International Journal of Advanced Computer Science and Applications
Clinical studies in the past have shown that the pathology of Alzheimer's disease (AD) initiates,... more Clinical studies in the past have shown that the pathology of Alzheimer's disease (AD) initiates, 10 to 15 years before the visible clinical symptoms of cognitive impairment starts to appear in AD diagnosed patients. Therefore, early diagnosis of the AD using potential early stage cerebrospinal fluid (CSF) biomarkers will be valuable in designing a clinical trial and proper care of AD patients. Therefore, the goal of our study was to generate a classification model to predict earlier stages of the AD using specific early-stage CSF biomarkers obtained from a clinical Alzheimer dataset. The dataset was segmented into variable sizes and classification models based on three machine learning (ML) algorithms, such as Sequential Minimal Optimization (SMO), Naïve Bayes (NB), and J48 were generated. The efficacy of the models to accurately predict the cognitive impairment status was evaluated and compared using various model performance parameters available in Weka software tool. The current findings show that J48 based classification model can be effectively employed for classifying cognitive impaired Alzheimer patient from normal healthy individuals with an accuracy of 98.82%, area under curve (AUC) value of 0.992 and sensitivity & specificity of 99.19% and 97.87%, respectively. The sample size (60% training and 40% independent test data) showed significant improvement in T-test with J48 algorithm when compared with other classifiers tested on Alzheimer dataset.
International Journal of Advanced Computer Science and Applications, 2017
In view of the essential role played by dosRS in the survival of Mycobacterium in the infected gr... more In view of the essential role played by dosRS in the survival of Mycobacterium in the infected granuloma cells, dosRS transcriptional regulatory proteins were considered as a validated target for high throughput screening (HTS). However, the cost and time factor involved in screening large compound libraries are an important hurdle in identifying lead compounds. Therefore, the use of computational machine learning techniques to build a predictive model for screening putative drug-like molecule has gained significance. In this regard, a target-based predictive model using machine learning approaches was built to develop fast and efficient virtual screening procedures to screen anti-dosRS molecules. In the present study, we have used various structural and physiochemical attributes of compounds from HTS dataset to train and build a chemoinformatics predictive model based on four state-of-art supervised classifiers (Random forest, SMO, J48, and Naïve Bayes). The trained model was applied to test dataset for validating the robustness, accuracy, and sensitivity of the predictive model in screening active anti-dosRS molecules. The Cost-Sensitive Classifier (CSC) with Random Forest (RF) algorithm based predictive model showed a high sensitivity (100%) and specificity (83.13%) to identify active and inactive molecules, respectively from assay dataset (ID: 1159583). CSC-RF proved to more robust and efficient in classifying active molecule from an imbalanced dataset with highest Balancing Classification Rate (BCR) (91.57%) and maximum Area under the Curve (AUC) value (0.999).
International Journal of Advanced Computer Science and Applications
The PhoP regulon, a two-component regulatory system is a well-studied system of Salmonella enteri... more The PhoP regulon, a two-component regulatory system is a well-studied system of Salmonella enterica serotype typhi and has proved to play a crucial role in the pathophysiology of typhoid as well as the intercellular survival of the bacterium within host macrophages. The absence of PhoP regulon in the human system makes regulatory proteins of PhoP regulon for target specific for future drug discovery program against multi-drug resistant strains of Salmonella enterica serotype typhi. In recent years, high-throughput screening method has proven to be a reliable source of hit finding against various diseases including typhoid. However, the cost and time involved in HTS are of significant concern. Therefore, there is still a need for an expedient method which is also reliable in screening active hits molecules as well as less time consuming and inexpensive. In this regards, the application of machine learning (ML) based chemoinformatics model to perform HTS of druglike hit molecules against MDR strain of Salmonella enterica serotype typhi is the most applicable. In this study, bagging and gradient boosting based ML algorithm was used to build a predictive classification model to perform virtual HTS of active inhibitors of the PhoP regulon of Salmonella enterica serotype typhi. The eXtreme Gradient Boosting (XGBoost) based classification model was comparatively accurate and sensitive in classifying active drug-like inhibitors of PhoP regulon of Salmonella enterica serotype typhi.
International Journal of Advanced Research in Computer Science
Low visibility causes haze in images due to fog or dust particles in the atmosphere. The haze cau... more Low visibility causes haze in images due to fog or dust particles in the atmosphere. The haze causes color distortion and even blurring in the images captured. Machine learning approach has been considered to provide optimized haze removal results to generate higher quality images from where information can be extracted. In this context, machine learning-based random forest regressor algorithm along with postprocessing techniques was proposed as a superior solution for de-hazing images and thereby generating higher quality images in comparison to other direct de-hazing methods.
International Journal of Advanced Research in Computer Science
University examination timetabling problem is a type of scheduling problem. Schedule the course w... more University examination timetabling problem is a type of scheduling problem. Schedule the course with minimum conflict means that none of the students should have more than one exam on the same day. In this regard, we developed an Examination Scheduling System (ESS) using the available resources (Halls, Invigilators, and instructors) with no conflict and thus achieving approval of the system among students and faculties. ESS application was made using ASP.net, C#, crystal report and SQL Server for building the relational database of ESS application.
