the uniqueness of this work in the quantum computing sector, is its practical end-to-end approach. The advantage-hunting strategies introduced are transferable to other “quantum-easy classically-hard” problems. Our team’s efforts motivate shifting the focus toward specific problem instances rather than broad problem classes, promoting an engineering-oriented approach to identifying quantum advantage. This involves first carefully considering how quantum advantage should be defined and quantified, thereby setting a high standard for quantum advantage in scientific and mathematical domains. And thus, making sure we instill confidence in our customers and partners.
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About Quantinuum
Quantinuum, the world’s largest integrated quantum company, pioneers powerful quantum computers and advanced software solutions. Quantinuum’s technology drives breakthroughs in materials discovery, cybersecurity, and next-gen quantum AI. With over 500 employees, including 370+ scientists and engineers, Quantinuum leads the quantum computing revolution across continents.
Quantinuum is focusing on redefining what’s possible in hybrid quantum–classical computing by integrating Quantinuum’s best-in-class systems with high-performance NVIDIA accelerated computing to create powerful new architectures that can solve the world’s most pressing challenges.
The launch of Helios, Powered by Honeywell, the world’s most accurate quantum computer, marks a major milestone in quantum computing. Helios is now available to all customers through the cloud or on-premise deployment, launched with a go-to-market offering that seamlessly pairs Helios with the NVIDIA Grace Blackwell platform, targeting specific end markets such as drug discovery, finance, materials science, and advanced AI research.
We are also working with NVIDIA to adopt NVIDIA NVQLink, an open system architecture, as a standard for advancing hybrid quantum-classical supercomputing. Using this technology with Quantinuum Guppy and the NVIDIA CUDA-Q platform, Quantinuum has implemented NVIDIA accelerated computing across Helios and future systems to perform real-time decoding for quantum error correction.
In an industry-first demonstration, an NVIDIA GPU-based decoder integrated in the Helios control engine improved the logical fidelity of quantum operations by more than 3% — a notable gain given Helios’ already exceptionally low error rate. These results demonstrate how integration with NVIDIA accelerated computing through NVQLink can directly enhance the accuracy and scalability of quantum computation.
This unique collaboration spans the full Quantinuum technology stack. Quantinuum’s next-generation software development environment allows users to interleave quantum and GPU-accelerated classical computations in a single workflow. Developers can build hybrid applications using tools such as NVIDIA CUDA-Q, NVIDIA CUDA-QX, and Quantinuum’s Guppy, to make advanced quantum programming accessible to a broad community of innovators.
The collaboration also reaches into applied research through the NVIDIA Accelerated Quantum Computing Research Center (NVAQC), where an NVIDIA GB200 NVL72 supercomputer can be paired with Quantinuum’s Helios to further drive hybrid quantum-GPU research, including the development of breakthrough quantum-enhanced AI applications.
A recent achievement illustrates this potential: The ADAPT-GQE framework, a transformer-based Generative Quantum AI (GenQAI) approach, uses a Generative AI model to efficiently synthesize circuits to prepare the ground state of a chemical system on a quantum computer. Developed by Quantinuum, NVIDIA, and a pharmaceutical industry leader—and leveraging NVIDIA CUDA-Q with GPU-accelerated methods—ADAPT-GQE achieved a 234x speed-up in generating training data for complex molecules. The team used the framework to explore imipramine, a molecule crucial to pharmaceutical development. The transformer was trained on imipramine conformers to synthesize ground state circuits at orders of magnitude faster than ADAPT-VQE, and the circuit produced by the transformer was run on Helios to prepare the ground state using InQuanto, Quantinuum's computational chemistry platform.
From collaborating on hardware and software integrations to GenQAI applications, the collaboration between Quantinuum and NVIDIA is building the bridge between classical and quantum computing and creating a future where AI becomes more expansive through quantum computing, and quantum computing becomes more powerful through AI.
By Dr. Noah Berthusen
The earliest works on quantum error correction showed that by combining many noisy physical qubits into a complex entangled state called a "logical qubit," this state could survive for arbitrarily long times. QEC researchers devote much effort to hunt for codes that function well as "quantum memories," as they are called. Many promising code families have been found, but this is only half of the story.
Being able to keep a qubit around for a long time is one thing, but to realize the theoretical advantages of quantum computing we need to run quantum circuits. And to make sure noise doesn't ruin our computation, these circuits need to be run on the logical qubits of our code. This is often much more challenging than performing gates on the physical qubits of our device, as these "logical gates" often require many physical operations in their implementation. What's more, it often is not immediately obvious which logical gates a code has, and so converting a physical circuit into a logical circuit can be rather difficult.
