This paper presents an enhanced quantum computing approach for DNA sequence alignment, integrating advanced noise management and robust error detection. We augment existing quantum alignment methodologies by incorporating supplementary qubits for each base, enabling improved alignment in noisy quantum environments. Our method models quantum circuits for matching reference and read DNA sequences using a hardware-calibrated noise model, specifically FakeJakartaV2, which incorporates depolarizing and thermal relaxation error characteristics. A key enhancement involves the integration of Zero-Noise Extrapolation (ZNE) for active error mitigation, with ZNE confidence serving as an early stopping criterion to enhance computational efficiency. Our error detection mechanism complements ZNE, providing an additional layer of verification for alignment integrity even when ZNE confidence is high. Experimental results demonstrate that this combined strategy effectively addresses sequence discrepancies, enhances error resilience, and produces more reliable alignment outcomes in quantum-based DNA alignment tasks compared to classical techniques. We validate our approach using IBM Quantum simulators, showcasing its potential for advancing large-scale genomic data analysis, addressing challenges of noise and errors in quantum DNA sequence alignment, and offering practical value through actionable error mitigation.
This paper presents an enhanced quantum computing approach for DNA sequence alignment, integrating advanced noise management and robust error detection. We augment existing quantum alignment methodologies by incorporating supplementary qubits for each base, enabling improved alignment in noisy quantum environments. Our method models quantum circuits for matching reference and read DNA sequences using a hardware-calibrated noise model, specifically FakeJakartaV2, which incorporates depolarizing and thermal relaxation error characteristics. A key enhancement involves the integration of Zero-Noise Extrapolation (ZNE) for active error mitigation, with ZNE confidence serving as an early stopping criterion to enhance computational efficiency. Our error detection mechanism complements ZNE, providing an additional layer of verification for alignment integrity even when ZNE confidence is high. Experimental results demonstrate that this combined strategy effectively addresses sequence discrepancies, enhances error resilience, and produces more reliable alignment outcomes in quantum-based DNA alignment tasks compared to classical techniques. We validate our approach using IBM Quantum simulators, showcasing its potential for advancing large-scale genomic data analysis, addressing challenges of noise and errors in quantum DNA sequence alignment, and offering practical value through actionable error mitigation.
Abstract Quantum computing has recently emerged as a novel paradigm for solving problems otherwise intractable on classical computers, yet the practical progress of quantum computers is severely impacted by noise, decoherence, and imperfect gate operations in Noisy Intermediate-Scale Quantum (NISQ) devices. Specific to IBM Quantum hardware, imperfections due to readout error, gate errors, and device drift, which depends on time, resolves limits for the accuracy of outputs from our algorithms. The mitigation strategies currently used, for example, Measurement Error Mitigation (MEM), Zero Noise Extrapolation (ZNE), and Clifford Data Regression (CDR), offer improvement over raw, unmitigated outputs, but they are static and not dynamic; the reduction of noise in within an NISQ device is temporal and can vary in patterns that are non-zero. In addition to this, using the conventional methods provides inconsistent and suboptimal results.This study will provide enhanced reliability with respect to performing quantum computation on IBM Quantum hardware with a unique mitigation framework that is adaptive and computationally efficient for a high-fidelity output. The problem taken on here is the failure of existing error mitigation strategies to provide adaptive noise compensation, as they assume a statically-distributed error, despite the performance-related characteristics already being documented in regards to calibration drift and variation over time.To achieve this, we propose a Hybrid Adaptive Error Mitigation (HAEM) approach that includes baseline measurement error mitigation and an additional correction layer that utilizes realtime calibration information, along with lightweight machine learning models. The approach can be broken down into three steps: (i) perform standard measurement error mitigation to reduce classical readout noise, (ii) execute compact calibration circuits, such as Bell states, GHZ states and Clifford benchmarks to capture then current error profile of the device, and (iii) use a lightweight machine learning model (having been trained on historical and newest calibration data) to dynamically change the mitigation weights applied for the target quantum algorithm. All implementation is done using Qiskit Runtime to ensure low-latency execution, and we completed experiments on both Qiskit Aer noisy simulators and IBM Quantum devices.Initial results suggest HAEM improved the outputs of quantum algorithms' fidelity compared to the unmitigated runs and the baseline measurement error mitigation (MEM) runs. On the noisy simulators, HAEM increased fidelity from a raw performance of 0.65 to 0.87, nearly a 34% improvement. In fairer hardware-like scenarios, fidelity-on-average was persistently 12% better than MEM, with nearly equal time duration for the additional adaptive measurements. The adaptive aspect of HAEM consistently supported subsequent calibration cycles of the device and was effective to continue providing fidelity improvements despite the static mitigation performance degrading.To sum up, the proposed HAEM framework is a modern and viable alternative for error mitigation which brings together the benefits of baseline approaches with corrections that are driven by fixed-function error-corrective, adaptive learning. As both learning-based and standard baseline approaches can only achieve fixed levels of performance, HAEM, through its use of noise mitigation both at execution time and through correlating it with standard data, provides a route towards reliable quantum computations on current IBM hardware. HAEM also presents a contribution to the NISQ error-resilient landscape, and however it is intended that it will continue to improve future applications of hybrid workflows of quantum and classical computation where error mitigation and resilience is important.
