| The impact of pathway database choice on statistical enrichment analysis and predictive modeling S Mubeen, CT Hoyt, A Gemünd, M Hofmann-Apitius, H Fröhlich, ... Frontiers in genetics 10, 1203, 2019 | 112 | 2019 |
| PathMe: merging and exploring mechanistic pathway knowledge D Domingo-Fernández, S Mubeen, J Marín-Llaó, CT Hoyt, ... BMC bioinformatics 20, 1-12, 2019 | 43 | 2019 |
| On the influence of several factors on pathway enrichment analysis S Mubeen, A Tom Kodamullil, M Hofmann-Apitius, D Domingo-Fernández Briefings in bioinformatics 23 (3), bbac143, 2022 | 29 | 2022 |
| Drug2ways: Reasoning over causal paths in biological networks for drug discovery D Rivas-Barragan, S Mubeen, F Guim Bernat, M Hofmann-Apitius, ... PLoS computational biology 16 (12), e1008464, 2020 | 25 | 2020 |
| Data science in neurodegenerative disease: its capabilities, limitations, and perspectives SG Khatami, S Mubeen, M Hofmann-Apitius Current opinion in neurology 33 (2), 249-254, 2020 | 21 | 2020 |
| Modern drug discovery using ethnobotany: a large-scale cross-cultural analysis of traditional medicine reveals common therapeutic uses D Domingo-Fernández, Y Gadiya, S Mubeen, TJ Bollerman, MD Healy, ... Iscience 26 (9), 2023 | 16 | 2023 |
| Using predictive machine learning models for drug response simulation by calibrating patient-specific pathway signatures S Golriz Khatami, S Mubeen, VS Bharadhwaj, AT Kodamullil, ... NPJ systems biology and applications 7 (1), 40, 2021 | 15 | 2021 |
| CLEP: a hybrid data-and knowledge-driven framework for generating patient representations VS Bharadhwaj, M Ali, C Birkenbihl, S Mubeen, J Lehmann, ... Bioinformatics 37 (19), 3311-3318, 2021 | 11 | 2021 |
| Causal reasoning over knowledge graphs leveraging drug-perturbed and disease-specific transcriptomic signatures for drug discovery D Domingo-Fernández, Y Gadiya, A Patel, S Mubeen, D Rivas-Barragan, ... PLoS computational biology 18 (2), e1009909, 2022 | 10 | 2022 |
| Integration of structured biological data sources using biological expression language CT Hoyt, D Domingo-Fernández, S Mubeen, JM Llaó, A Konotopez, ... Biorxiv, 631812, 2019 | 9 | 2019 |
| Exploring the known chemical space of the plant kingdom: insights into taxonomic patterns, knowledge gaps, and bioactive regions D Domingo-Fernández, Y Gadiya, S Mubeen, D Healey, BH Norman, ... Journal of Cheminformatics 15 (1), 107, 2023 | 8 | 2023 |
| Integrative analysis to identify shared mechanisms between schizophrenia and bipolar disorder and their comorbidities VS Bharadhwaj, S Mubeen, A Sargsyan, GM Jose, S Geissler, ... Progress in Neuro-Psychopharmacology and Biological Psychiatry 122, 110688, 2023 | 8 | 2023 |
| Natural products have increased rates of clinical trial success throughout the drug development process D Domingo-Fernández, Y Gadiya, AJ Preto, CA Krettler, S Mubeen, ... Journal of Natural Products 87 (7), 1844-1851, 2024 | 6 | 2024 |
| DecoPath: a web application for decoding pathway enrichment analysis S Mubeen, VS Bharadhwaj, Y Gadiya, M Hofmann-Apitius, AT Kodamullil, ... NAR Genomics and Bioinformatics 3 (3), lqab087, 2021 | 4 | 2021 |
| Exploring the complex network of heme-triggered effects on the blood coagulation system S Mubeen, D Domingo-Fernández, S Díaz del Ser, DM Solanki, ... Journal of Clinical Medicine 11 (19), 5975, 2022 | 3 | 2022 |
| Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms RQ Figueiredo, T Raschka, AT Kodamullil, M Hofmann-Apitius, S Mubeen, ... Nucleic acids research 49 (14), 7939-7953, 2021 | 3 | 2021 |
| A systems biology approach for hypothesizing the effect of genetic variants on neuroimaging features in Alzheimer’s disease S Golriz Khatami, D Domingo-Fernandez, S Mubeen, CT Hoyt, ... Journal of Alzheimer’S Disease 80 (2), 831-840, 2021 | 3 | 2021 |
| MultiPaths: a Python framework for analyzing multi-layer biological networks using diffusion algorithms J Marín-Llaó, S Mubeen, A Perera-Lluna, M Hofmann-Apitius, ... Bioinformatics 37 (1), 137-139, 2021 | 3 | 2021 |
| Curating, collecting, and cataloguing global COVID-19 datasets for the aim of predicting personalized risk SG Khatami, A Sargsyan, MF Russo, D Domingo-Fernández, A Zaliani, ... Data 9 (2), 25, 2024 | | 2024 |
| Contextualizing and interpreting biological data with pathway knowledge and network algorithms S Mubeen Universitäts-und Landesbibliothek Bonn, 2023 | | 2023 |
