Document classification on neural networks using only positive examples. - Larry M. Manevitz; Malik Yousef (SIGIR, 2000)

One-Class SVMs for Document Classification. - Larry M. Manevitz; Malik Yousef (J. Mach. Learn. Res., 2001)

A web navigation system based on a neural network user-model trained with only positive web documents. - Larry M. Manevitz; Malik Yousef (Web Intell. Agent Syst., 2004)

Combining multi-species genomic data for microRNA identification using a Naïve Bayes classifier. - Malik Yousef; Michael Nebozhyn; Hagit Shatkay; Stathis Kanterakis; Louise C. Showe; Michael K. Showe (Bioinform., 2006)

VISDA: an open-source caBIGTM analytical tool for data clustering and beyond. - Jiajing Wang; Huai Li; Yitan Zhu; Malik Yousef; Michael Nebozhyn; Michael M. Showe; Louise C. Showe; Jianhua Xuan; Robert Clarke; Yue Joseph Wang (Bioinform., 2007)

Naïve Bayes for microRNA target predictions - machine learning for microRNA targets. - Malik Yousef; Segun Jung; Andrew V. Kossenkov; Louise C. Showe; Michael K. Showe (Bioinform., 2007)

Recursive Cluster Elimination (RCE) for classification and feature selection from gene expression data. - Malik Yousef; Segun Jung; Louise C. Showe; Michael K. Showe (BMC Bioinform., 2007)

One-class document classification via Neural Networks. - Larry M. Manevitz; Malik Yousef (Neurocomputing, 2007)

Learning from positive examples when the negative class is undetermined- microRNA gene identification. - Malik Yousef; Segun Jung; Louise C. Showe; Michael K. Showe (Algorithms Mol. Biol., 2008)

Classification and biomarker identification using gene network modules and support vector machines. - Malik Yousef; Mohamed Ketany; Larry M. Manevitz; Louise C. Showe; Michael K. Showe (BMC Bioinform., 2009)

Feature Selection for MicroRNA Target Prediction - Comparison of One-Class Feature Selection Methodologies. - Malik Yousef; Jens Allmer; Waleed Khalifa (BIOINFORMATICS, 2016)

Feature Selection Has a Large Impact on One-Class Classification Accuracy for MicroRNAs in Plants. - Malik Yousef; Muserref Duygu Saçar; Waleed Khalifa; Jens Allmer (Adv. Bioinformatics, 2016)

Editorial: Computational miRNomics. - Jens Allmer; Malik Yousef (J. Integr. Bioinform., 2016)

Ensemble Clustering Classification compete SVM and One-Class classifiers applied on plant microRNAs Data. - Malik Yousef; Waleed Khalifa; Loai AbdAllah (J. Integr. Bioinform., 2016)

Distinguishing between MicroRNA Targets from Diverse Species using Sequence Motifs and K-mers. - Malik Yousef; Waleed Khalifa; Ilhan Erkin Acar; Jens Allmer (BIOINFORMATICS, 2017)

Sequence-based information-theoretic features for gene essentiality prediction. - Dawit Nigatu; Patrick Sobetzko; Malik Yousef; Werner Henkel (BMC Bioinform., 2017)

MicroRNA categorization using sequence motifs and k-mers. - Malik Yousef; Waleed Khalifa; Ilhan Erkin Acar; Jens Allmer (BMC Bioinform., 2017)

Categorization of species based on their microRNAs employing sequence motifs, information-theoretic sequence feature extraction, and k-mers. - Malik Yousef; Dawit Nigatu; Dalit Levy; Jens Allmer; Werner Henkel (EURASIP J. Adv. Signal Process., 2017)

Species Categorization via MicroRNAs - Based on 3'UTR Target Sites using Sequence Features. - Malik Yousef; Dalit Levy; Jens Allmer (BIOINFORMATICS, 2018)

Ensemble Clustering Based Dimensional Reduction. - Loai AbedAllah; Malik Yousef (DEXA Workshops, 2018)

In Silico Validation of ncRNA-ncRNA Interaction Sites with ncRNAs Represented by k-mers Features. - Malik Yousef; Walid Khaleifa; Tugba Onal Suzek (BIOINFORMATICS, 2019)

