A robust tool for microRNA target prediction with systematic identification of negative examples
Sanghamitra Bandyopadhyay and Ramkrishna Mitra,"Targetminer:MicroRNA Target Prediction with Systematic Identification Of Tissue Specific Negative Examples", Bioinformatics, Vol. 25, no. 20, pp. 2625 - 2631, 2009.
An enhancement of TargetMiner with multiobjective feature selection and ranking of the predicted mRNA targets of a given microRNA
Ramkrishna Mitra and Sanghamitra Bandyopadhyay,"MultiMiTar: A Novel Multi Objective Optimization based miRNA-Target Prediction Method", PLoS ONE 6(9): e24583. doi:10.1371/journal.pone.0024583.
A Database of Validated Transcription Start Sites of Human MicroRNAs
M. Bhattacharyya, M. Das and S. Bandyopadhyay, miRT: A Database of Validated Transcription Start Sites of Human MicroRNAs, Genomics, Proteomics & Bioinformatics, Special Issue on "microRNAs'', 10(5), 2012.
MBSTAR: multiple instance learning for predicting specific functional binding sites in microRNA targets
S. Bandyopadhyay, D. Ghosh, R. Mitra and Z. Zhao, "MBSTAR: multiple instance learning for predicting specific functional binding sites in microRNA targets", Sci. Rep. 5, 8004; doi:10.1038/srep08004 (2014).
An Algorithm for Many-Objective Optimization with Reduced Objective Computations: A Study in Differential Evolution
Bandyopadhyay, S. & Mukherjee, A. An Algorithm for Many-Objective Optimization with Reduced Objective Computations: A Study in Differential Evolution. IEEE Transactions on Evolutionary Computation (2014).
Keywords : DE, Differential Evolution, Multiobjective optimization, objective reduction, correlation based objective reduction, many objective optimization, reduced objective computation
multiobjective clustering with support vector machine
Maulik U, Mukhopadhyay A, Bandyopadhyay S (2009.).Combining Pareto-Optimal Clusters using Supervised Learning for Identifying Co-expressed Genes. BMC Bioinformatics, Vol.10, No. 27.
Keywords : multiobjective optimization, fuzzy cluster validity, Pareto-optimal solution, svm, mocsvm
GAPS: A clustering method using a new point symmetry-based distance measure Technique
S. Bandyopadhyay and S. Saha, ``GAPS: A clustering method using a new point symmetry-based distance measure Technique", Pattern Recognition, vol. 40, no. 12, pp. 3430-3451, 2007.
Keywords : Unsupervised classification; Genetic algorithm; Symmetry; Point symmetry-based distance; Kd-tree
VGAPS- Variable string length genetic clustering technique with point symmetry based distance
S. Bandyopadhyay and S. Saha, ``A Point Symmetry Based Clustering Technique for Automatic Evolution of Clusters'', IEEE Transactions on Knowledge and Data Engineering, vol 20, no. 11, pp. 1441-1457, 2008.
Keywords : Unsupervised classification, cluster validity index, symmetry, point symmetry based distance, Kd tree, Genetic Algorithms, Real encoding
FOCS: Fast Overlapped Community Search.
Sanghamitra Bandyopadhyay, Garisha Chowdhary, and Debarka Sengupta. "FOCS: Fast Overlapped Community Search." Knowledge and Data Engineering, IEEE Transactions on 27.11 (2015): 2974-2985.
Keywords : Overlapping community search, social network, local heuristic, complex network
A Scoring Scheme for Online Feature Selection: Simulating Model Performance Without Retraining
Sengupta, Debarka, Sanghamitra Bandyopadhyay, and Debajyoti Sinha. "A Scoring Scheme for Online Feature Selection: Simulating Model Performance Without Retraining." Neural Networks and Learning, IEEE Transactions on (2016).
Keywords :Entropy, feature selection, model, online feature selection (OFS), principal component analysis (PCA), training