Classification of Functions and Enumeration of Bases of Set Logic under Boolean Compositions. - Alioune Ngom; Corina Reischer; Ivan Stojmenovic (ISMVL, 1995)

Completeness Criteria in Set-Valued Logic Under Compositions with Union and Intersection. - Alioune Ngom; Corina Reischer; Dan A. Simovici; Ivan Stojmenovic (ISMVL, 1997)

Learning with Permutably Homogenous Multiple-Valued Multiple-Threshold Perceptrons. - Alioune Ngom; Corina Reischer; Dan A. Simovici; Ivan Stojmenovic (ISMVL, 1998)

Minimization of Multivalued Multithreshold Perceptrons using Genetic Algorithms. - Alioune Ngom; Ivan Stojmenovic; Zoran Obradovic (ISMVL, 1998)

Learning with Permutably Homogeneous Multiple-Valued Multiple-Threshold Perceptrons. - Alioune Ngom; Corina Reischer; Dan A. Simovici; Ivan Stojmenovic (Neural Process. Lett., 2000)

The Computing Capacity of Three-Input Multiple-Valued One-Threshold Perceptrons. - Alioune Ngom; Ivan Stojmenovic; Ratko Tosic (Neural Process. Lett., 2001)

STRIP - a strip-based neural-network growth algorithm for learning multiple-valued functions. - Alioune Ngom; Ivan Stojmenovic; Veljko Milutinovic (IEEE Trans. Neural Networks, 2001)

On the number of multilinear partitions and the computing capacity of multiple-valued multiple-threshold perceptrons. - Alioune Ngom; Ivan Stojmenovic; Jovisa D. Zunic (IEEE Trans. Neural Networks, 2003)

An Empirical Evaluation of the Classification Error of Two Thresholding Methods for Fisher's Classifier. - Luis Rueda 001; Alioune Ngom (IC-AI, 2004)

Fast Protein Superfamily Classification Using Principal Component Null Space Analysis. - Leon French; Alioune Ngom; Luis Rueda 001 (Canadian AI, 2005)

Genetic Algorithm Based Scheduler for Computational Grids. - Mona Aggarwal; Robert D. Kent; Alioune Ngom (HPCS, 2005)

Parallel evolution strategy for protein threading. - Rafiqul Islam; Alioune Ngom (SCCC, 2005)

A simulated annealing approach to find the optimal parameters for fuzzy clustering microarray data. - Wei Yang; Luis Rueda 001; Alioune Ngom (SCCC, 2005)

A hybrid channel assignment approach using an efficient evolutionary strategy in wireless mobile networks. - Geetali Vidyarthi; Alioune Ngom; Ivan Stojmenovic (IEEE Trans. Veh. Technol., 2005)

Synthesis of Multiple-Valued Circuits by Neural Networks. - Alioune Ngom; Ivan Stojmenovic (Handbook of Bioinspired Algorithms and Applications, 2005)

On the Computing Capacity of Multiple-Valued Multiple-Threshold Perceptrons. - Alioune Ngom; Jovisa D. Zunic; Ivan Stojmenovic (Handbook of Bioinspired Algorithms and Applications, 2005)

Protein Threading using Parallel Evolution Strategy. - Rafiqul Islam; Alioune Ngom (IEEE Congress on Evolutionary Computation, 2006)

Parallel evolution strategy on grids for the protein threading problem. - Alioune Ngom (J. Parallel Distributed Comput., 2006)

Evolutionary Strategy for Learning Multiple-Valued Logic Functions. - Alioune Ngom; Dan A. Simovici; Ivan Stojmenovic (J. Multiple Valued Log. Soft Comput., 2006)

A Model-Based Approach to the Non-Unique Oligonucleotide Probe Selection Problem. - Lili Wang; Alioune Ngom (BIONETICS, 2007)

A Qualitative Hidden Markov Model for Spatio-temporal Reasoning. - Zina M. Ibrahim; Ahmed Y. Tawfik; Alioune Ngom (ECSQARU, 2007)

On Finding the Best Parameters of Fuzzy k-Means for Clustering Microarray Data. - Wei Yang; Luis Rueda 001; Alioune Ngom (J. Multiple Valued Log. Soft Comput., 2007)

