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Journal of Novel Engineering Science and Technology

Federated Quantum Machine Learning for Secure Multi-Party Genomic Data Analysis: A Hybrid Architecture with Differential Privacy

David Jumpa Malem Sembiring, Sinek Mehuli Br Perangin Angin

Published May 4, 2026• 0 citations
Publisher

Abstract

The exponential growth of genomic data has created opportunities for collaborative biomedical research while posing significant privacy and security challenges. Traditional centralized machine learning approaches risk data breaches and regulatory non-compliance. This study proposes a novel hybrid architecture combining Federated Quantum Machine Learning (FQML) with Differential Privacy (DP) for secure multi-party genomic data analysis. Our simulated framework enables institutions to collaboratively train quantum machine learning models on distributed genomic datasets without exposing sensitive data. Using variational quantum circuits within a federated learning framework, we implement privacy-preserving models across three simulated genomic data silos. Gaussian noise injection via DP mechanisms during gradient updates ensures formal privacy guarantees (ε = 0.85). Experimental results on synthetic datasets demonstrate that FQML achieves 93.4% predictive accuracy in genome-wide association studies simulation, outperforming classical federated models in convergence speed by 27% and reducing communication overhead by 19%. These findings suggest FQML with DP provides a promising foundation for future secure genomic collaboration, though real-world validation remains necessary.

