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Same-Slide Spatial Multi-Omics Integration Reveals Tumor Virus-Linked Spatial Reorganization of the Tumor Microenvironment.
Yeo YY, Chang Y, Qiu H, Yiu SPT, Michel HA, Wu W, Jin X, Kure S, Parmelee L, Luo S, Cramer P, Lee JL, Wang Y, Yeung J, Ahmar NE, Simsek B, Mohanna R, Van Orden M, Lu W, Livak KJ, Li S, Shahryari J, Kingsley L, Al-Humadi RN, Nasr S, Nkosi D, Sadigh S, Rock P, Frauenfeld L, Kaufmann L, Zhu B, Basak A, Dhanikonda N, Chan CN, Krull J, Cho YW, Chen CY, Lee JYJ, Wang H, Zhao B, Loo LH, Kim DM, Boussiotis V, Zhang B, Shalek AK, Howitt B, Signoretti S, Schürch CM, Hodi FS, Burack WR, Rodig SJ, Ma Q, Jiang S. Yeo YY, et al. Among authors: shalek ak. bioRxiv [Preprint]. 2024 Dec 22:2024.12.20.629650. doi: 10.1101/2024.12.20.629650. bioRxiv. 2024. PMID: 39764057 Free PMC article. Preprint.
High-dose intravenous BCG vaccination induces enhanced immune signaling in the airways.
Peters JM, Irvine EB, Makatsa MS, Rosenberg JM, Wadsworth MH 2nd, Hughes TK, Sutton MS, Nyquist SK, Bromley JD, Mondal R, Roederer M, Seder RA, Darrah PA, Alter G, Seshadri C, Flynn JL, Shalek AK, Fortune SM, Bryson BD. Peters JM, et al. Among authors: shalek ak. Sci Adv. 2025 Jan 3;11(1):eadq8229. doi: 10.1126/sciadv.adq8229. Epub 2025 Jan 1. Sci Adv. 2025. PMID: 39742484 Free PMC article.
Deep profiling deconstructs features associated with memory CD8+ T cell tissue residence.
Scott MC, Steier Z, Pierson MJ, Stolley JM, O'Flanagan SD, Soerens AG, Wijeyesinghe SP, Beura LK, Dileepan G, Burbach BJ, Künzli M, Quarnstrom CF, Ghirardelli Smith OC, Weyu E, Hamilton SE, Vezys V, Shalek AK, Masopust D. Scott MC, et al. Among authors: shalek ak. Immunity. 2024 Dec 20:S1074-7613(24)00522-3. doi: 10.1016/j.immuni.2024.11.007. Online ahead of print. Immunity. 2024. PMID: 39708817
scTrends: A living review of commercial single-cell and spatial 'omic technologies.
De Jonghe J, Opzoomer JW, Vilas-Zornoza A, Nilges BS, Crane P, Vicari M, Lee H, Lara-Astiaso D, Gross T, Morf J, Schneider K, Cudini J, Ramos-Mucci L, Mooijman D, Tiklová K, Salas SM, Langseth CM, Kashikar ND; scTrends Consortium; Schapiro D, Lundeberg J, Nilsson M, Shalek AK, Cribbs AP, Taylor-King JP. De Jonghe J, et al. Among authors: shalek ak. Cell Genom. 2024 Dec 11;4(12):100723. doi: 10.1016/j.xgen.2024.100723. Cell Genom. 2024. PMID: 39667347 Free PMC article. Review.
Congenital T cell activation impairs transitional to follicular B cell maturation in humans.
Allard-Chamard H, Hillier K, Ramseier ML, Bertocchi A, Kaneko N, Premo K, Yuen G, Karpel M, Mahajan VS, Tsekeri C, Hong JS, Vencic J, Sharda AV, Barmettler S, Westermann-Clark E, Walter JE, Ghebremichael M, Shalek AK, Farmer JR, Pillai S. Allard-Chamard H, et al. Among authors: shalek ak. Blood Adv. 2024 Dec 3:bloodadvances.2024013267. doi: 10.1182/bloodadvances.2024013267. Online ahead of print. Blood Adv. 2024. PMID: 39626280
The commitment of the human cell atlas to humanity.
Amit I, Ardlie K, Arzuaga F, Awandare G, Bader G, Bernier A, Carninci P, Donnelly S, Eils R, Forrest ARR, Greely HT, Guigo R, Hacohen N, Haniffa M, Kirby ES, Knoppers BM, Kriegstein A, Lein ES, Linnarsson S, Majumder PP, Merad M, Meyer K, Mhlanga MM, Nolan G, Ntusi NAB, Pe'er D, Prabhakar S, Raven-Adams M, Regev A, Rozenblatt-Rosen O, Saha S, Saltzman A, Shalek AK, Shin JW, Stunnenberg H, Teichmann SA, Tickle T, Villani AC, Wells C, Wold B, Yang H, Zhuang X. Amit I, et al. Among authors: shalek ak. Nat Commun. 2024 Nov 20;15(1):10019. doi: 10.1038/s41467-024-54306-x. Nat Commun. 2024. PMID: 39567491 Free PMC article. Review.
Scalable, compressed phenotypic screening using pooled perturbations.
Liu N, Kattan WE, Mead BE, Kummerlowe C, Cheng T, Ingabire S, Cheah JH, Soule CK, Vrcic A, McIninch JK, Triana S, Guzman M, Dao TT, Peters JM, Lowder KE, Crawford L, Amini AP, Blainey PC, Hahn WC, Cleary B, Bryson B, Winter PS, Raghavan S, Shalek AK. Liu N, et al. Among authors: shalek ak. Nat Biotechnol. 2024 Oct 7. doi: 10.1038/s41587-024-02403-z. Online ahead of print. Nat Biotechnol. 2024. PMID: 39375446
LAT encodes T cell activation pathway balance.
Rubin AJ, Dao TT, Schueppert AV, Regev A, Shalek AK. Rubin AJ, et al. Among authors: shalek ak. bioRxiv [Preprint]. 2024 Aug 26:2024.08.26.609683. doi: 10.1101/2024.08.26.609683. bioRxiv. 2024. PMID: 39253472 Free PMC article. Preprint.
194 results