Recent hundred-qubit processors represent a significant hardware advancement, but current limitations prevent effective quantum error correction (QEC), necessitating reliance on quantum error mitigation (QEM) to enhance result fidelity from quantum computers. Our paper introduces a noise-aware folding technique that enhances Zero-Noise Extrapolation (ZNE) by leveraging the noise characteristics of target quantum hardware to fold circuits more efficiently. Unlike traditional ZNE approaches assuming uniform error distribution, our method redistributes noise using calibration data based on hardware noise models. By employing a noise-adaptive compilation method combined with our proposed folding mechanism, we enhance the ZNE accuracy of quantum gate-based computing using superconducting quantum computers. This paper highlights the uniqueness of our method, summarizes noise accumulation, presents the scaling algorithm, and compares the reliability of our method with those of existing models using linear extrapolation model. Experimental results show that compared to existing folding methods, our approach achieved up to a 23.6% improvement on quantum computer simulators and up to a 44.8% improvement on real quantum computers, with statistical confidence intervals indicating stable performance gains across circuit scales.
Abstract The practical application of Noisy Intermediate-Scale Quantum (NISQ) hardware is fundamentally limited by gate-level noise, which corrupts computational results. This research addresses this challenge through the development and validation of a modular software framework for Quantum Error Mitigation (QEM). We implement and compare two leading QEM strategies: Zero-Noise Extrapolation (ZNE) and Probabilistic Error Cancellation (PEC). The framework is built using the Qiskit library and is validated using a realistic, hardware-calibrated noisy simulator that mimics the error characteristics of a real IBM Quantum device. Our methodology focuses on a robust implementation of ZNE via unitary folding and a proof-of-concept demonstration of the PEC algorithm. The framework's effectiveness is demonstrated on a simulated noisy backend where, for a 3-qubit Greenberger-Horne-Zeilinger (GHZ) state, the baseline state fidelity was increased from 93.5% to 97.3% via ZNE, corresponding to a 59% reduction in the state's infidelity. This work provides a practical demonstration of how software-based error mitigation can enhance the reliability of quantum computations on current noisy hardware.
Abstract Quantum error mitigation is a key enabling technique for extracting reliable computational results from noisy intermediate-scale quantum devices. Among existing approaches, zero-noise extrapolation (ZNE) is widely employed, but its effectiveness deteriorates in high-noise regimes or deep circuits, where measurement outcomes converge to the random-guessing limit. To address this issue, we propose a lightweight, extrapolation-based error mitigation framework that leverages the intrinsic repetitive structure of quantum algorithms. We classify these algorithms into homogeneous and heterogeneous types and efficiently estimate block fidelities using shallow identity sequences of the core operational block, thereby avoiding global circuit folding. Experiments on IBM’s advanced superconducting platform and its corresponding simulator demonstrate that the proposed framework remains effective even in high-noise regimes where folding-based ZNE(f-ZNE) fails due to noise saturation. For a four-qubit Grover search, our approach restores the success probability to near its theoretical value, whereas f-ZNE yields negligible improvement. We further validate the proposed method on a 17-qubit quantum approximate optimization algorithm with layer-dependent parameters, demonstrating robustness beyond fixed-structure circuits. These results indicate that leveraging algorithmic structure provides a practical pathway to extending the performance of extrapolation-based error mitigation on current quantum processors.
