Publications
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The CD4 Versus CD8 T Cell Fate Decision: A Multiomics-Informed Perspective
Steier Z, Kim EJY, Aylard DA, Robey EA.
Annu Rev Immunol. 2024 Jun;42(1):235-258. Epub 2024 Jun 14. PMID: 38271641.
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Deep generative modeling of transcriptional dynamics for RNA velocity analysis in single cells
Gayoso A, Weiler P, Lotfollahi M, Klein D, Hong J, Streets A, Theis FJ, Yosef N.
Nat Methods. 2024 Jan;21(1):50-59. Epub 2023 Sep 21. PMID: 37735568; PMCID: PMC10776389.
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DestVI identifies continuums of cell types in spatial transcriptomics data
Lopez R, Li B, Keren-Shaul H, Boyeau P, Kedmi M, Pilzer D, Jelinski A, Yofe I, David E, Wagner A, Ergen C, Addadi Y, Golani O, Ronchese F, Jordan MI, Amit I, Yosef N.
Nat Biotechnol. 2022 Sep;40(9):1360-1369. Epub 2022 Apr 21. PMID: 35449415; PMCID: PMC9756396.
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Single-cell multiomic analysis of thymocyte development reveals drivers of CD4+ T cell and CD8+ T cell lineage commitment
Steier, Z., Aylard, D.A., McIntyre, L.L. et al.
Nat Immunol 24, 1579–1590 (2023).
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CXCR3 regulates stem and proliferative CD8+ T cells during chronic infection by promoting interactions with DCs in splenic bridging channels
Bangs DJ, Tsitsiklis A, Steier Z, Chan SW, Kaminski J, Streets A, Yosef N, Robey EA.
Cell Rep. 2022 Jan 18;38(3):110266.
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T cell self-reactivity during thymic development dictates the timing of positive selection
Lydia K Lutes, Zoë Steier, Laura L McIntyre, Shraddha Pandey, James Kaminski, Ashley R Hoover, Silvia Ariotti, Aaron Streets, Nir Yosef, Ellen A Robey (2021)
eLife 10:e65435
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Joint probabilistic modeling of single-cell multi-omic data with totalVI
Gayoso A, Steier Z, Lopez R, Regier J, Nazor KL, Streets A, Yosef N.
Nat Methods. 2021 Mar;18(3):272-282. Epub 2021 Feb 15. PMID: 33589839; PMCID: PMC7954949.
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Functional interpretation of single cell similarity maps
DeTomaso D, Jones MG, Subramaniam M, Ashuach T, Ye CJ, Yosef N.
Nat Commun. 2019 Sep 26;10(1):4376. PMID: 31558714; PMCID: PMC6763499.