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Genome-wide profiling of transcription factor activity in primary liver cancer using single-cell ATAC sequencing.
Cell Rep. 2023 Nov 28;42(11):113446. doi: 10.1016/j.celrep.2023.113446. Epub 2023 Nov 18.
Cell Rep. 2023.
PMID: 37980571
Free PMC article.
Clonal Evolution and Heterogeneity of Osimertinib Acquired Resistance Mechanisms in EGFR Mutant Lung Cancer.
Roper N, Brown AL, Wei JS, Pack S, Trindade C, Kim C, Restifo O, Gao S, Sindiri S, Mehrabadi F, El Meskini R, Ohler ZW, Maity TK, Venugopalan A, Cultraro CM, Akoth E, Padiernos E, Chen H, Kesarwala A, Smart DK, Nilubol N, Rajan A, Piotrowska Z, Xi L, Raffeld M, Panchenko AR, Sahinalp C, Hewitt S, Hoang CD, Khan J, Guha U.
Roper N, et al.
Cell Rep Med. 2020 Apr 21;1(1):100007. doi: 10.1016/j.xcrm.2020.100007.
Cell Rep Med. 2020.
PMID: 32483558
Free PMC article.
Clinical Trial.
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Studying the History of Tumor Evolution from Single-Cell Sequencing Data by Exploring the Space of Binary Matrices.
Malikić S, Mehrabadi FR, Azer ES, Ebrahimabadi MH, Sahinalp SC.
Malikić S, et al. Among authors: mehrabadi fr.
J Comput Biol. 2021 Sep;28(9):857-879. doi: 10.1089/cmb.2020.0595. Epub 2021 Jul 22.
J Comput Biol. 2021.
PMID: 34297621
Free PMC article.
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Stochastic modelling of single-cell gene expression adaptation reveals non-genomic contribution to evolution of tumor subclones.
Hirsch MG, Pal S, Mehrabadi FR, Malikic S, Gruen C, Sassano A, Pérez-Guijarro E, Merlino G, Sahinalp C, Molloy EK, Day CP, Przytycka TM.
Hirsch MG, et al. Among authors: mehrabadi fr.
bioRxiv [Preprint]. 2024 Apr 20:2024.04.17.588869. doi: 10.1101/2024.04.17.588869.
bioRxiv. 2024.
PMID: 38712152
Free PMC article.
Preprint.
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Melanoma clonal subline analysis uncovers heterogeneity-driven immunotherapy resistance mechanisms.
Gruen C, Yang HH, Sassano A, Wu E, Gopalan V, Marie KL, Castro A, Mehrabadi FR, Wu CH, Church I, Needle GA, Smith C, Chin S, Ebersole J, Marcelus C, Fon A, Liu H, Malikic S, Sahinalp C, Carter H, Hannenhalli S, Day CP, Lee MP, Merlino G, Pérez-Guijarro E.
Gruen C, et al. Among authors: mehrabadi fr.
bioRxiv [Preprint]. 2023 Apr 5:2023.04.03.535074. doi: 10.1101/2023.04.03.535074.
bioRxiv. 2023.
PMID: 37333132
Free PMC article.
Preprint.
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PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data.
Malikic S, Mehrabadi FR, Ciccolella S, Rahman MK, Ricketts C, Haghshenas E, Seidman D, Hach F, Hajirasouliha I, Sahinalp SC.
Malikic S, et al. Among authors: mehrabadi fr.
Genome Res. 2019 Nov;29(11):1860-1877. doi: 10.1101/gr.234435.118. Epub 2019 Oct 18.
Genome Res. 2019.
PMID: 31628256
Free PMC article.
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