Quantum computing holds the potential to address problems that are currently considered intractable for classical processors by leveraging quantum mechanical effects for simulation, optimization, and chemistry. Despite recent technological progress, quantum hardware remains in the noisy intermediate-scale regime, where coherence limits, gate imperfections, and readout errors restrict circuit depth and algorithmic reliability. Although first demonstrations of small-scale Quantum Error Correction exist, logical processors with low logical error rates are still distant. In the near term, even error-corrected qubits are expected to operate with residual error, which means that improving calibration and mitigating errors at the physical and circuit level will remain essential for obtaining meaningful results. Established calibration routines and mitigation methods such as Zero-Noise-Extrapolation (ZNE) are valuable, but need to be further improved and more rigorously validated with respect to their underlying assumptions, stability and quantitative benefits. This thesis addresses error reduction techniques on transmon qubits through calibration, gate analysis, and circuit-level mitigation. First, a systematic comparison of two single-qubit amplitude calibration techniques is carried out (cross-point and ping-pong calibration), followed by an analysis of two implementations of a two-qubit gate, based on the cross-resonance interaction. The results show that cross-point calibration offers faster convergence, higher precision and a more favorable signal to noise ratio than ping-pong calibration. Hamiltonian tomography confirms the validity of a reduced model for the cross-resonance interaction, and algorithmic tests reveal that direct and echoed CNOT gates offer complementary advantages depending on the application. Second, the thesis develops and evaluates the method of Inverted-Circuit Zero-Noise-Extrapolation (IC-ZNE). Its main idea consists of measuring the effective error strength of a circuit through inverted circuits. This quantity is then used for extrapolation towards zero noise rather than relying on simple, approximate noise scaling assumptions as in standard ZNE. This approach constitutes a novel and original method. IC-ZNE consistently produces results closer to ideal reference values than standard ZNE. The method achieves up to 77% error reduction in observable error on the tested circuits compared to standard ZNE and simple post processing filters can yield up to 39% reduction in selected cases compared to standard ZNE. Further refinements introduce noise-adaptive circuit scaling strategies that enhance mitigation outcomes without significant additional cost. The performance of these techniques is examined across several circuits and in the context of variational quantum algorithms. Applications to the Quantum Approximate Optimization Algorithm and the Variational Quantum Eigensolver demonstrate that these techniques extend the useful operating regime of current devices, although their effectiveness decreases for very deep circuits or unfavorable variational ansätze. Taken together, the calibration and mitigation techniques investigated and developed in this thesis demonstrate practical routes toward enhancing the reliability of near-term quantum processors. While they cannot replace full fault-tolerant quantum computation, they offer useful and complementary capabilities that support progress toward scalable quantum technologies.
We present a simple, malleable and low-overhead approach for improving generic biased quantum error mitigation (QEM) methods, achieving up to 15% fidelity improvements over standard QEM on 100-qubit circuits with up to 2000 entangling gates. We do so by constructing verifiable benchmark circuits which mirror the application circuit's native-gate structure and thus noise profile. These circuits can be used to benchmark and mitigate the bias of the underlying error mitigation method, requiring only the application circuit and hardware native gate set. We present two methods for generating benchmark circuits; one is agnostic to the target hardware at the expense of a small overhead of single-qubit gates, while the other is specific to the IBM superconducting hardware and has no gate overhead. As a corollary, we introduce benchmarked-noise zero-noise extrapolation (bnZNE) as a simple adaptation of zero-noise extrapolation (ZNE), one of the most popular error mitigation methods. We consider as an example the bias-mitigated ZNE and bnZNE of Trotterized Hamiltonian simulations, observing that our approaches outperform standard ZNE using both small-scale classical simulations and 100-qubit utility-scale experiments on the IBM superconducting hardware. We consider the measurement of both single-site observables as well as two-site correlations along a one-dimensional qubit chain. We also provide a software package for implementing the error mitigation techniques used in this research.