Probabilistic Latent Semantic Analysis for prediction of Gene Ontology annotations. - Marco Masseroli; Davide Chicco; Pietro Pinoli (IJCNN, 2012)

Enhanced probabilistic latent semantic analysis with weighting schemes to predict genomic annotations. - Pietro Pinoli; Davide Chicco; Marco Masseroli (BIBE, 2013)

Weighting Scheme Methods for Enhanced Genomic Annotation Prediction. - Pietro Pinoli; Davide Chicco; Marco Masseroli (CIBB, 2013)

Latent Dirichlet Allocation based on Gibbs Sampling for gene function prediction. - Pietro Pinoli; Davide Chicco; Marco Masseroli (CIBCB, 2014)

Discovering New Gene Functionalities from Random Perturbations of Known Gene Ontological Annotations. - Giacomo Domeniconi; Marco Masseroli; Gianluca Moro; Pietro Pinoli (KDIR, 2014)

Random Perturbations of Term Weighted Gene Ontology Annotations for Discovering Gene Unknown Functionalities. - Giacomo Domeniconi; Marco Masseroli; Gianluca Moro; Pietro Pinoli (IC3K (Selected Papers), 2014)

Evaluating cloud frameworks on genomic applications. - Michele Bertoni; Stefano Ceri; Abdulrahman Kaitoua; Pietro Pinoli (IEEE BigData, 2015)

GenoMetric Query Language: a novel approach to large-scale genomic data management. - Marco Masseroli; Pietro Pinoli; Francesco Venco; Abdulrahman Kaitoua; Vahid Jalili; Fernando Palluzzi; Heiko Müller 003; Stefano Ceri (Bioinform., 2015)

Computational algorithms to predict Gene Ontology annotations. - Pietro Pinoli; Davide Chicco; Marco Masseroli (BMC Bioinform., 2015)

Data Management for Next Generation Genomic Computing. - Stefano Ceri; Abdulrahman Kaitoua; Marco Masseroli; Pietro Pinoli; Francesco Venco (EDBT, 2016)

Cross-organism learning method to discover new gene functionalities. - Giacomo Domeniconi; Marco Masseroli; Gianluca Moro; Pietro Pinoli (Comput. Methods Programs Biomed., 2016)

Experiences in the Development of a Data Management System for Genomics. - Stefano Ceri; Arif Canakoglu; Abdulrahman Kaitoua; Marco Masseroli; Pietro Pinoli (DATA (Revised Selected Papers), 2017)

Evaluating Genomic Big Data Operations on SciDB and Spark. - Simone Cattani; Stefano Ceri; Abdulrahman Kaitoua; Pietro Pinoli (ICWE, 2017)

Scalable Genomic Data Management System on the Cloud. - Abdulrahman Kaitoua; Andrea Gulino; Marco Masseroli; Pietro Pinoli; Stefano Ceri (HPCS, 2017)

Overview of GeCo: A Project for Exploring and Integrating Signals from the Genome. - Stefano Ceri; Anna Bernasconi 002; Arif Canakoglu; Andrea Gulino; Abdulrahman Kaitoua; Marco Masseroli; Luca Nanni; Pietro Pinoli (DAMDID/RCDL (Selected Papers), 2017)

Data-Driven Genomic Computing: Making sense of Signals from the Genome. - Stefano Ceri; Arif Canakoglu; Abdulrahman Kaitoua; Marco Masseroli; Pietro Pinoli (DAMDID/RCDL, 2017)

Bi-Dimensional Binning for Big Genomic Datasets. - Simone Cattani; Stefano Ceri; Abdulrahman Kaitoua; Pietro Pinoli (BeyondMR@SIGMOD, 2017)

Framework for Supporting Genomic Operations. - Abdulrahman Kaitoua; Pietro Pinoli; Michele Bertoni; Stefano Ceri (IEEE Trans. Computers, 2017)

Data Management for Heterogeneous Genomic Datasets. - Stefano Ceri; Abdulrahman Kaitoua; Marco Masseroli; Pietro Pinoli; Francesco Venco (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Modeling and querying genomic data. - Pietro Pinoli (2017)

DLA: a Distributed, Location-based and Apriori-based Algorithm for Biological Sequence Pattern Mining. - Eirini Stamoulakatou; Andrea Gulino; Pietro Pinoli (IEEE BigData, 2018)

Demonstration of GenoMetric Query Language. - Stefano Ceri; Arif Canakoglu; Andrea Gulino; Abdulrahman Kaitoua; Marco Masseroli; Luca Nanni; Pietro Pinoli (CIKM, 2018)

