| Computational pan-genomics: status, promises and challenges Briefings in bioinformatics 19 (1), 118-135, 2018 | 369 | 2018 |
| Multiscale computational modeling reveals a critical role for TNF-α receptor 1 dynamics in tuberculosis granuloma formation M Fallahi-Sichani, M El-Kebir, S Marino, DE Kirschner, JJ Linderman The Journal of Immunology 186 (6), 3472-3483, 2011 | 204 | 2011 |
| Reconstruction of clonal trees and tumor composition from multi-sample sequencing data M El-Kebir, L Oesper, H Acheson-Field, BJ Raphael Bioinformatics 31 (12), i62-i70, 2015 | 198 | 2015 |
| Charge group partitioning in biomolecular simulation S Canzar, M El-Kebir, R Pool, K Elbassioni, AK Malde, AE Mark, ... Journal of Computational Biology 20 (3), 188-198, 2013 | 189 | 2013 |
| Inferring the mutational history of a tumor using multi-state perfect phylogeny mixtures M El-Kebir, G Satas, L Oesper, BJ Raphael Cell systems 3 (1), 43-53, 2016 | 157 | 2016 |
| Inferring parsimonious migration histories for metastatic cancers M El-Kebir, G Satas, BJ Raphael Nature genetics 2, 5, 2018 | 123 | 2018 |
| SPhyR: tumor phylogeny estimation from single-cell sequencing data under loss and error M El-Kebir Bioinformatics 34 (17), i671-i679, 2018 | 112 | 2018 |
| A hybrid multi-compartment model of granuloma formation and T cell priming in tuberculosis S Marino, M El-Kebir, D Kirschner Journal of theoretical biology 280 (1), 50-62, 2011 | 106 | 2011 |
| Lagrangian relaxation applied to sparse global network alignment M El-Kebir, J Heringa, GW Klau Pattern Recognition in Bioinformatics: 6th IAPR International Conference …, 2011 | 81 | 2011 |
| Complexity and algorithms for copy-number evolution problems M El-Kebir, BJ Raphael, R Shamir, R Sharan, S Zaccaria, M Zehavi, ... Algorithms for Molecular Biology 12, 1-11, 2017 | 56* | 2017 |
| Phylogenetic copy-number factorization of multiple tumor samples S Zaccaria, M El-Kebir, GW Klau, BJ Raphael Journal of Computational Biology 25 (7), 689-708, 2018 | 48* | 2018 |
| Implications of non-uniqueness in phylogenetic deconvolution of bulk DNA samples of tumors Y Qi, D Pradhan, M El-Kebir Algorithms for Molecular Biology 14, 1-14, 2019 | 36* | 2019 |
| Natalie 2.0: Sparse global network alignment as a special case of quadratic assignment M El-Kebir, J Heringa, GW Klau Algorithms 8 (4), 1035-1051, 2015 | 36 | 2015 |
| Solving the maximum-weight connected subgraph problem to optimality M El-Kebir, GW Klau arXiv preprint arXiv:1409.5308, 2014 | 35 | 2014 |
| Summarizing the solution space in tumor phylogeny inference by multiple consensus trees N Aguse, Y Qi, M El-Kebir Bioinformatics 35 (14), i408-i416, 2019 | 33 | 2019 |
| eXamine: Exploring annotated modules in networks K Dinkla, M El-Kebir, CI Bucur, M Siderius, MJ Smit, MA Westenberg, ... BMC bioinformatics 15, 1-14, 2014 | 31 | 2014 |
| Development and comprehensive characterization of porcine hepatocellular carcinoma for translational liver cancer investigation RC Gaba, L Elkhadragy, FE Boas, S Chaki, HH Chen, M El-Kebir, ... Oncotarget 11 (28), 2686, 2020 | 30 | 2020 |
| DeCiFering the elusive cancer cell fraction in tumor heterogeneity and evolution G Satas, S Zaccaria, M El-Kebir, BJ Raphael Cell systems 12 (10), 1004-1018. e10, 2021 | 28 | 2021 |
| metaModules identifies key functional subnetworks in microbiome-related disease A May, BW Brandt, M El-Kebir, GW Klau, E Zaura, W Crielaard, J Heringa, ... Bioinformatics 32 (11), 1678-1685, 2016 | 28 | 2016 |
| Design of SARS-CoV-2 variant-specific PCR assays considering regional and temporal characteristics C Oh, P Sashittal, A Zhou, L Wang, M El-Kebir, TH Nguyen Applied and environmental microbiology 88 (7), e02289-21, 2022 | 24 | 2022 |