Non-unique oligonucleotide microarray probe selection method based on genetic algorithms. - Lili Wang; Alioune Ngom; Robin Gras (IEEE Congress on Evolutionary Computation, 2008)

Evolution strategy with greedy probe selection heuristics for the non-unique oligonucleotide probe selection problem. - Lili Wang; Alioune Ngom; Robin Gras; Luis Rueda 001 (CIBCB, 2008)

Sequential Forward Selection Approach to the Non-unique Oligonucleotide Probe Selection Problem. - Lili Wang; Alioune Ngom; Luis Rueda 001 (PRIB, 2008)

Qualitative Hidden Markov Models for Classifying Gene Expression Data. - Zina M. Ibrahim; Ahmed Y. Tawfik; Alioune Ngom (SGAI Conf., 2008)

Clustering Time-Series Gene Expression Data with Unequal Time Intervals. - Luis Rueda 001; Ataul Bari; Alioune Ngom (Trans. Comp. Sys. Biology, 2008)

An Evolutionary Approach to the Non-unique Oligonucleotide Probe Selection Problem. - Lili Wang; Alioune Ngom; Robin Gras; Luis Rueda 001 (Trans. Comp. Sys. Biology, 2008)

Qualitative Motif Detection in Gene Regulatory Networks. - Zina M. Ibrahim; Ahmed Y. Tawfik; Alioune Ngom (BIBM, 2009)

Biofilm Image Segmentation Using Optimal Multi-level Thresholding. - Darío Rojas; Luis Rueda 001; Alioune Ngom; Homero Urrutia; Gerardo Carcamo (BIBM, 2009)

Surprise-Based Qualitative Probabilistic Networks. - Zina M. Ibrahim; Ahmed Y. Tawfik; Alioune Ngom (ECSQARU, 2009)

A Surprise-based Qualitative Calculus. - Zina M. Ibrahim; Ahmed Y. Tawfik; Alioune Ngom (FLAIRS, 2009)

Bayesian Optimization Algorithm for the Non-unique Oligonucleotide Probe Selection Problem. - Laleh Soltan Ghoraie; Robin Gras; Lili Wang; Alioune Ngom (PRIB, 2009)

Efficient Optimal Multi-level Thresholding for Biofilm Image Segmentation. - Darío Rojas; Luis Rueda 001; Homero Urrutia; Alioune Ngom (PRIB, 2009)

Microarray Time-Series Data Clustering via Multiple Alignment of Gene Expression Profiles. - Numanul Subhani; Alioune Ngom; Luis Rueda 001; Conrad J. Burden (PRIB, 2009)

Alignment-based versus variation-based transformation methods for clustering microarray time-series data. - Yifeng Li 001; Numanul Subhani; Alioune Ngom; Luis Rueda 001 (BCB, 2010)

A dynamic qualitative probabilistic network approach for extracting gene regulatory network motifs. - Zina M. Ibrahim; Alioune Ngom; Ahmed Y. Tawfik (BIBM, 2010)

Non-negative matrix and tensor factorization based classification of clinical microarray gene expression data. - Yifeng Li 001; Alioune Ngom (BIBM, 2010)

Alignment versus variation methods for clustering microarray time-series data. - Numanul Subhani; Yifeng Li 001; Alioune Ngom; Luis Rueda 001 (IEEE Congress on Evolutionary Computation, 2010)

Classification of Clinical Gene-Sample-Time Microarray Expression Data via Tensor Decomposition Methods. - Yifeng Li 001; Alioune Ngom (CIBB, 2010)

Missing value imputation methods for gene-sample-time microarray data analysis. - Yifeng Li 001; Alioune Ngom; Luis Rueda 001 (CIBCB, 2010)

New approaches to clustering microarray time-series data using multiple expression profile alignment. - Numanul Subhani; Luis Rueda 001; Alioune Ngom; Conrad J. Burden (CIBCB, 2010)

A Surprise-Based Qualitative Probability Calculus II. - Zina M. Ibrahim; Ahmed Y. Tawfik; Alioune Ngom (FLAIRS, 2010)

Multiple gene expression profile alignment for microarray time-series data clustering. - Numanul Subhani; Luis Rueda 001; Alioune Ngom; Conrad J. Burden (Bioinform., 2010)

Computational Intelligence in Bioinformatics. - Madhu Chetty; Alioune Ngom; Elena Marchiori (Neurocomputing, 2010)