Exploring Genomic Datasets: from Batch to Interactive and Back. - Luca Nanni; Pietro Pinoli; Arif Canakoglu; Stefano Ceri (ExploreDB@SIGMOD/PODS, 2018)

TICA: Transcriptional Interaction and Coregulation Analyzer. - Stefano Perna; Pietro Pinoli; Stefano Ceri; Limsoon Wong (Genom. Proteom. Bioinform., 2018)

Drug Repositioning Predictions by Non-Negative Matrix Tri-Factorization of Integrated Association Data. - Gaëtan Dissez; Gaia Ceddia; Pietro Pinoli; Stefano Ceri; Marco Masseroli (BCB, 2019)

Deleterious Impact of Mutational Processes on Transcription Factor Binding Sites in Human Cancer. - Pietro Pinoli; Eirini Stamoulakatou; Stefano Ceri; Rosario M. Piro (BIBE, 2019)

Analysis and Visualization of Mutation Enrichments for Selected Genomic Regions and Cancer Types. - Andrea Gulino; Eirini Stamoulakatou; Arif Canakoglu; Pietro Pinoli (BIBM, 2019)

Evaluating Deep Semi-supervised Learning for Whole-Transcriptome Breast Cancer Subtyping. - Silvia Cascianelli; Francisco Cristovao; Arif Canakoglu; Mark J. Carman; Luca Nanni; Pietro Pinoli; Marco Masseroli (CIBB, 2019)

Non-negative Matrix Tri-Factorization for Data Integration and Network-based Drug Repositioning. - Gaia Ceddia; Pietro Pinoli; Stefano Ceri; Marco Masseroli (CIBCB, 2019)

Processing of big heterogeneous genomic datasets for tertiary analysis of Next Generation Sequencing data. - Marco Masseroli; Arif Canakoglu; Pietro Pinoli; Abdulrahman Kaitoua; Andrea Gulino; Olha Horlova; Luca Nanni; Anna Bernasconi 002; Stefano Perna; Eirini Stamoulakatou; Stefano Ceri (Bioinform., 2019)

PyGMQL: scalable data extraction and analysis for heterogeneous genomic datasets. - Luca Nanni; Pietro Pinoli; Arif Canakoglu; Stefano Ceri (BMC Bioinform., 2019)

Metadata management for scientific databases. - Pietro Pinoli; Stefano Ceri; Davide Martinenghi; Luca Nanni (Inf. Syst., 2019)

OK, DNA!: A Conversational Interface to Explore Genomic Data. - Pietro Crovari; Fabio Catania; Pietro Pinoli; Philipp Roytburg; Asier Salzar; Franca Garzotto; Stefano Ceri (CIU, 2020)

Empowering Virus Sequence Research Through Conceptual Modeling. - Anna Bernasconi 002; Arif Canakoglu; Pietro Pinoli; Stefano Ceri (ER, 2020)

Impact of Mutational Signatures on microRNA and Their Response Elements. - Eirini Stamoulakatou; Pietro Pinoli; Stefano Ceri; Rosario M. Piro (PSB, 2020)

Data Science for Genomic Data Management: Challenges, Resources, Experiences. - Stefano Ceri; Pietro Pinoli (SN Comput. Sci., 2020)

Matrix Factorization-based Technique for Drug Repurposing Predictions. - Gaia Ceddia; Pietro Pinoli; Stefano Ceri; Marco Masseroli (IEEE J. Biomed. Health Informatics, 2020)

A Non-Negative Matrix Tri-Factorization Based Method for Predicting Antitumor Drug Sensitivity. - Carolina Testa; Sara Pidò; Pietro Pinoli (CIBB, 2021)

Ensemble Feature Selection for Single Cell Chromatin Conformation Analysis. - Amirreza Rouhi; Luca Nanni; Arif Canakoglu; Pietro Pinoli; Stefano Ceri (ICBBT, 2021)

A review on viral data sources and search systems for perspective mitigation of COVID-19. - Anna Bernasconi 002; Arif Canakoglu; Marco Masseroli; Pietro Pinoli; Stefano Ceri (Briefings Bioinform., 2021)

Federated sharing and processing of genomic datasets for tertiary data analysis. - Arif Canakoglu; Pietro Pinoli; Andrea Gulino; Luca Nanni; Marco Masseroli; Stefano Ceri (Briefings Bioinform., 2021)