Some codes, like the famous surface code, are good quantum memories and also have easy logical gates. The drawback is that the ratio of physical qubits to logical qubits (the "encoding rate") is low, and so many physical qubits are required to implement large logical algorithms. High-rate codes that are good quantum memories have also been found, but computing on them is much more difficult. The holy grail of QEC, so to speak, would be a high-rate code that is a good quantum memory and also has easy logical gates. Here, we make progress on that front by developing a new code with those properties.
Building on prior error correcting codes
A recent work from Quantinuum QEC researchers introduced genon codes. The underlying construction method for these codes, called the "symplectic double cover," also provided a way to obtain logical gates that are well suited for Quantinuum's QCCD architecture. Namely, these "SWAP-transversal" gates are performed by applying single qubit operations and relabeling the physical qubits of the device. Thanks to the all-to-all connectivity facilitated through qubit movement on the QCCD architecture, this relabeling can be done in software essentially for free. Combined with extremely high fidelity (~1.2 x10-5) single-qubit operations, the resulting logical gates are similarly high fidelity.
Given the promise of these codes, we take them a step further in our new paper. We combine the symplectic double codes with the [[4,2,2]] Iceberg code using a procedure called "code concatenation". A concatenated code is a bit like nesting dolls, with an outer code containing codes within it---with these too potentially containing codes. More technically, in a concatenated code the logical qubits of one code act as the physical qubits of another code.
The new codes, which we call "concatenated symplectic double codes", were designed in such a way that they have many of these easily-implementable SWAP-transversal gates. Central to its construction, we show how the concatenation method allows us to "upgrade" logical gates in terms of their ease of implementation; this procedure may provide insights for constructing other codes with convenient logical gates. Notably, the SWAP-transversal gate set on this code is so powerful that only two additional operations (logical T and S) are necessary for universal computation. Furthermore, these codes have many logical qubits, and we also present numerical evidence to suggest that they are good quantum memories.
Concatenated symplectic double codes have one of the easiest logical computation schemes, and we didn’t have to sacrifice rate to achieve it. Looking forward in our roadmap, we are targeting hundreds of logical qubits at ~ 1x 10-8 logical error rate by 2029. These codes put us in a prime position to leverage the best characteristics of our hardware and create a device that can achieve real commercial advantage.
Every year, the International Conference for High Performance Computing, Networking, Storage, and Analysis (SC) brings together the global supercomputing community to explore the technologies driving the future of computing.
Join Quantinuum at this year’s conference, taking place November 16th – 21st in St. Louis, Missouri, where we will showcase how our quantum hardware, software, and partnerships are helping define the next era of high-performance and quantum computing.
Visit Quantinuum in the Expo Hall
The Quantinuum team will be on-site at booth #4432 to showcase how we’re building the bridge between HPC and quantum.
- Live demo unit of our quantum hardware
- Our new Helios replica, providing an up-close look at the design behind our next-generation system
- The Helios chip, highlighting the innovation driving the world’s most advanced trapped-ion quantum computers
On Tuesday and Wednesday, our quantum computing experts will host daily tutorials at our booth on Helios, our next-generation hardware platform, Nexus, our all-in-one quantum computing platform, and Hybrid Workflows, featuring the integration of NVIDIA CUDA-Q with Quantinuum Systems.
Speaking Sessions at SC25
Join our team as they share insights on the opportunities and challenges of quantum integration within the HPC ecosystem:
Panel Session: The Quantum Era of HPC: Roadmaps, Challenges and Opportunities in Navigating the Integration Frontier
November 19th | 10:30 – 12:00pm CST
During this panel session, Kentaro Yamamoto from Quantinuum, will join experts from Lawrence Berkeley National Laboratory, IBM, QuEra, RIKEN, and Pawsey Supercomputing Research Centre to explore how quantum and classical systems are being brought together to accelerate scientific discovery and industrial innovation.
BoF Session: Bridging the Gap: Making Quantum-Classical Hybridization Work in HPC
November 19th | 5:15 – 6:45pm CST
Quantum-classical hybrid computing is moving from theory to reality, yet no clear roadmap exists for how best to integrate quantum processing units (QPUs) into established HPC environments. In this Birds of a Feather discussion, co-led by Quantinuum’s Grahame Vittorini and representatives from BCS, DOE, EPCC, Inria, ORNL NVIDIA, and RIKEN we hope to bring together a global community of HPC practitioners, system architects, quantum computing specialists and workflow researchers, including participants in the Workflow Community Initiative, to assess the state of hybrid integration and identify practical steps toward scalable, impactful deployment.