Optimal decoding and minimal length for the non-unique oligonucleotide probe selection problem. - Laleh Soltan Ghoraie; Robin Gras; Lili Wang; Alioune Ngom (Neurocomputing, 2010)

Optimized Hybrid Resource Allocation in Wireless Cellular Networks with and without Channel Reassignment. - Xin Wu; Arunita Jaekel; Ataul Bari; Alioune Ngom (J. Comput. Networks Commun., 2010)

Selection based heuristics for the non-unique oligonucleotide probe selection problem in microarray design. - Alioune Ngom; Luis Rueda 001; Lili Wang; Robin Gras (Pattern Recognit. Lett., 2010)

A Novel Recursive Feature Subset Selection Algorithm. - Amirali Jafarian; Alioune Ngom; Luis Rueda 001 (BIBE, 2011)

A new gene subset selection approach based on linearly separating gene pairs. - Amirali Jafarian; Alioune Ngom (ICCABS, 2011)

New Gene Subset Selection Approaches Based on Linear Separating Genes and Gene-Pairs. - Amirali Jafarian; Alioune Ngom; Luis Rueda 001 (PRIB, 2011)

Image segmentation of biofilm structures using optimal multi-level thresholding. - Darío Rojas; Luis Rueda 001; Alioune Ngom; Homero Urrutia; Gerardo Carcamo (Int. J. Data Min. Bioinform., 2011)

Using Qualitative Probability in Reverse-Engineering Gene Regulatory Networks. - Zina M. Ibrahim; Alioune Ngom; Ahmed Y. Tawfik (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

Fast sparse representation approaches for the classification of high-dimensional biological data. - Yifeng Li 001; Alioune Ngom (BIBM, 2012)

A new Kernel non-negative matrix factorization and its application in microarray data analysis. - Yifeng Li 001; Alioune Ngom (CIBCB, 2012)

Fast Kernel Sparse Representation Approaches for Classification. - Yifeng Li 001; Alioune Ngom (ICDM, 2012)

Supervised Dictionary Learning via Non-negative Matrix Factorization for Classification. - Yifeng Li 001; Alioune Ngom (ICMLA (1), 2012)

Diagnose the Premalignant Pancreatic Cancer Using High Dimensional Linear Machine. - Yifeng Li 001; Alioune Ngom (PRIB, 2012)

A Framework of Gene Subset Selection Using Multiobjective Evolutionary Algorithm. - Yifeng Li 001; Alioune Ngom; Luis Rueda 001 (PRIB, 2012)

A New Paradigm for Pattern Classification: Nearest Border Techniques. - Yifeng Li 001; B. John Oommen; Alioune Ngom; Luis Rueda 001 (Australasian Conference on Artificial Intelligence, 2013)

Prediction of Biological Protein-protein Interaction Types Using Short-Linear Motifs. - Manish Pandit; Luis Rueda 001; Alioune Ngom (BCB, 2013)

The max-min high-order dynamic Bayesian network learning for identifying gene regulatory networks from time-series microarray data. - Yifeng Li 001; Alioune Ngom (CIBCB, 2013)

FAC-PIN: Fast agglomerative clustering method for functional modules and protein complex identification in PINs. - Mohammad Shamsur Rahman; Alioune Ngom (ICCABS, 2013)

Versatile Sparse Matrix Factorization and Its Applications in High-Dimensional Biological Data Analysis. - Yifeng Li 001; Alioune Ngom (PRIB, 2013)

A Fast Agglomerative Community Detection Method for Protein Complex Discovery in Protein Interaction Networks. - Mohammad Shamsur Rahman; Alioune Ngom (PRIB, 2013)

Identifying Informative Genes for Prediction of Breast Cancer Subtypes. - Iman Rezaeian; Yifeng Li 001; Martin Crozier; Eran Andrechek; Alioune Ngom; Luis Rueda 001; Lisa A. Porter (PRIB, 2013)

Sparse representation approaches for the classification of high-dimensional biological data. - Yifeng Li 001; Alioune Ngom (BMC Syst. Biol., 2013)

Classification approach based on non-negative least squares. - Yifeng Li 001; Alioune Ngom (Neurocomputing, 2013)