International Journal of Advanced Computer Science and Applications
Clinical studies in the past have shown that the pathology of Alzheimer's disease (AD) initiates,... more Clinical studies in the past have shown that the pathology of Alzheimer's disease (AD) initiates, 10 to 15 years before the visible clinical symptoms of cognitive impairment starts to appear in AD diagnosed patients. Therefore, early diagnosis of the AD using potential early stage cerebrospinal fluid (CSF) biomarkers will be valuable in designing a clinical trial and proper care of AD patients. Therefore, the goal of our study was to generate a classification model to predict earlier stages of the AD using specific early-stage CSF biomarkers obtained from a clinical Alzheimer dataset. The dataset was segmented into variable sizes and classification models based on three machine learning (ML) algorithms, such as Sequential Minimal Optimization (SMO), Naïve Bayes (NB), and J48 were generated. The efficacy of the models to accurately predict the cognitive impairment status was evaluated and compared using various model performance parameters available in Weka software tool. The current findings show that J48 based classification model can be effectively employed for classifying cognitive impaired Alzheimer patient from normal healthy individuals with an accuracy of 98.82%, area under curve (AUC) value of 0.992 and sensitivity & specificity of 99.19% and 97.87%, respectively. The sample size (60% training and 40% independent test data) showed significant improvement in T-test with J48 algorithm when compared with other classifiers tested on Alzheimer dataset.
International Journal of Advanced Computer Science and Applications, 2017
In view of the essential role played by dosRS in the survival of Mycobacterium in the infected gr... more In view of the essential role played by dosRS in the survival of Mycobacterium in the infected granuloma cells, dosRS transcriptional regulatory proteins were considered as a validated target for high throughput screening (HTS). However, the cost and time factor involved in screening large compound libraries are an important hurdle in identifying lead compounds. Therefore, the use of computational machine learning techniques to build a predictive model for screening putative drug-like molecule has gained significance. In this regard, a target-based predictive model using machine learning approaches was built to develop fast and efficient virtual screening procedures to screen anti-dosRS molecules. In the present study, we have used various structural and physiochemical attributes of compounds from HTS dataset to train and build a chemoinformatics predictive model based on four state-of-art supervised classifiers (Random forest, SMO, J48, and Naïve Bayes). The trained model was applied to test dataset for validating the robustness, accuracy, and sensitivity of the predictive model in screening active anti-dosRS molecules. The Cost-Sensitive Classifier (CSC) with Random Forest (RF) algorithm based predictive model showed a high sensitivity (100%) and specificity (83.13%) to identify active and inactive molecules, respectively from assay dataset (ID: 1159583). CSC-RF proved to more robust and efficient in classifying active molecule from an imbalanced dataset with highest Balancing Classification Rate (BCR) (91.57%) and maximum Area under the Curve (AUC) value (0.999).
International Journal of Advanced Computer Science and Applications
The PhoP regulon, a two-component regulatory system is a well-studied system of Salmonella enteri... more The PhoP regulon, a two-component regulatory system is a well-studied system of Salmonella enterica serotype typhi and has proved to play a crucial role in the pathophysiology of typhoid as well as the intercellular survival of the bacterium within host macrophages. The absence of PhoP regulon in the human system makes regulatory proteins of PhoP regulon for target specific for future drug discovery program against multi-drug resistant strains of Salmonella enterica serotype typhi. In recent years, high-throughput screening method has proven to be a reliable source of hit finding against various diseases including typhoid. However, the cost and time involved in HTS are of significant concern. Therefore, there is still a need for an expedient method which is also reliable in screening active hits molecules as well as less time consuming and inexpensive. In this regards, the application of machine learning (ML) based chemoinformatics model to perform HTS of druglike hit molecules against MDR strain of Salmonella enterica serotype typhi is the most applicable. In this study, bagging and gradient boosting based ML algorithm was used to build a predictive classification model to perform virtual HTS of active inhibitors of the PhoP regulon of Salmonella enterica serotype typhi. The eXtreme Gradient Boosting (XGBoost) based classification model was comparatively accurate and sensitive in classifying active drug-like inhibitors of PhoP regulon of Salmonella enterica serotype typhi.
International Journal of Advanced Research in Computer Science
Low visibility causes haze in images due to fog or dust particles in the atmosphere. The haze cau... more Low visibility causes haze in images due to fog or dust particles in the atmosphere. The haze causes color distortion and even blurring in the images captured. Machine learning approach has been considered to provide optimized haze removal results to generate higher quality images from where information can be extracted. In this context, machine learning-based random forest regressor algorithm along with postprocessing techniques was proposed as a superior solution for de-hazing images and thereby generating higher quality images in comparison to other direct de-hazing methods.
International Journal of Advanced Research in Computer Science
University examination timetabling problem is a type of scheduling problem. Schedule the course w... more University examination timetabling problem is a type of scheduling problem. Schedule the course with minimum conflict means that none of the students should have more than one exam on the same day. In this regard, we developed an Examination Scheduling System (ESS) using the available resources (Halls, Invigilators, and instructors) with no conflict and thus achieving approval of the system among students and faculties. ESS application was made using ASP.net, C#, crystal report and SQL Server for building the relational database of ESS application.
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Papers by TABREJ KHAN