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Journal of Computational Biology : a Journal of Computational Molecular Cell Biology|February 28, 2024
DERNA Enables Pareto Optimal RNA DesignXinyu Gu, Yuanyuan Qi, Mohammed El-KebirJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|November 27, 2023
Consensus Tree Under the Ancestor-Descendant Distance is NP-HardYuanyuan Qi, Mohammed El-KebirAlgorithms for Molecular Biology : AMB|September 10, 2019
Implications of non-uniqueness in phylogenetic deconvolution of bulk DNA samples of tumorsYuanyuan Qi, Dikshant Pradhan, Mohammed El-KebirBioinformatics (Oxford, England)|September 13, 2019
Summarizing the solution space in tumor phylogeny inference by multiple consensus treesNuraini Aguse, Yuanyuan Qi, Mohammed El-KebirAlgorithms for Molecular Biology : AMB|February 19, 2026
Inferring and summarizing tumor phylogenies from bulk DNA dataYuanyuan Qi, Henri Schmidt, Mohammed El-KebirBioinformatics (Oxford, England)|July 15, 2025
Fast tumor phylogeny regression via tree-structured dual dynamic programmingHenri Schmidt, Yuanyuan Qi, Benjamin J Raphael, et al.Bioinformatics (Oxford, England)|November 14, 2018
SPhyR: tumor phylogeny estimation from single-cell sequencing data under loss and errorMohammed El-KebirBiorxiv : the Preprint Server for Biology|December 11, 2023
TRIBAL: Tree Inference of B cell Clonal LineagesLeah L Weber, Derek Reiman, Mrinmoy S Roddur, et al.Cell Genomics|August 29, 2024
Isotype-aware inference of B cell clonal lineage trees from single-cell sequencing dataLeah L Weber, Derek Reiman, Mrinmoy S Roddur, et al.Bioinformatics (Oxford, England)|July 14, 2020
ClonArch: visualizing the spatial clonal architecture of tumorsJiaqi Wu, Mohammed El-KebirPageof 33