The non-negative matrix factorization toolbox for biological data mining. - Yifeng Li 001; Alioune Ngom (Source Code Biol. Medicine, 2013)

Nonnegative Least-Squares Methods for the Classification of High-Dimensional Biological Data. - Yifeng Li 001; Alioune Ngom (IEEE ACM Trans. Comput. Biol. Bioinform., 2013)

A decomposition method for large-scale sparse coding in representation learning. - Yifeng Li 001; Richard J. Caron; Alioune Ngom (IJCNN, 2014)

Versatile sparse matrix factorization: Theory and applications. - Yifeng Li 001; Alioune Ngom (Neurocomputing, 2014)

Pattern recognition in bioinformatics. - Xing-Ming Zhao; Alioune Ngom; Jin-Kao Hao (Neurocomputing, 2014)

Guest Editorial: Pattern Recognition in Bioinformatics. - Elena Marchiori; Alioune Ngom; Raj Acharya (IEEE ACM Trans. Comput. Biol. Bioinform., 2014)

A new compact set of biomarkers for distinguishing among ten breast cancer subtypes. - Forough Firoozbakht; Iman Rezaeian; Alioune Ngom; Luis Rueda 001 (BIBM, 2015)

Data integration in machine learning. - Yifeng Li 001; Alioune Ngom (BIBM, 2015)

A novel approach for finding informative genes in ten subtypes of breast cancer. - Forough Firoozbakht; Iman Rezaeian; Alioune Ngom; Luis Rueda 001; Lisa A. Porter (CIBCB, 2015)

Prediction of high-throughput protein-protein interactions based on protein sequence information. - Yixun Li; Behzad Rezaei; Alioune Ngom; Luis Rueda 001 (CIBCB, 2015)

The relative vertex clustering value - a new criterion for the fast discovery of functional modules in protein interaction networks. - Zina M. Ibrahim; Alioune Ngom (BMC Bioinform., 2015)

Pattern classification using a new border identification paradigm: The nearest border technique. - Yifeng Li 001; B. John Oommen; Alioune Ngom; Luis Rueda 001 (Neurocomputing, 2015)

A new feature selection approach for optimizing prediction models, applied to breast cancer subtype classification. - Huy Quang Pham; Alioune Ngom; Luis Rueda 001 (BIBM, 2016)

PAFS - An efficient method for classifier-specific feature selection. - Huy Quang Pham; Alioune Ngom; Luis Rueda 001 (SSCI, 2016)

Predicting Outcomes of Hormone and Chemotherapy in the Molecular Taxonomy of Breast Cancer International Consortium (METABRIC) Study by Biochemically-inspired Machine Learning. - Iman Rezaeian; Eliseos J. Mucaki; Katherina Baranova; Huy Quang Pham; Dimo Angelov; Alioune Ngom; Luis Rueda 001; Peter K. Rogan (F1000Research, 2016)

The Max-Min High-Order Dynamic Bayesian Network for Learning Gene Regulatory Networks with Time-Delayed Regulations. - Yifeng Li 001; Haifen Chen; Jie Zheng 002; Alioune Ngom (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

Predicting Breast Cancer Outcome under Different Treatments by Feature Selection Approaches. - Huy Quang Pham; Luis Rueda 001; Alioune Ngom (BCB, 2017)

Outlier Genes as Biomarkers of Breast Cancer Survivability in Time-Series Data. - Naveen Mangalakumar; Abed Alkhateeb; Huy Quang Pham; Luis Rueda 001; Alioune Ngom (BCB, 2017)

Machine Learning Model for Identifying Gene Biomarkers for Breast Cancer Treatment Survival. - Ashraf Abou Tabl; Abed Alkhateeb; Waguih H. ElMaraghy; Alioune Ngom (BCB, 2017)

Prediction of Calmodulin-Binding Proteins Using Short-Linear Motifs. - Yixun Li; Mina Maleki; Nicholas J. Carruthers; Luis Rueda 001; Paul M. Stemmer; Alioune Ngom (IWBBIO (2), 2017)

An Integrative Approach for Identifying Network Biomarkers of Breast Cancer Subtypes Using Genomic, Interactomic, and Transcriptomic Data. - Forough Firoozbakht; Iman Rezaeian; Michele D'agnillo; Lisa A. Porter; Luis Rueda 001; Alioune Ngom (J. Comput. Biol., 2017)