K - Means Based One-Class SVM Classifier. - Loai AbedAllah; Murad Badarna; Waleed Khalifa; Malik Yousef (DEXA Workshops, 2019)

Classification of Pre-cursor microRNAs from Different Species Using a New Set of Features. - Malik Yousef; Jens Allmer (DEXA Workshops, 2019)

maTE: discovering expressed interactions between microRNAs and their targets. - Malik Yousef; Loai AbdAllah; Jens Allmer (Bioinform., 2019)

A Machine Learning-based Approach for the Categorization of MicroRNAs to Their Species of Origin. - Luise Odenthal; Jens Allmer; Malik Yousef (BIOINFORMATICS, 2020)

TopicsRanksDC: Distance-Based Topic Ranking Applied on Two-Class Data. - Malik Yousef; Jamal Al Qundus; Silvio Peikert; Adrian Paschke (DEXA Workshops, 2020)

GrpClassifierEC: a novel classification approach based on the ensemble clustering space. - Loai AbedAllah; Malik Yousef (Algorithms Mol. Biol., 2020)

Recursive Cluster Elimination based Rank Function (SVM-RCE-R) implemented in KNIME. - Malik Yousef; Burcu Bakir-Gungor; Amhar Jabeer; Gokhan Goy; Rehman Qureshi; Louise C. Showe (F1000Research, 2020)

Exploring the impact of short-text complexity and structure on its quality in social media. - Jamal Al Qundus; Adrian Paschke; Shivam Gupta 001; Ahmad M. Alzouby; Malik Yousef (J. Enterp. Inf. Manag., 2020)

SVM-RCE-R-OPT: Optimization of Scoring Function for SVM-RCE-R. - Malik Yousef; Amhar Jabeer; Burcu Bakir-Gungor (DEXA Workshops, 2021)

Integrating Gene Ontology Based Grouping and Ranking into the Machine Learning Algorithm for Gene Expression Data Analysis. - Malik Yousef; Ahmet Sayici; Burcu Bakir-Gungor (DEXA Workshops, 2021)

MultiKOC: Multi-One-Class Classifier Based K-Means Clustering. - Loai AbedAllah; Murad Badarna; Waleed Khalifa; Malik Yousef (Algorithms, 2021)

Classification of Precursor MicroRNAs from Different Species Based on K-mer Distance Features. - Malik Yousef; Jens Allmer (Algorithms, 2021)

COVIDium: a COVID-19 resource compendium. - Rohit Satyam; Malik Yousef; Sahar Qazi; Adil Manzoor Bhat; Khalid Raza (Database J. Biol. Databases Curation, 2021)

Application of Biological Domain Knowledge Based Feature Selection on Gene Expression Data. - Malik Yousef; Abhishek Kumar 015; Burcu Bakir-Gungor (Entropy, 2021)

Super-rapid race for saving lives by developing COVID-19 vaccines. - Anusha Uttarilli; Sridhar Amalakanti; Phaneeswara-Rao Kommoju; Srihari Sharma; Pankaj Goyal; Gowrang Kasaba Manjunath; Vineet Upadhayay; Alisha Parveen; Ravi Tandon; Kumar Suranjit Prasad; Tikam Chand Dakal; Izhar Ben Shlomo; et al. (J. Integr. Bioinform., 2021)

Clinical presentation of COVID-19 - a model derived by a machine learning algorithm. - Malik Yousef; Louise C. Showe; Izhar Ben Shlomo (J. Integr. Bioinform., 2021)

CogNet: classification of gene expression data based on ranked active-subnetwork-oriented KEGG pathway enrichment analysis. - Malik Yousef; Ege Ülgen; Osman Ugur Sezerman (PeerJ Comput. Sci., 2021)

Detecting Semantic Similarity of Diseases based Machine Learning. - Emma Qumsiyeh; Malik Yousef; Zaidoun Salah; Rashid Jayousi (BIBM, 2023)

miRcorrNetPro: Unraveling Algorithmic Insights through Cross-Validation in Multi-Omics Integration for Comprehensive Data Analysis. - Miray Unlu Yazici; Malik Yousef; J. S. Marron; Burcu Bakir-Gungor (BIBM, 2023)

GediNETPro: Discovering Patterns of Disease Groups. - Emma Qumsiyeh; Miray Unlu Yazici; Malik Yousef (BIOINFORMATICS, 2023)