DOI
10.56741/jnest.v5i01.1087

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Abstract This study presents a Federated Quantum Variational Quantum Classifier (FedVQC) framework designed to address critical challenges in healthcare data privacy and computational efficiency, particularly in the domain of genomic analysis. Conventional machine learning approaches in healthcare often face obstacles stemming from privacy concerns, regulatory constraints, and the fragmented nature of medical data across different institutions. The proposed FedVQC framework leverages the principles of federated learning and quantum machine learning to enable secure, decentralized training of predictive models without requiring the sharing of sensitive patient data. Extensive experimentation on multiple genomic datasets reveals a strong correlation between the number of participating institutions and the model's accuracy, with performance consistently improving as more clients contribute to the training process. The framework demonstrates high accuracy levels, ranging from 70% to 96%, across diverse datasets, highlighting its robustness and applicability in healthcare analytics. By harnessing the computational power of quantum computing and the collaborative nature of federated learning, the FedVQC framework provides a scalable and secure solution for genomic research. This study underscores the potential of quantum federated learning in advancing privacy-preserving precision medicine, large-scale genomic collaboration, and broader applications in bioinformatics, drug discovery, and personalized healthcare analytics
The exponential growth of bioinformatics data, including genomic sequences and protein structures, necessitates advanced analytical frameworks that ensure privacy, computational efficiency, and scalability. To address these challenges, we propose an integrated framework that combines Federated Learning (FL) with Quantum Computing (QC) for secure and efficient bioinformatics data analysis across distributed healthcare institutions. The proposed Quantum Federated Learning (QFL) architecture employs variational quantum circuits to expedite local model training, achieving a 35% reduction in computation time compared to classical FL methods. To strengthen security, Quantum Secure Communication Protocols (QSCP) are incorporated, resulting in over 40% enhanced resilience against adversarial attacks relative to conventional encryption schemes. Experimental validation on distributed genomic datasets, such as the Cancer Genome Atlas, demonstrates that QFL attains a classification accuracy of 94.8% in gene expression-based cancer subtype prediction, surpassing traditional FL by 6.3%. Furthermore, the model exhibits a 25% reduction in communication overhead through quantum state compression, ensuring efficient data exchange. This hybrid approach effectively addresses the critical requirements of data privacy, computational acceleration, and model robustness in bioinformatics, establishing a promising pathway for secure and scalable precision medicine solutions empowered by quantum-enhanced federated learning.
The edge computing environment faces a challenge in maintaining data privacy while performing machine learning tasks. The current solutions for privacy preservation are inefficient or do not provide security guarantees, causing a critical gap in the edge computing environment, which is resource-constrained. The aim of this research work is to design a hybrid quantum-classical computing system that addresses the challenges of privacy preservation and efficiency in machine learning tasks. We design a novel architecture combining variational quantum circuits for secure data encoding with classical neural networks for scalable inference, implemented through federated learning protocols enhanced with quantum differential privacy mechanisms. Experimental evaluation demonstrates a 35% reduction in communication overhead compared to traditional federated learning approaches while maintaining 99.2% classification accuracy across diverse datasets. The quantum-enhanced privacy mechanisms achieve provable security guarantees with information-theoretic bounds, outperforming conventional cryptographic methods by 28% in computational overhead reduction. This hybrid approach establishes a new paradigm for secure and efficient machine learning deployment on edge devices, enabling privacy-preserving artificial intelligence in healthcare, finance, and IoT applications.
With the emergence of machine learning (ML) models trained on large datasets containing potentially sensitive data, a major question in AI safety is how to make learning private with respect to the training data. Similar to classical machine learning, quantum machine learning (QML) models are not devoid of privacy vulnerabilities. Differential privacy (DP) is a standard tool for training ML models on sensitive data, but its impact in QML remains poorly understood. In this work we study private training in hybrid variational QML models using a classical private DP-SGD optimizer applied to pipelines with classical inputs and outputs. We analyze the interplay between gradient clipping and calibrated noise addition in DP-SGD, and its impact on optimization and accuracy for noisy and noiseless quantum models. We first explain why quantum noise does not provide a satisfactory replacement for the calibrated noise in DP-SGD for ensuring privacy. We then show how the deterministic bounds on gradient norms for a wide class of quantum models translate into explicit control of the detrimental clipping bias introduced by DP-SGD. Finally, we formulate a numerical comparison protocol under fixed clipping threshold and privacy budget and evaluate it on synthetic and image-classification tasks for equivalent quantum and classical models. Our results suggest that quantum models can retain higher accuracy in private-training regimes where the formal privacy guarantee is ensured by a classical DP-SGD mechanism.
Quantum Federated Learning (QFL) integrates the principles of quantum mechanics with classical machine learning to address the privacy challenges in distributed learning settings. This study introduces a Quantum Enhanced Federated Learning framework with Differential Privacy (QE-FLDP), designed to enhance privacy protections by leveraging quantum mechanics principles. The framework uses a quantum feature engineering circuit that encodes classical data into high-dimensional quantum states through parameterized quantum gates, including Rx rotations and CNOT gates. To ensure privacy, Differential Privacy is incorporated via the Laplace mechanism to safeguard data during the training process. Additionally, the framework integrates Quantum Homomorphic Encryption (QHE), enabling secure computations on encrypted data without exposing the underlying information. Model updates are transmitted over quantum channels post-training, preserving data integrity and ensuring compliance with privacy standards. The QE-FLDP framework was evaluated on synthetic datasets, achieving an average Mean Squared Error (MSE) of 0.0143 and an R2 score of 0.987 over 100 training rounds. These results highlight the potential of quantum principles to improve both model accuracy and data privacy in distributed learning settings.
The exponential expansion of data-driven technologies underscores the critical need for robust privacy safeguards. This study introduces an innovative privacy-preserving framework that combines Differential Privacy (DP) and Federated Learning (FL) with the cutting-edge capability of quantum computing. Leveraging Quantum Random Number Generators (QRNGs), the framework incorporates truly random quantum-generated noise into the differential privacy mechanism, substantially enhancing the security of gradient updates within machine learning models. This noise is specifically added to the gradient updates during the optimization process, using various optimizers. Quantum mechanics' inherent randomness ensures unpredictability, fortifying defenses against sophisticated attacks. This research signifies a significant step towards the development of secure and ethical AI technologies. By integrating quantum computing's random number generation capabilities into privacy-preserving mechanisms, the research paves the way for enhanced data security across various sectors. The findings indicate a promising path for further investigation and experimentation, with potential applications in fields demanding high-stakes data protection. This fusion of quantum computing and privacy-preserving techniques not only enhances the confidentiality of sensitive information but also sets a new standard for privacy in the age of data-driven innovation.