Drug target interaction predictions using PU- Leaming under different experimental setting for four formulations namely known drug target pair prediction, drug prediction, target prediction and unknown drug target pair prediction. - Hetal Rahul Rajpura; Alioune Ngom (CIBCB, 2018)

Identifying suutype specific network-Uiomarkers of breast cancer survivauility. - Sheikh Jubair; Luis Rueda 001; Alioune Ngom (IJCNN, 2018)

Identification of the Treatment Survivability Gene Biomarkers of Breast Cancer Patients via a Tree-Based Approach. - Ashraf Abou Tabl; Abedalrhman Alkhateeb; Luis Rueda 001; Waguih H. ElMaraghy; Alioune Ngom (IWBBIO (1), 2018)

A review on machine learning principles for multi-view biological data integration. - Yifeng Li 001; Fang-Xiang Wu; Alioune Ngom (Briefings Bioinform., 2018)

The predictive performance of short-linear motif features in the prediction of calmodulin-binding proteins. - Yixun Li; Mina Maleki; Nicholas J. Carruthers; Paul M. Stemmer; Alioune Ngom; Luis Rueda 001 (BMC Bioinform., 2018)

A Network-based Machine Learning Approach for Identifying Biomarkers of Breast Cancer Survivability. - Huy Quang Pham; Jurko Guba; Mousa Gawanmeh; Lisa A. Porter; Alioune Ngom (BCB, 2019)

A Data Integration Approach for Detecting Biomarkers of Breast Cancer Survivability. - Huy Quang Pham; Luis Rueda 001; Alioune Ngom (IWBBIO, 2020)

Cancer Detection Based on Image Classification by Using Convolution Neural Network. - Mohammad Anas Shah; Abdala Nour; Alioune Ngom; Luis Rueda 001 (IWBBIO, 2020)

Blood Cell Types Classification Using CNN. - Ishpreet Singh; Narinder Pal Singh; Harnoor Singh; Saharsh Bawankar; Alioune Ngom (IWBBIO, 2020)

A novel approach to identify subtype-specific network biomarkers of breast cancer survivability. - Sheikh Jubair; Abedalrhman Alkhateeb; Ashraf Abou Tabl; Luis Rueda 001; Alioune Ngom (Netw. Model. Anal. Health Informatics Bioinform., 2020)

DeePSLiM: A Deep Learning Approach to Identify Predictive Short-linear Motifs for Protein Sequence Classification. - Alexandru Filip; Seyedeh Shaghayegh Sadeghi; Alioune Ngom; Luis Rueda 001 (CIBCB, 2022)

DDIPred: Graph Convolutional Network-Based Drug-drug Interactions Prediction Using Drug Chemical Structure Embedding. - Seyedeh Shaghayegh Sadeghi; Alioune Ngom (CIBCB, 2022)

A network-based drug repurposing method via non-negative matrix factorization. - Seyedeh Shaghayegh Sadeghi; Jianguo Lu; Alioune Ngom (Bioinform., 2022)

Computationally repurposing drugs for breast cancer subtypes using a network-based approach. - Forough Firoozbakht; Iman Rezaeian; Luis Rueda 001; Alioune Ngom (BMC Bioinform., 2022)

A Comprehensive Study of Vision Transformers in Image Classification Tasks. - Mahmoud Khalil; Ahmad Khalil 004; Alioune Ngom (CoRR, 2023)

Comparative Analysis of LLaMA and ChatGPT Embeddings for Molecule Embedding. - Seyedeh Shaghayegh Sadeghi; Alan Bui; Ali Forooghi; Jianguo Lu; Alioune Ngom (CoRR, 2024)

Can large language models understand molecules? - Seyedeh Shaghayegh Sadeghi; Alan Bui; Ali Forooghi; Jianguo Lu; Alioune Ngom (BMC Bioinform., 2024)

ResNetVLLM-2: Addressing ResNetVLLM's Multi-Modal Hallucinations. - Ahmad Khalil 004; Mahmoud Khalil; Alioune Ngom (CoRR, 2025)

ResNetVLLM - Multi-modal Vision LLM for the Video Understanding Task. - Ahmad Khalil 004; Mahmoud Khalil; Alioune Ngom (CoRR, 2025)