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Biology subjects

SHARMA, S.

Publications and source records attributed to SHARMA, S..

3 recordsLinked to original sources

Explainable AI Based Coronary Heart Disease Prediction: Enhancing Model Transparency in Clinical Decision Making

Introduction: Coronary heart disease (CHD) is still a major cause of death globally, and hence early detection and risk stratification are necessary to avoid major cardiovascular events. The present study uses clinical and demographic characteristics to compare the predictive accuracy of eight machine learning models for CHD diagnosis. It also investigates the contribution and direction of influence of the most important features in the models to improve interpretability. MethodsWe contrasted the predictive accuracy of eight different machine learning models for CHD classification. The work identifies the most important features from the top-performing models and applies SHapley Additive exPlanations (SHAP) and Local Interpretable Model-Agnostic Explanations (LIME) to gain insight into how every feature affects the models prediction. These interpretive methods assist in displaying the direction and amount of feature contributions to allow transparency in AI-based CHD risk prediction. ResultsXGboost and Random Forest achieved the highest testing accuracies 0.839 and 0.805, with training accuracies of 0.901 and 0.957 respectively showing ideal model of XGboost and significant overfitting for random forest model. ECG-associated features, such as resting ECG and old peak (ST depression through workout), also place favorably, supporting the significance of cardiac electrical activity in diagnosis. ST slope has the highest impact, followed by Chest pain type and old peak, which increase the likelihood of heart disease with their high values contributing positively to the prediction. Resting bps, sex, and fasting blood sugar have lower impacts on the models predictions. ConclusionsIn conclusion, machine learning models, particularly XGboost and random forest, show substantial predictive accuracy for coronary heart disease, with testing AUROCs of 0.885. Feature importance, SHAP and LIME analysis highlight the critical role of ECG-derived metrics like ST slope, chest pain type, and resting ecp while traditional risk factors such as cholesterol, resting bps, and fasting blood sugar have less influence.

bioengineering↗

Cyclic constrained immunoreactive peptides from crucial P. falciparum proteins: potential implications in malaria diagnostics

Malaria is still a global challenge with significant morbidity and mortality, especially in the African, South-East Asian and Latin American region. Malaria diagnosis is a crucial pillar in the control and elimination efforts, often accomplished by administration of mass-scale Rapid diagnostic tests (RDTs). The inherent limitations of RDTs-failure of detection in low transmission settings, and deletion of one of the target proteins-Histidine rich protein (HRP) are evident from multiple reports; thus necessitating the need to explore novel diagnostic tools/targets. The present study used peptide microarray to screen potential epitopes from 13 antigenic proteins (CSP, EXP1, LSA1, TRAP, AARP, AMA1, GLURP, MSP1, MSP2, MSP3, MSP4, P48/45, HAP2) of P. falciparum. Three cyclic constrained immunoreactive peptides-C6 (EXP1), A8 (MSP2), B7 (GLURP) were identified from 5,458 cyclic constrained peptides (in duplicate) against P. falciparum infected sera. Peptides (C6, A8, B7-cyclic constrained) and (G11, DSQ, NQN-corresponding linear peptides) were fairly immunoreactive towards P. falciparum-infected sera in dot-blot assay. Using indirect ELISA, cyclic constrained peptides (C6 & B7) were found to be specific to P. falciparum infected sera and further, observed to be significantly reactive towards antibodies from field-collected P. falciparum infected sera. Notably, the structural location of the epitopes defines the reactivity, observed by the preferential recognition of cyclic constrained peptides vs linear peptides and corroborated by the homology modeling analysis of selected proteins. In conclusion, the study identified three cyclic constrained immunoreactive peptides (C6, B7 & A8) from P. falciparum secretory/surface proteins and two of them (C6 & B7) were validated for their diagnostic potential with field-collected P. falciparum infected sera samples.

biochemistry↗

Proteomic profiling of peripheral blood mononuclear cells isolated from patients with tuberculosis and diabetes copathogenesis -A pilot study

BackgroundDiabetes is an important risk factor for developing tuberculosis. This association leads to exacerbation of tuberculosis symptoms and delayed treatment of both the diseases. Molecular mechanism and biomarkers/drug targets related to copathogenesis of tuberculosis and diabetes, however, still remains to be poorly understood. In this study, proteomics based 2D-MALDI/MS approach was employed to identify host signature proteins which are altered during copathogenesis of tuberculosis and diabetes. MethodsComparative proteome of human peripheral blood mononuclear cells (PBMCs) from healthy controls, tuberculosis and diabetes patients in comparison to comorbid diabetes and tuberculosis patients was analyzed. Gel based proteomics approach followed by in gel trypsin digestion and peptide identification by mass spectrometry was used for signature protein identification. ResultsTotal of 18 protein spots with differential expression in TBDM patients in comparison to other groups were identified. These include Vimentin, tubulin beta chain protein, superoxide dismutase, Actin related protein 2/3 complex subunit 2, PDZ LIM domain protein, Rho-GDP dissociation inhibitor, Ras related protein Rab, dCTPpyrophosphatase 1, Transcription initiation factor TFIID subunit 12, coffilin 1, three isoforms of Peptidylprolylcis-trans isomerase A, three isoforms of Protein S100A9, Protein S100A8 and SH3 domain containing protein. These proteins belonged to four functional categories i.e. structural, cell cycle/growth regulation, signaling and intermediary metabolism. ConclusionProteins identified to be differentially expressed in TBDM patient can act as potent biomarkers and as predictors for copathogenesis of tuberculosis and diabetes.

molecular biology↗