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Ibrahim Mohammed

Publications and source records attributed to Ibrahim Mohammed.

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An exploration into how susceptibility distribution misspecifications impact epidemic forecasting

Heterogeneous susceptibility models for epidemic dynamics preferentially assume that individual susceptibility follows a gamma distribution, which permits analytical reduction to a low-dimensional system. However, the true empirical distributional form in any given population is unknown. Here we investigate the consequences of misspecifying the susceptibility distribution by comparing gamma and lognormal specifications in a Susceptible-Exposed-Infectious-Removed (SEIR) framework. When both distributions are matched on mean and coefficient of variation ($\nu$), we find that their epidemic trajectories diverge once heterogeneity is moderate or high ($\nu \gtrsim 1$), with the lognormal producing a later, larger peak and a greater final size. We then assess the impact of distributional misspecification on statistical inference. Using synthetic datasets, we fit correctly specified and misspecified models by maximum likelihood. In a default scenario, where inference is based on simulated data for a single epidemic, both models can reproduce the data by compensating through correlated shifts in heterogeneity and intervention parameters. When inference is based on two simulated epidemics, however, this compensation may be reduced by known constraints of how parameters are related across epidemics. In these cases, the correctly specified model recovers all parameters accurately, while the misspecified model tends to give biased estimates. These inference biases propagate into forecasts, but predictions remain relatively accurate when compared to homogeneous models which more than double peak incidences in scenarios where $\nu \approx 1$, for instance. We conclude that deviations resulting from the susceptibility distribution misspecifications assessed here are minor and encourage the adoption of heterogeneous models in future epidemic forecasting.

stat.AP

On the simultaneous inference of susceptibility distributions and intervention effects from epidemic curves

Susceptible-Exposed-Infectious-Recovered (SEIR) models with inter-individual variation in susceptibility or exposure to infection were proposed early in the COVID-19 pandemic as a potential element of the mathematical/statistical toolset available to policy development. In comparison with other models employed at the time, those designed to fully estimate the effects of such variation tended to predict small epidemic waves and hence require less containment to achieve the same outcomes. However, these models never made it to mainstream COVID-19 policy making due to lack of prior validation of their inference capabilities. Here we report the results of the first systematic investigation of this matter. We simulate datasets using the model with strategically chosen parameter values, and then conduct maximum likelihood estimation to assess how well we can retrieve the assumed parameter values. We identify some identifiability issues which can be overcome by creatively fitting multiple epidemics with shared parameters.

stat.AP

Multi-modal Medical Image Fusion For Non-Small Cell Lung Cancer Classification

The early detection and nuanced subtype classification of non-small cell lung cancer (NSCLC), a predominant cause of cancer mortality worldwide, is a critical and complex issue. In this paper, we introduce an innovative integration of multi-modal data, synthesizing fused medical imaging (CT and PET scans) with clinical health records and genomic data. This unique fusion methodology leverages advanced machine learning models, notably MedClip and BEiT, for sophisticated image feature extraction, setting a new standard in computational oncology. Our research surpasses existing approaches, as evidenced by a substantial enhancement in NSCLC detection and classification precision. The results showcase notable improvements across key performance metrics, including accuracy, precision, recall, and F1-score. Specifically, our leading multi-modal classifier model records an impressive accuracy of 94.04%. We believe that our approach has the potential to transform NSCLC diagnostics, facilitating earlier detection and more effective treatment planning and, ultimately, leading to superior patient outcomes in lung cancer care.

eess.IV

Virtual screening of Microalgal compounds as potential inhibitors of Type 2 Human Transmembrane serine protease (TMPRSS2)

More than 198 million cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been reported that result in no fewer than 4.2 million deaths globally. The rapid spread of the disease coupled with the lack of specific registered drugs for its treatment pose a great challenge that necessitate the development of therapeutic agents from a variety of sources. In this study, we employed an in-silico method to screen natural compounds with a view to identify inhibitors of the human transmembrane protease serine type 2 (TMPRSS2). The activity of this enzyme is essential for viral access into the host cells via angiotensin-converting enzyme 2 (ACE-2). Inhibiting the activity of this enzyme is therefore highly crucial for preventing viral fusion with ACE-2 thus shielding SARS-CoV-2 infectivity. 3D model of TMPRSS2 was constructed using I-TASSER, refined by GalaxyRefine, validated by Ramachandran plot server and overall model quality was checked by ProSA. 95 natural compounds from microalgae were virtually screened against the modeled protein that led to the identification 17 best leads capable of binding to TMPRSS2 with a good binding score comparable, greater or a bit lower than that of the standard inhibitor (camostat). Physicochemical properties, ADME (absorption, distribution, metabolism, excretion) and toxicity analysis revealed top 4 compounds including the reference drug with good pharmacokinetic and pharmacodynamic profiles. These compounds bind to the same pocket of the protein with a binding energy of -7.8 kcal/mol, -7.6 kcal/mol, -7.4 kcal/mol and -7.4 kcal/mol each for camostat, apigenin, catechin and epicatechin respectively. This study shed light on the potential of microalgal compounds against SARS-CoV-2. In vivo and invitro studies are required to developed SARS-CoV-2 drugs based on the structures of the compounds identified in this study.

q-bio.BM