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Bonora M, Morganti C, van Gastel N, Ito K, Calura E, Zanolla I, Ferroni L, Zhang Y, Jung Y, Sales G, Martini P, Nakamura T, Lasorsa FM, Finkel T, Lin CP, Zavan B, Pinton P, Georgakoudi I, Romualdi C, Scadden DT, Ito K. A mitochondrial NADPH-cholesterol axis regulates extracellular vesicle biogenesis to support hematopoietic stem cell fate. Cell Stem Cell. 2024 Mar 7;31(3):359-377.e10. doi: 10.1016/j.stem.2024.02.004. PubMed PMID: 38458178; PubMed Central PMCID: PMC10957094.
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Bonilla G, Morris A, Kundu S, Ducasse A, Jeffries NE, Chetal K, Yvanovich EE, Barghout R, Scadden D, Mansour MK, Kingston RE, Sykes DB, Mercier FE, Sadreyev RI. Leukemia aggressiveness is driven by chromatin remodeling and expression changes of core regulators. bioRxiv. 2024 Mar 4;. doi: 10.1101/2024.02.29.582846. PubMed PMID: 38496490; PubMed Central PMCID: PMC10942317.
Kim JW, Fedorov EA, Zon LI. G-CSF-induced hematopoietic stem cell mobilization from the embryonic hematopoietic niche does not require neutrophils and macrophages. Exp Hematol. 2024 Mar;131:104147. doi: 10.1016/j.exphem.2023.104147. Epub 2023 Dec 29. PubMed PMID: 38160994; PubMed Central PMCID: PMC10939783.
Mei S, Alchahin AM, Tsea I, Kfoury Y, Hirz T, Jeffries NE, Zhao T, Xu Y, Zhang H, Sarkar H, Wu S, Subtelny AO, Johnsen JI, Zhang Y, Salari K, Wu CL, Randolph MA, Scadden DT, Dahl DM, Shin J, Kharchenko PV, Saylor PJ, Sykes DB, Baryawno N. Single-cell analysis of immune and stroma cell remodeling in clear cell renal cell carcinoma primary tumors and bone metastatic lesions. Genome Med. 2024 Jan 29;16(1):1. doi: 10.1186/s13073-023-01272-6. PubMed PMID: 38281962; PubMed Central PMCID: PMC10823713.
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Bornhorst D, Gheller B, Zon LI. Colorimetric Barcoding to Track, Isolate, and Analyze Hematopoietic Stem Cell Clones. Methods Mol Biol. 2024;2707:265-277. doi: 10.1007/978-1-0716-3401-1_18. PubMed PMID: 37668919; PubMed Central PMCID: PMC10916503.
Rowbotham SP, Pessina P, Garcia-de-Alba C, Jensen J, Nguyen Y, Yoon J, Li J, Wong IG, Fahey C, Moye AL, Chongsaritsinsuk J, Bronson R, Ho Sui SJ, Kim CF. Age-associated H3K9me2 loss alters the regenerative equilibrium between murine lung alveolar and bronchiolar progenitors. Dev Cell. 2023 Dec 18;58(24):2974-2991.e6. doi: 10.1016/j.devcel.2023.10.011. Epub 2023 Nov 16. PubMed PMID: 37977149; PubMed Central PMCID: PMC10873032.
Miller PG, Sperling AS, Mayerhofer C, McConkey ME, Ellegast JM, Da Silva C, Cohen DN, Wang C, Sharda A, Yan N, Saha S, Schluter C, Schechter I, Słabicki M, Sandoval B, Kahn J, Boettcher S, Gibson CJ, Scadden DT, Stegmaier K, Bhatt S, Lindsley RC, Ebert BL. PPM1D modulates hematopoietic cell fitness and response to DNA damage and is a therapeutic target in myeloid malignancy. Blood. 2023 Dec 14;142(24):2079-2091. doi: 10.1182/blood.2023020331. PubMed PMID: 37595362; PubMed Central PMCID: PMC10733824.