Prediction of Antimicrobial Peptides Using Deep Neural Networks. - Ümmü Gülsüm Söylemez; Malik Yousef; Burcu Bakir-Gungor (BIOINFORMATICS, 2023)

PriPath: identifying dysregulated pathways from differential gene expression via grouping, scoring, and modeling with an embedded feature selection approach. - Malik Yousef; Fatma Ozdemir; Amhar Jaber; Jens Allmer; Burcu Bakir-Gungor (BMC Bioinform., 2023)

ReScore Disease Groups Based on Multiple Machine Learnings Utilizing the Grouping-Scoring-Modeling Approach. - Emma Qumsiyeh; Miar Yousef; Malik Yousef (BIOSTEC (1), 2024)

SEMANT - Feature Group Selection Utilizing FastText-Based Semantic Word Grouping, Scoring, and Modeling Approach for Text Classification. - Daniel Voskergian; Burcu Bakir-Gungor; Malik Yousef (DEXA (2), 2024)

TextNetTopics-SFTS-SBTS: TextNetTopics Scoring Approaches Based Sequential Forward and Backward. - Daniel Voskergian; Burcu Bakir-Gungor; Malik Yousef (IWBBIO (2), 2024)

Metagenomic Data Analysis with Machine Learning to Discover Colorectal Cancer-Associated Enzymes. - Nur Sebnem Ersoz; Cihan Kuzudisli; Malik Yousef; Burcu Bakir-Gungor (SIU, 2024)

Classification of Breast Cancer Molecular Subtypes with Grouping-Scoring-Modeling Approach that Incorporates Disease-Disease Association Information. - Emma Qumsiyeh; Burcu Bakir-Gungor; Malik Yousef (SIU, 2024)

Prediction of Type 2 Diabetes using Metagenomic Data and Identification of Taxonomic Biomarkers. - Mustafa Temiz; Cihan Kuzudisli; Malik Yousef; Burcu Bakir-Gungor (SIU, 2024)

CCPred: Global and population-specific colorectal cancer prediction and metagenomic biomarker identification at different molecular levels using machine learning techniques. - Burcu Bakir-Gungor; Mustafa Temiz; Yasin Inal; Emre Cicekyurt; Malik Yousef (Comput. Biol. Medicine, 2024)

Novel Antimicrobial Peptide Design Using Motif Match Score Representation. - Ümmü Gülsüm Söylemez; Malik Yousef; Zülal Kesmen; Burcu Bakir-Gungor (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Identifying Inflammatory Bowel Disease-Associated Gene Ontology Groups Using Biological Knowledge-Based Machine Learning. - Nur Sebnem Ersoz; Burcu Bakir-Gungor; Malik Yousef (BIOSTEC (1), 2025)

Enhancing the Efficiency of the Grouping-Scoring-Modeling Framework with Statistical Pre-Scoring Component for Transcriptomic Data Analysis. - Maham Khokhar; Burcu Bakir-Gungor; Malik Yousef (BIOSTEC (1), 2025)

PathDisGene: Discovering Informative Gene Groups for Disease Diagnosis Using Pathway-Disease Associations and a Grouping, Scoring, Modeling-Based Machine Learning Approach. - Emma Qumsiyeh; Burcu Bakir-Gungor; Malik Yousef (BIOSTEC (1), 2025)

A machine learning approach to differentiate stage IV from stage I colorectal cancer. - Naim Abu-Freha; Zaid Afawi; Miar Yousef; Walid Alamor; Noor Sanalla; Simon Esbit; Malik Yousef (Comput. Biol. Medicine, 2025)

Prediction of colorectal cancer based on taxonomic levels of microorganisms and discovery of taxonomic biomarkers using the Grouping-Scoring-Modeling (G-S-M) approach. - Burcu Bakir-Gungor; Mustafa Temiz; Beyza Canakcimaksutoglu; Malik Yousef (Comput. Biol. Medicine, 2025)

RCE-IFE: recursive cluster elimination with intra-cluster feature elimination. - Cihan Kuzudisli; Burcu Bakir-Gungor; Bahjat Qaqish; Malik Yousef (PeerJ Comput. Sci., 2025)