EpiSurf: metadata-driven search server for analyzing amino acid changes within epitopes of SARS-CoV-2 and other viral species. - Anna Bernasconi 002; Luca Cilibrasi; Ruba Al Khalaf; Tommaso Alfonsi; Stefano Ceri; Pietro Pinoli; Arif Canakoglu (Database J. Biol. Databases Curation, 2021)

Identifying collateral and synthetic lethal vulnerabilities within the DNA-damage response. - Pietro Pinoli; Sriganesh Srihari; Limsoon Wong; Stefano Ceri (BMC Bioinform., 2021)

ViruSurf: an integrated database to investigate viral sequences. - Arif Canakoglu; Pietro Pinoli; Anna Bernasconi 002; Tommaso Alfonsi; Damianos P. Melidis; Stefano Ceri (Nucleic Acids Res., 2021)

MCTK: a Multi-modal Conversational Troubleshooting Kit for supporting users in web applications. - Giulio Antonio Abbo; Pietro Crovari; Sara Pidò; Pietro Pinoli; Franca Garzotto (AVI, 2022)

Conceptual models and databases for searching the genome. - Anna Bernasconi 002; Pietro Pinoli (EDBT, 2022)

Generalization of Probabilistic Latent Semantic Analysis to k-partite Graphs. - Yohann Salomon; Pietro Pinoli (KDIR, 2022)

ViruClust: direct comparison of SARS-CoV-2 genomes and genetic variants in space and time. - Luca Cilibrasi; Pietro Pinoli; Anna Bernasconi 002; Arif Canakoglu; Matteo Chiara; Stefano Ceri (Bioinform., 2022)

GeCoAgent: A Conversational Agent for Empowering Genomic Data Extraction and Analysis. - Pietro Crovari; Sara Pidò; Pietro Pinoli; Anna Bernasconi 002; Arif Canakoglu; Franca Garzotto; Stefano Ceri (ACM Trans. Comput. Heal., 2022)

Investigating Deep Learning Based Breast Cancer Subtyping Using Pan-Cancer and Multi-Omic Data. - Francisco Cristovao; Silvia Cascianelli; Arif Canakoglu; Mark J. Carman; Luca Nanni; Pietro Pinoli; Marco Masseroli (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Predicting Drug Synergism by Means of Non-Negative Matrix Tri-Factorization. - Pietro Pinoli; Gaia Ceddia; Stefano Ceri; Marco Masseroli (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Leveraging Non-negative Matrix Tri-Factorization and Knowledge-Based Embeddings for Drug Repurposing: an Application to Parkinson's Disease. - Letizia Messa; Carolina Testa; Stephana Carelli; Federica Rey; Cristina Cereda; Manuela Teresa Raimondi; Stefano Ceri; Pietro Pinoli (ICBBE, 2023)

Inference of Synthetically Lethal Pairs of Genes Involved in Metastatic Processes via Non-Negative Matrix Tri-Factorization. - Carolina Testa; Sara Pidò; Emanuela Jacchetti; Manuela Teresa Raimondi; Stefano Ceri; Pietro Pinoli (ICBBT, 2023)

Ask Your Data - Supporting Data Science Processes by Combining AutoML and Conversational Interfaces. - Sara Pidò; Pietro Pinoli; Pietro Crovari; Francesca Ieva; Franca Garzotto; Stefano Ceri (IEEE Access, 2023)

VariantHunter: a method and tool for fast detection of emerging SARS-CoV-2 variants. - Pietro Pinoli; Arif Canakoglu; Stefano Ceri; Matteo Chiara; Erika Ferrandi; Luca Minotti; Anna Bernasconi 002 (Database J. Biol. Databases Curation, 2023)

Achieving data FAIRification in a distributed analytics research platform for rare diseases. - Anna Bernasconi 002; Cinzia Cappiello; Stefano Ceri; Pietro Pinoli (SWAT4HCLS, 2024)

Exploring Federated Learning for Emotion Recognition on Brain-Computer Interfaces. - Sofia Mongardi; Pietro Pinoli (UMAP (Adjunct Publication), 2024)

A comparison of online search engine autocompletion in Google and Baidu. - Geng Liu; Pietro Pinoli; Stefano Ceri; Francesco Pierri 002 (CoRR, 2024)

Leveraging Profiling to Bridge Healthcare Silos for Federated Analyses. - Nelly Barret; Anna Bernasconi 002; Cinzia Cappiello; Giacomo Palu; Pietro Pinoli (CAiSE Forum, 2025)