| WCOACH: protein complex prediction in weighted PPI networks M Kouhsar, F Zare-Mirakabad, Y Jamali Genes & genetic systems 90 (5), 317-324, 2015 | 31 | 2015 |
| Genetic algorithm for dyad pattern finding in DNA sequences F Zare-Mirakabad, H Ahrabian, M Sadeghi, S Hashemifar, ... Genes & genetic systems 84 (1), 81-93, 2009 | 28 | 2009 |
| The assessment of efficient representation of drug features using deep learning for drug repositioning M Moridi, M Ghadirinia, A Sharifi-Zarchi, F Zare-Mirakabad BMC bioinformatics 20, 1-11, 2019 | 25 | 2019 |
| Transcription factor binding sites prediction based on modified nucleosomes M Talebzadeh, F Zare-Mirakabad PLoS One 9 (2), e89226, 2014 | 21 | 2014 |
| New scoring schema for finding motifs in DNA Sequences F Zare-Mirakabad, H Ahrabian, M Sadeghi, A Nowzari-Dalini, B Goliaei Bmc Bioinformatics 10, 1-21, 2009 | 19 | 2009 |
| Protein sequence profile prediction using ProtAlbert transformer A Behjati, F Zare-Mirakabad, SS Arab, A Nowzari-Dalini Computational Biology and Chemistry 99, 107717, 2022 | 16* | 2022 |
| Drugrep-kg: Toward learning a unified latent space for drug repurposing using knowledge graphs Z Ghorbanali, F Zare-Mirakabad, M Akbari, N Salehi, A Masoudi-Nejad Journal of Chemical Information and Modeling 63 (8), 2532-2545, 2023 | 15 | 2023 |
| Evolutionary algorithm for RNA secondary structure prediction based on simulated SHAPE data S Montaseri, M Ganjtabesh, F Zare-Mirakabad PloS one 11 (11), e0166965, 2016 | 15 | 2016 |
| RNA-RNA interaction prediction using genetic algorithm S Montaseri, F Zare-Mirakabad, N Moghadam-Charkari Algorithms for Molecular Biology 9, 1-7, 2014 | 12 | 2014 |
| Biomarker prediction in autism spectrum disorder using a network-based approach M Rastegari, N Salehi, F Zare-Mirakabad BMC medical genomics 16 (1), 12, 2023 | 9 | 2023 |
| Drug-target binding affinity prediction using transformers M Saadat, A Behjati, F Zare-Mirakabad, S Gharaghani | 8 | 2021 |
| EIA-CNDP: An exact iterative algorithm for critical node detection problem J Rezaei, F Zare-Mirakabad, SA MirHassani, SA Marashi Computers & Operations Research 127, 105138, 2021 | 8 | 2021 |
| Evaluating the accuracy of protein design using native secondary sub-structures M Movahedi, F Zare-Mirakabad, SS Arab BMC bioinformatics 17, 1-11, 2016 | 8 | 2016 |
| Inverse RNA folding solution based on multi-objective genetic algorithm and Gibbs sampling method M Ganjtabesh, F Zare-Mirakabad, A Nowzari-Dalini EXCLI journal 12, 546, 2013 | 7 | 2013 |
| PSOMF: An algorithm for pattern discovery using PSO F Zare-Mirakabad, H Ahrabian, M Sadeghi, J Mohammadzadeh, ... Proceedings of the Third IAPR International Conferences on Pattern …, 2008 | 6 | 2008 |
| DrugRep-HeSiaGraph: when heterogenous siamese neural network meets knowledge graphs for drug repurposing Z Ghorbanali, F Zare-Mirakabad, N Salehi, M Akbari, A Masoudi-Nejad BMC bioinformatics 24 (1), 374, 2023 | 5 | 2023 |
| The outward shift of clarithromycin binding to the ribosome in mutant Helicobacter pylori strains N Salehi, B Attaran, F Zare‐Mirakabad, B Ghadiri, M Esmaeili, ... Helicobacter 25 (6), e12731, 2020 | 5 | 2020 |
| A stochastic model of DNA double-strand breaks repair throughout the cell cycle FS Mohseni-Salehi, F Zare-Mirakabad, M Sadeghi, S Ghafouri-Fard Bulletin of Mathematical Biology 82, 1-36, 2020 | 5 | 2020 |
| RNA secondary structure prediction based on SHAPE data in helix regions M Lotfi, F Zare-Mirakabad, S Montaseri Journal of theoretical biology 380, 178-182, 2015 | 5 | 2015 |
| Exploring ceRNA networks for key biomarkers in breast cancer subtypes and immune regulation A Shariatmadar Taleghani, Y Zohrab Beigi, F Zare-Mirakabad, ... Scientific Reports 13 (1), 20795, 2023 | 4 | 2023 |
