| Clonal evolution and heterogeneity of osimertinib acquired resistance mechanisms in EGFR mutant lung cancer N Roper, AL Brown, JS Wei, S Pack, C Trindade, C Kim, O Restifo, S Gao, ... Cell reports medicine 1 (1), 2020 | 135 | 2020 |
| PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data S Malikic*, FR Mehrabadi*, S Ciccolella*, MK Rahman, C Ricketts, ... Genome research 29 (11), 1860-1877, 2019 | 92 | 2019 |
| PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem E Sadeqi Azer*, F Rashidi Mehrabadi*, S Malikić, XC Li, O Bartok, ... Bioinformatics 36 (Supplement_1), i169-i176, 2020 | 23 | 2020 |
| A transcriptionally distinct subpopulation of healthy acinar cells exhibit features of pancreatic progenitors and PDAC V Gopalan, A Singh, F Rashidi Mehrabadi, L Wang, E Ruppin, HE Arda, ... Cancer research 81 (15), 3958-3970, 2021 | 13 | 2021 |
| A study on prediction of user's tendency toward purchases in websites based on behavior models EG Boroujerdi, S Mehri, SS Garmaroudi, M Pezeshki, FR Mehrabadi, ... 2014 6th Conference on Information and Knowledge Technology (IKT), 61-66, 2014 | 12 | 2014 |
| Profiles of expressed mutations in single cells reveal subclonal expansion patterns and therapeutic impact of intratumor heterogeneity FR Mehrabadi, KL Marie, E Pérez-Guijarro, S Malikić, ES Azer, HH Yang, ... bioRxiv, 2021.03. 26.437185, 2021 | 11 | 2021 |
| Clonal Evolution and Heterogeneity of Osimertinib Acquired Resistance Mechanisms in EGFR Mutant Lung Cancer. Cell Rep Med 1 (2020) N Roper, AL Brown, JS Wei, S Pack, C Trindade, C Kim, O Restifo, S Gao, ... | 11 | 2020 |
| Genome-wide profiling of transcription factor activity in primary liver cancer using single-cell ATAC sequencing AJ Craig, MAD Silveira, L Ma, M Revsine, L Wang, S Heinrich, Z Rae, ... Cell reports 42 (11), 2023 | 7 | 2023 |
| Fast intratumor heterogeneity inference from single-cell sequencing data C Kızılkale*, F Rashidi Mehrabadi*, E Sadeqi Azer, E Pérez-Guijarro, ... Nature Computational Science, 1-7, 2022 | 7 | 2022 |
| Studying the history of tumor evolution from single-cell sequencing data by exploring the space of binary matrices S Malikić*, FR Mehrabadi*, ES Azer, MH Ebrahimabadi, SC Sahinalp Journal of Computational Biology 28 (9), 857-879, 2021 | 5 | 2021 |
| Single-cell methylation sequencing data reveal succinct metastatic migration histories and tumor progression models Y Liu, XC Li, FR Mehrabadi, AA Schäffer, D Pratt, DR Crawford, S Malikić, ... Genome Research 33 (7), 1089-1100, 2023 | 4 | 2023 |
| Stochastic modeling of single-cell gene expression adaptation reveals non-genomic contribution to evolution of tumor subclones MG Hirsch, S Pal, FR Mehrabadi, S Malikic, C Gruen, A Sassano, ... Cell Systems 16 (1), 2025 | 3 | 2025 |
| Melanoma clonal subline analysis uncovers heterogeneity-driven immunotherapy resistance mechanisms C Gruen, HH Yang, A Sassano, E Wu, V Gopalan, KL Marie, A Castro, ... bioRxiv, 2023.04. 03.535074, 2023 | 2 | 2023 |
| Epigenomic tumor evolution modeling with single-cell methylation data profiling XC Li, Y Liu, F Rashidi, S Malikic, SM Mount, E Ruppin, K Aldape, ... Cancer Research 81 (13), 2021 | 1 | 2021 |
| Structural variant dynamics in melanoma: Unraveling tumor heterogeneity and evolution X Cui, AG Keskus, FR Mehrabadi, S Malikic, M Kolmogorov, CP Day, ... Cancer Research 84 (6_Supplement), 6924-6924, 2024 | | 2024 |
| Single-cell methylation sequencing data reveals succinct metastatic migration histories and tumor progression models XC Li, Y Liu, FR Mehrabadi, AA Schäffer, D Pratt, DR Crawford, S Malikić, ... Cancer Research 83 (7_Supplement), 127-127, 2023 | | 2023 |
| Scalable Tumor Phylogeny Inference and Validation from Single-Cell RNA or DNA Data FR Mehrabadi Indiana University, 2022 | | 2022 |
| PhISCS-BnB E Sadeqi Azer, F Rashidi Mehrabadi, S Malikić, XC Li, O Bartok, ... | | |
| MSE20 Benchmark: The inference of tumor evolutionary history from single-cell DNA sequencing data FR Mehrabadi, S Malikic, SC Sahinalp MaxSAT Evaluation 2020, 60, 0 | | |