Zhang S, Paccalet A, Rohde D, Cremer S, Hulsmans M, Lee IH, Mentkowski K, Grune J, Schloss MJ, Honold L, Iwamoto Y, Zheng Y, Bredella MA, Buckless C, Ghoshhajra B, Thondapu V, van der Laan AM, Piek JJ, Niessen HWM, Pallante F, Carnevale R, Perrotta S, Carnevale D, Iborra-Egea O, Muñoz-Guijosa C, Galvez-Monton C, Bayes-Genis A, Vidoudez C, Trauger SA, Scadden D, Swirski FK, Moskowitz MA, Naxerova K, Nahrendorf M. Bone marrow adipocytes fuel emergency hematopoiesis after myocardial infarction. Nat Cardiovasc Res. 2023 Dec;2(12):1277-1290. doi: 10.1038/s44161-023-00388-7. Epub 2023 Dec 5. PubMed PMID: 38344689; PubMed Central PMCID: PMC10857823.
Gustafsson K, Rhee C, Frodermann V, Scadden EW, Li D, Iwamoto Y, Palchaudhuri R, Hyzy SL, Boitano AE, Nahrendorf M, Scadden DT. Clearing and replacing tissue-resident myeloid cells with an anti-CD45 antibody-drug conjugate. Blood Adv. 2023 Nov 28;7(22):6964-6973. doi: 10.1182/bloodadvances.2023010561. PubMed PMID: 37748049; PubMed Central PMCID: PMC10690556.
Kfoury YS, Ji F, Jain E, Mazzola M, Schiroli G, Papazian A, Mercier F, Sykes DB, Kiem A, Randolph M, Calvi LM, Abdel-Wahab O, Sadreyev RI, Scadden DT. The bone marrow stroma in human myelodysplastic syndrome reveals alterations that regulate disease progression. Blood Adv. 2023 Nov 14;7(21):6608-6623. doi: 10.1182/bloodadvances.2022008268. PubMed PMID: 37450380; PubMed Central PMCID: PMC10628805.
Li L, Bowling S, McGeary SE, Yu Q, Lemke B, Alcedo K, Jia Y, Liu X, Ferreira M, Klein AM, Wang SW, Camargo FD. A mouse model with high clonal barcode diversity for joint lineage, transcriptomic, and epigenomic profiling in single cells. Cell. 2023 Nov 9;186(23):5183-5199.e22. doi: 10.1016/j.cell.2023.09.019. Epub 2023 Oct 17. PubMed PMID: 37852258.
Kooshesh KA, Gustafsson K, Scadden DT. Health Consequences of Thymus Removal in Adults. Reply. N Engl J Med. 2023 Nov 2;389(18):1726-1727. doi: 10.1056/NEJMc2310640. PubMed PMID: 37913517.
Gustafsson K, Rhee C, Frodermann V, Scadden EW, Li D, Iwamoto Y, Palchaudhuri R, Hyzy SL, Boitano AE, Nahrendorf M, Scadden DT. CD45-antibody-drug conjugate clears tissue resident myeloid cells from their niches enabling therapeutic adoptive cell transfer. bioRxiv. 2023 Sep 7;. doi: 10.1101/2023.09.05.556397. PubMed PMID: 37732224; PubMed Central PMCID: PMC10508759.
Schiroli G, Martha V, Duarte F, Kristiansen T, Meyerhofer C, Shrestha R, Earl A, Hu Y, Tay T, Rhee C, Buenrostro JD, Scadden DT. Cell of origin epigenetic priming determines susceptibility to Tet2 mutation. bioRx. 2023 September.
Rhee C, Scadden EW, Wong LP, Schiroli G, Mazzola MC, Chea PL, Kato H, Hoyer FF, Mistry M, Lee BK, Kim J, Nahrendorf M, Mansour MK, Sykes DB, Sadreyev RI, Scadden DT. Limited plasticity of monocyte fate and function associated with epigenetic scripting at the level of progenitors. Blood. 2023 Aug 17;142(7):658-674. doi: 10.1182/blood.2023020257. PubMed PMID: 37267513; PubMed Central PMCID: PMC10447620.
