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Lineage tracing reveals the phylodynamics, plasticity, and paths of tumor evolution.
Yang D, Jones MG, Naranjo S, Rideout WM 3rd, Min KHJ, Ho R, Wu W, Replogle JM, Page JL, Quinn JJ, Horns F, Qiu X, Chen MZ, Freed-Pastor WA, McGinnis CS, Patterson DM, Gartner ZJ, Chow ED, Bivona TG, Chan MM, Yosef N, Jacks T, Weissman JS. Yang D, et al. Among authors: min khj. Cell. 2022 May 26;185(11):1905-1923.e25. doi: 10.1016/j.cell.2022.04.015. Epub 2022 May 5. Cell. 2022. PMID: 35523183 Free PMC article.
Modular, efficient and constant-memory single-cell RNA-seq preprocessing.
Melsted P, Booeshaghi AS, Liu L, Gao F, Lu L, Min KHJ, da Veiga Beltrame E, Hjörleifsson KE, Gehring J, Pachter L. Melsted P, et al. Among authors: min khj. Nat Biotechnol. 2021 Jul;39(7):813-818. doi: 10.1038/s41587-021-00870-2. Epub 2021 Apr 1. Nat Biotechnol. 2021. PMID: 33795888
Quantifying orthogonal barcodes for sequence census assays.
Booeshaghi AS, Min KHJ, Gehring J, Pachter L. Booeshaghi AS, et al. Among authors: min khj. Bioinform Adv. 2023 Dec 20;4(1):vbad181. doi: 10.1093/bioadv/vbad181. eCollection 2024. Bioinform Adv. 2023. PMID: 38213823 Free PMC article.
Metadata retrieval from sequence databases with ffq.
Gálvez-Merchán Á, Min KHJ, Pachter L, Booeshaghi AS. Gálvez-Merchán Á, et al. Among authors: min khj. Bioinformatics. 2023 Jan 1;39(1):btac667. doi: 10.1093/bioinformatics/btac667. Bioinformatics. 2023. PMID: 36610997 Free PMC article.