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Fast intratumor heterogeneity inference from single-cell sequencing data.
Kızılkale C, Rashidi Mehrabadi F, Sadeqi Azer E, Pérez-Guijarro E, Marie KL, Lee MP, Day CP, Merlino G, Ergün F, Buluç A, Sahinalp SC, Malikić S. Kızılkale C, et al. Among authors: sadeqi azer e. Nat Comput Sci. 2022 Sep;2(9):577-583. doi: 10.1038/s43588-022-00298-x. Epub 2022 Sep 8. Nat Comput Sci. 2022. PMID: 38177468 Free PMC article.
Tumor Phylogeny Topology Inference via Deep Learning.
Sadeqi Azer E, Haghir Ebrahimabadi M, Malikić S, Khardon R, Sahinalp SC. Sadeqi Azer E, et al. iScience. 2020 Oct 7;23(11):101655. doi: 10.1016/j.isci.2020.101655. eCollection 2020 Nov 20. iScience. 2020. PMID: 33117968 Free PMC article.
PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem.
Sadeqi Azer E, Rashidi Mehrabadi F, Malikić S, Li XC, Bartok O, Litchfield K, Levy R, Samuels Y, Schäffer AA, Gertz EM, Day CP, Pérez-Guijarro E, Marie K, Lee MP, Merlino G, Ergun F, Sahinalp SC. Sadeqi Azer E, et al. Bioinformatics. 2020 Jul 1;36(Suppl_1):i169-i176. doi: 10.1093/bioinformatics/btaa464. Bioinformatics. 2020. PMID: 32657358 Free PMC article.