Mandeep Kaur Saggi

Mandeep Kaur Saggi, Amandeep Singh Bhatia, Humaira Gowher et al.

Quantum machine learning offers a promising new paradigm for computational biology by leveraging quantum mechanical principles to enhance cancer classification, biomarker discovery, and bioinformatics diagnostics. In this study, we apply QML to identify subtype specific biomarkers for lung adenocarcinoma (LUAD) and lung squamous cell carcinoma (LUSC), the two predominant forms of non-small cell lung cancer. Our methodology involves a two-phase process: in Phase 1, differential expression analysis and methylation analysis between tumor and normal samples allows us to identify LUAD-specific and LUSC-specific genes, revealing potential prognostic biomarkers for cancer subtypes. Phase 2 focuses on developing a quantum classifier capable of distinguishing between LUAD and LUSC tumors, as well as between tumor and normal samples. This classifier not only enhances diagnostic precision but also demonstrates the quantum advantage in processing large-scale multiomic datasets. Our results consistently demonstrated that Sample3, representing the combined gene set, achieved the highest overall predictive performance in all metrics. These results demonstrate that QML provides an effective and scalable approach for biomarker discovery and subtype specific cancer classification. GO enrichment analysis highlighted the significant involvement of genes in synaptic signaling, ion channel regulation, and neuronal development. In the quantum phase, KEGG analysis further identified enrichment in cancer-associated pathways, including neurotrophin, MAPK, Ras, and PI3KAkt signaling, with key genes such as NGFR, NTRK2, and NTF3 suggesting a central role in neurotrophinmediated oncogenic processes. Our findings highlight the growing potential of quantum computing to advance precision oncology and next-generation biomedical analytics.

Murat Isik, Mandeep Kaur Saggi, Humaira Gowher et al.

Accurately predicting enzyme functionality remains one of the major challenges in computational biology, particularly for enzymes with limited structural annotations or sequence homology. We present a novel multimodal Quantum Machine Learning (QML) framework that enhances Enzyme Commission (EC) classification by integrating four complementary biochemical modalities: protein sequence embeddings, quantum-derived electronic descriptors, molecular graph structures, and 2D molecular image representations. Quantum Vision Transformer (QVT) backbone equipped with modality-specific encoders and a unified cross-attention fusion module. By integrating graph features and spatial patterns, our method captures key stereoelectronic interactions behind enzyme function. Experimental results demonstrate that our multimodal QVT model achieves a top-1 accuracy of 85.1%, outperforming sequence-only baselines by a substantial margin and achieving better performance results compared to other QML models.

Amandeep Singh Bhatia, Mandeep Kaur Saggi, Shenggen Zheng et al.

Motivated by particle swarm optimization (PSO) and quantum computing theory, we have presented a quantum variant of PSO (QPSO) mutated with Cauchy operator and natural selection mechanism (QPSO-CD) from evolutionary computations. The performance of proposed hybrid quantum-behaved particle swarm optimization with Cauchy distribution (QPSO-CD) is investigated and compared with its counterparts based on a set of benchmark problems. Moreover, QPSO-CD is employed in well-studied constrained engineering problems to investigate its applicability. Further, the correctness and time complexity of QPSO-CD are analysed and compared with the classical PSO. It has been proven that QPSO-CD handles such real-life problems efficiently and can attain superior solutions in most of the problems. The experimental results showed that QPSO associated with Cauchy distribution and natural selection strategy outperforms other variants in the context of stability and convergence.

Amandeep Singh Bhatia, Mandeep Kaur Saggi, Ajay Kumar et al.

In recent years, interest in expressing the success of neural networks to the quantum computing has increased significantly. Tensor network theory has become increasingly popular and widely used to simulate strongly entangled correlated systems. Matrix product state (MPS) is the well-designed class of tensor network states, which plays an important role in processing of quantum information. In this paper, we have shown that matrix product state as one-dimensional array of tensors can be used to classify classical and quantum data. We have performed binary classification of classical machine learning dataset Iris encoded in a quantum state. Further, we have investigated the performance by considering different parameters on the ibmqx4 quantum computer and proved that MPS circuits can be used to attain better accuracy. Further, the learning ability of MPS quantum classifier is tested to classify evapotranspiration ($ET_{o}$) for Patiala meteorological station located in Northern Punjab (India), using three years of historical dataset (Agri). Furthermore, we have used different performance metrics of classification to measure its capability. Finally, the results are plotted and degree of correspondence among values of each sample is shown.