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Qayyum, A.

Publications and source records attributed to Qayyum, A..

3 recordsLinked to original sources

A Cohort-Based Global Sensitivity Benchmark of MRI-Derived Whole-Heart Electromechanical Models in Healthy Hearts

Patient-specific four-chamber electromechanical models provide a physics-constrained framework for investigating whole-heart cardiac physiology and disease mechanisms. Identifying which model parameters impact whole-heart function is important for understanding cellular-, tissue-, and organ-scale determinants of cardiac performance and for calibrating patient-specific models. However, previous global sensitivity analyses of cardiac electromechanical models have typically been performed on a single heart, and systematic evaluation of how parameter influence compares across anatomically different subjects remains limited. We created four-chamber electromechanical models using cardiac MRI from five healthy subjects (n = 5). The models simulated atrial and ventricular cellular electrophysiology, calcium dynamics, and active contraction, with heterogeneous fibre orientation, transversely isotropic tissue mechanics, pericardial constraint, and a closed-loop cardiovascular system providing physiological boundary conditions. In total, 46 parameters described the integrated model. Using Gaussian process emulators, we performed multi-scale global sensitivity analysis to evaluate the relative contribution of model parameters to left and right atrial and ventricular function. Across all anatomies, the most influential parameters were systemic and pulmonary resistances, ventricular end-diastolic pressures, and the venous reference pressure, highlighting the dominant role of haemodynamic loading conditions in governing pressure- and volume-based outputs. A chamber-level analysis of atrioventricular coupling revealed a phase-dependent pattern. Atrial pressures were predominantly governed by global haemodynamic parameters (> 90% of total sensitivity), atrial filling volumes showed substantial ventricular influence ({approx}40-55% across anatomies), and atrial end-systolic volumes were primarily determined by intrinsic atrial parameters ({approx}60-65%). These patterns were consistent across subjects despite differences in anatomy. We show that, in healthy male subjects, inter-individual anatomical variation does not substantially change the ranking of dominant parameters. This work provides a repeatable modelling and sensitivity analysis framework and establishes a benchmark reference for whole-heart electromechanical modelling in healthy hearts. Author summaryComputational models of the heart can simulate cardiac physiology in unprecedented detail, but these models contain many parameters whose influence on predicted function is not fully understood. We built patient-specific four-chamber heart models from MRI scans of five healthy subjects and used statistical methods to systematically test how 46 model parameters affect simulated cardiac performance. Across all five subjects, we found that the haemodynamic loading parameters, including systemic and pulmonary vascular resistance, ventricular filling pressures, and the venous reference pressure, consistently had the greatest influence on the model outputs, regardless of differences in individual heart anatomy. This finding suggests that in healthy resting conditions, the boundary conditions of the cardiovascular system, rather than individual differences in heart geometry or electrical properties, are the primary drivers of whole-heart function. We also found a structured coupling pattern between the upper and lower heart chambers, where global haemodynamic parameters dominate atrial pressure regulation, ventricular mechanics shape atrial filling, and intrinsic atrial properties control atrial emptying. This work provides a benchmark dataset of five anatomically detailed heart models and a sensitivity analysis framework to guide calibration of future cardiac digital twin models.

systems biology↗

Advancing GABA-edited MRS Research through a Reconstruction Challenge

PurposeTo create a benchmark for the comparison of machine learning-based Gamma-Aminobutyric Acid (GABA)-edited Magnetic Resonance Spectroscopy (MRS) reconstruction models using one quarter of the transients typically acquired during a complete scan. MethodsThe Edited-MRS reconstruction challenge had three tracks with the purpose of evaluating machine learning models trained to reconstruct simulated (Track 1), homogeneous in vivo (Track 2), and heterogeneous in vivo (Track 3) GABA-edited MRS data. Four quantitative metrics were used to evaluate the results: mean squared error (MSE), signal-to-noise ratio (SNR), linewidth, and a shape score metric that we proposed. Challenge participants were given three months to create, train and submit their models. Challenge organizers provided open access to a baseline U-NET model for initial comparison, as well as simulated data, in vivo data, and tutorials and guides for adding synthetic noise to the simulations. ResultsThe most successful approach for Track 1 simulated data was a covariance matrix convolutional neural network model, while for Track 2 and Track 3 in vivo data, a vision transformer model operating on a spectrogram representation of the data achieved the most success. Deep learning (DL) based reconstructions with reduced transients achieved equivalent or better SNR, linewidth and fit error as conventional reconstructions with the full amount of transients. However, some DL models also showed the ability to optimize the linewidth and SNR values without actually improving overall spectral quality, pointing to the need for more robust metrics. ConclusionThe edited-MRS reconstruction challenge showed that the top performing DL based edited-MRS reconstruction pipelines can obtain with a reduced number of transients equivalent metrics to conventional reconstruction pipelines using the full amount of transients. The proposed metric shape score was positively correlated with challenge track outcome indicating that it is well-suited to evaluate spectral quality.

bioengineering↗

In Silico Analysis of Drug Off-Target Effects on Diverse Isoforms of Cervical Cancer for Enhanced Therapeutic Strategies

Cervical cancer is a severe medical issue as 500,000 new cases of cervical cancer are identified in the world every year. The selection and analysis of the suitable gene target are the most crucial in the early phases of drug design. The emphasis at one protein while ignoring its several isoforms or splice variations may have unexpected therapeutic or harmful side effects. In this work, we provide a computational analysis of interactions between cervical cancer drugs and their targets that are influenced by alternative splicing. By using open-accessible databases, we targeted 45 FDA-approved cervical cancer drugs targeting various genes having more than two distinct protein-coding isoforms. Binding pocket interactions revealed that many drugs do not have possible targets at the isoform level. In terms of size, shape, electrostatic characteristics, and structural analysis have shown that various isoforms of the same gene with distinct ligand-binding pocket configurations. Our results emphasized the risks of ignoring possibly significant interactions at the isoform level by concentrating just on the canonical isoform and promoting consideration of the impacts of cervical cancer drugs on- and off-target at the isoform level to further research.

bioinformatics↗