| The evolution of lung cancer and impact of subclonal selection in TRACERx AM Frankell, M Dietzen, M Al Bakir, EL Lim, T Karasaki, S Ward, ... Nature 616 (7957), 525-533, 2023 | 277 | 2023 |
| Antibodies against endogenous retroviruses promote lung cancer immunotherapy KW Ng, J Boumelha, KSS Enfield, J Almagro, H Cha, O Pich, T Karasaki, ... Nature 616 (7957), 563-573, 2023 | 253 | 2023 |
| The evolution of non-small cell lung cancer metastases in TRACERx M Al Bakir, A Huebner, C Martínez-Ruiz, K Grigoriadis, TBK Watkins, ... Nature 616 (7957), 534-542, 2023 | 201 | 2023 |
| Characterizing allele-and haplotype-specific copy numbers in single cells with CHISEL S Zaccaria, BJ Raphael Nature biotechnology 39 (2), 207-214, 2021 | 165 | 2021 |
| Accurate quantification of copy-number aberrations and whole-genome duplications in multi-sample tumor sequencing data S Zaccaria, BJ Raphael Nature communications 11 (1), 4301, 2020 | 126 | 2020 |
| Comprehensive characterization of 536 patient-derived xenograft models prioritizes candidates for targeted treatment H Sun, S Cao, RJ Mashl, CK Mo, S Zaccaria, MC Wendl, SR Davies, ... Nature communications 12 (1), 5086, 2021 | 118 | 2021 |
| Evolutionary characterization of lung adenocarcinoma morphology in TRACERx T Karasaki, DA Moore, S Veeriah, C Naceur-Lombardelli, A Toncheva, ... Nature medicine 29 (4), 833-845, 2023 | 99 | 2023 |
| SCARLET: single-cell tumor phylogeny inference with copy-number constrained mutation losses G Satas, S Zaccaria, G Mon, BJ Raphael Cell systems 10 (4), 323-332. e8, 2020 | 95 | 2020 |
| The translational challenges of precision oncology O Pich, C Bailey, TBK Watkins, S Zaccaria, M Jamal-Hanjani, C Swanton Cancer Cell 40 (5), 458-478, 2022 | 91 | 2022 |
| HapCol: accurate and memory-efficient haplotype assembly from long reads Y Pirola, S Zaccaria, R Dondi, GW Klau, N Pisanti, P Bonizzoni Bioinformatics 32 (11), 1610-1617, 2016 | 59 | 2016 |
| Tumor-infiltrating clonal hematopoiesis O Pich, E Bernard, M Zagorulya, A Rowan, C Pospori, R Slama, ... New England Journal of Medicine 392 (16), 1594-1608, 2025 | 51 | 2025 |
| On the minimum error correction problem for haplotype assembly in diploid and polyploid genomes P Bonizzoni, R Dondi, GW Klau, Y Pirola, N Pisanti, S Zaccaria Journal of Computational Biology 23 (9), 718-736, 2016 | 43 | 2016 |
| Mixed responses to targeted therapy driven by chromosomal instability through p53 dysfunction and genome doubling S Hobor, M Al Bakir, CT Hiley, M Skrzypski, AM Frankell, B Bakker, ... Nature communications 15 (1), 4871, 2024 | 39 | 2024 |
| 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 | 38 | 2021 |
| 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), 13, 2017 | 38 | 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 | 35 | 2018 |
| CONIPHER: a computational framework for scalable phylogenetic reconstruction with error correction K Grigoriadis, A Huebner, A Bunkum, E Colliver, AM Frankell, MS Hill, ... Nature protocols 19 (1), 159-183, 2024 | 34 | 2024 |
| Subclonal somatic copy-number alterations emerge and dominate in recurrent osteosarcoma MD Kinnaman, S Zaccaria, A Makohon-Moore, B Arnold, MF Levine, ... Cancer Research 83 (22), 3796-3812, 2023 | 28 | 2023 |
| Identifying tumor clones in sparse single-cell mutation data MA Myers, S Zaccaria, BJ Raphael Bioinformatics 36 (Supplement_1), i186-i193, 2020 | 28 | 2020 |
| Copy-number evolution problems: complexity and algorithms M El-Kebir, BJ Raphael, R Shamir, R Sharan, S Zaccaria, M Zehavi, ... International Workshop on Algorithms in Bioinformatics, 137-149, 2016 | 27 | 2016 |
Ben RaphaelProfessor of Computer Science, Princeton UniversityVerified email at princeton.edu
