01794nas a2200229 4500008004100000022001400041245007000055210006900125260011100194300001200305490000700317520093200324653001901256653001801275653002101293653005601314653001501370100002601385700002601411700002601437856010101463 2009 eng d a1386-207300aReview on lazy learning regressors and their applications in QSAR0 aReview on lazy learning regressors and their applications in QSA aEXECUTIVE STE Y26, PO BOX 7917, SAIF ZONE, 1200 BR SHARJAH, U ARAB EMIRATESbBENTHAM SCIENCE PUBL LTDcMAY a440-4500 v123 a

Building accurate quantitative structure-activity relationships (QSAR) is important in drug design, environmental modeling, toxicology, and chemical property prediction. QSAR methods can be utilized to solve mainly two types of problems viz., pattern recognition, (or classification) where output is discrete (i.e. class information), e. g., active or non-active molecule, binding or non-binding molecule etc., and function approximation, (i.e. regression) where the output is continuous (e.g., actual activity prediction). The present review deals with the second type of problem (regression) with specific attention to one of the most effective machine learning procedures, viz. lazy learning. The methodologies of the algorithm along with the relevant technical information are discussed in detail. We also present three real life case studies to briefly outline the typical characteristics of the modeling formalism.

10aclassification10alazy learning10amachine learning10aQuantitative structure activity relationship (QSAR)10aregression1 aKulkarni, Abhijit, J.1 aJayaraman, Valadi, K.1 aKulkarni, Bhaskar, D. uhttps://library.ncl.res.in/content/review-lazy-learning-regressors-and-their-applications-qsar-002881nas a2200325 4500008004100000022001400041245011500055210006900170260011100239300001200350490000700362520173200369653001702101653001902118653001902137653002002156653003402176653001602210653001502226653002102241653001802262653001602280100001502296700001802311700001502329700002302344700003302367700002602400856012902426 2015 eng d a1386-207300aStudy of applications of machine learning based classification methods for virtual screening of lead molecules0 aStudy of applications of machine learning based classification m aEXECUTIVE STE Y-2, PO BOX 7917, SAIF ZONE, 1200 BR SHARJAH, U ARAB EMIRATESbBENTHAM SCIENCE PUBL LTDcAUG a658-6720 v183 a

The ligand-based virtual screening of combinatorial libraries employs a number of statistical modeling and machine learning methods. A comprehensive analysis of the application of these methods for the diversity oriented virtual screening of biological targets/drug classes is presented here. A number of classification models have been built using three types of inputs namely structure based descriptors, molecular fingerprints and therapeutic category for performing virtual screening. The activity and affinity descriptors of a set of inhibitors of four target classes DHFR, COX, LOX and NMDA have been utilized to train a total of six classifiers viz. Artificial Neural Network (ANN), k nearest neighbor (k-NN), Support Vector Machine (SVM), Naive Bayes (NB), Decision Tree - (DT) and Random Forest - (RF). Among these classifiers, the ANN was found as the best classifier with an AUC of 0.9 irrespective of the target. New molecular fingerprints based on pharmacophore, toxicophore and chemophore (PTC), were used to build the ANN models for each dataset. A good accuracy of 87.27% was obtained using 296 chemophoric binary fingerprints for the COX-LOX inhibitors compared to pharmacophoric (67.82 %) and toxicophoric (70.64 %). The methodology was validated on the classical Ames mutagenecity dataset of 4337 molecules. To evaluate it further, selectivity and promiscuity of molecules from five drug classes viz. anti-anginal, anti-convulsant, anti-depressant, anti-arrhythmic and anti-diabetic were studied. The TPC fingerprints computed for each category were able to capture the drug-class specific features using the k-NN classifier. These models can be useful for selecting optimal molecules for drug design.

10aAnti-anginal10aanti-arrythmic10aanti-bacterial10aanti-convulsant10aanti-depressant anti-diabetic10abinary QSAR10achemophore10amachine learning10apharmacophore10atoxicophore1 aVyas, Renu1 aBapat, Sanket1 aJain, Esha1 aTambe, Sanjeev, S.1 aKarthikeyan, Muthukumarasamy1 aKulkarni, Bhaskar, D. uhttps://library.ncl.res.in/content/study-applications-machine-learning-based-classification-methods-virtual-screening-lead-002246nas a2200289 4500008004100000022001400041245013800055210006900193260000800262300001000270490000700280520126700287653001901554653001101573653001201584653002401596653002101620653003301641653002401674100001501698700001801713700001601731700003301747700002301780700002601803856012701829 2018 eng d a1545-596300aApplication of genetic programming (GP) formalism for building disease predictive models from protein-protein interactions (PPI) data0 aApplication of genetic programming GP formalism for building dis cFEB a27-370 v153 a

Protein-protein interactions (PPIs) play a vital role in the biological processes involved in the cell functions and disease pathways. The experimental methods known to predict PPIs require tremendous efforts and the results are often hindered by the presence of a large number of false positives. Herein, we demonstrate the use of a new Genetic Programming (GP) based Symbolic Regression (SR) approach for predicting PPIs related to a disease. In this case study, a dataset consisting of 135 PPI complexes related to cancer was used to construct a generic PPI predicting model with good PPI prediction accuracy and generalization ability. A high correlation coefficient (CC) magnitude of 0.893, and low root mean square error (RMSE), and mean absolute percentage error (MAPE) values of 478.221 and 0.239, respectively, were achieved for both the training and test set outputs. To validate the discriminatory nature of the model, it was applied on a dataset of diabetes complexes where it yielded significantly low CC values. Thus, the GP model developed here serves a dual purpose: (a) a predictor of the binding energy of cancer related PPI complexes, and (b) a classifier for discriminating PPI complexes related to cancer from those of other diseases.

10aBinding energy10acancer10aDisease10agenetic programming10amachine learning10aprotein-protein interactions10asymbolic regression1 aVyas, Renu1 aBapat, Sanket1 aGoel, Purva1 aKarthikeyan, Muthukumarasamy1 aTambe, Sanjeev, S.1 aKulkarni, Bhaskar, D. uhttps://library.ncl.res.in/content/application-genetic-programming-gp-formalism-building-disease-predictive-models-protein