Kooshesh KA, Foy BH, Sykes DB, Gustafsson K, Scadden DT. Health Consequences of Thymus Removal in Adults. N Engl J Med. 2023 Aug 3;389(5):406-417. doi: 10.1056/NEJMoa2302892. PubMed PMID: 37530823; PubMed Central PMCID: PMC10557034.
Avagyan S, Zon LI. Clonal hematopoiesis and inflammation - the perpetual cycle. Trends Cell Biol. 2023 Aug;33(8):695-707. doi: 10.1016/j.tcb.2022.12.001. Epub 2022 Dec 31. Review. PubMed PMID: 36593155; PubMed Central PMCID: PMC10310890.
Hagedorn EJ, Perlin JR, Freeman RJ, Wattrus SJ, Han T, Mao C, Kim JW, Fernández-Maestre I, Daily ML, D'Amato C, Fairchild MJ, Riquelme R, Li B, Ragoonanan DAVE, Enkhbayar K, Henault EL, Wang HG, Redfield SE, Collins SH, Lichtig A, Yang S, Zhou Y, Kunar B, Gomez-Salinero JM, Dinh TT, Pan J, Holler K, Feldman HA, Butcher EC, van Oudenaarden A, Rafii S, Junker JP, Zon LI. Transcription factor induction of vascular blood stem cell niches in vivo. Dev Cell. 2023 Jun 19;58(12):1037-1051.e4. doi: 10.1016/j.devcel.2023.04.007. Epub 2023 Apr 28. PubMed PMID: 37119815; PubMed Central PMCID: PMC10330626.
Binder V, Li W, Faisal M, Oyman K, Calkins DL, Shaffer J, Teets EM, Sher S, Magnotte A, Belardo A, Deruelle W, Gregory TC, Orwick S, Hagedorn EJ, Perlin JR, Avagyan S, Lichtig A, Barrett F, Ammerman M, Yang S, Zhou Y, Carson WE, Shive HR, Blachly JS, Lapalombella R, Zon LI, Blaser BW. Microenvironmental control of hematopoietic stem cell fate via CXCL8 and protein kinase C. Cell Rep. 2023 May 30;42(5):112528. doi: 10.1016/j.celrep.2023.112528. Epub 2023 May 18. PubMed PMID: 37209097; PubMed Central PMCID: PMC10824047.
Sporrij A, Choudhuri A, Prasad M, Muhire B, Fast EM, Manning ME, Weiss JD, Koh M, Yang S, Kingston RE, Tolstorukov MY, Clevers H, Zon LI. PGE(2) alters chromatin through H2A.Z-variant enhancer nucleosome modification to promote hematopoietic stem cell fate. Proc Natl Acad Sci U S A. 2023 May 9;120(19):e2220613120. doi: 10.1073/pnas.2220613120. Epub 2023 May 1. PubMed PMID: 37126722; PubMed Central PMCID: PMC10175842.
Kawano Y, Kawano H, Ghoneim D, Fountaine TJ, Byun DK, LaMere MW, Mendler JH, Ho TC, Salama NA, Myers JR, Hussein SE, Frisch BJ, Ashton JM, Azadniv M, Liesveld JL, Kfoury Y, Scadden DT, Becker MW, Calvi LM. Myelodysplastic syndromes disable human CD271+VCAM1+CD146+ niches supporting normal hematopoietic stem/progenitor cells. bioRxiv. 2023 Apr 28;. doi: 10.1101/2023.04.09.536176. PubMed PMID: 37066307; PubMed Central PMCID: PMC10104201.
Koh CP, Bahirvani AG, Wang CQ, Yokomizo T, Ng CEL, Du L, Tergaonkar V, Voon DC, Kitamura H, Hosoi H, Sonoki T, Michelle MMH, Tan LJ, Niibori-Nambu A, Zhang Y, Perkins AS, Hossain Z, Tenen DG, Ito Y, Venkatesh B, Osato M. Highly efficient Runx1 enhancer eR1-mediated genetic engineering for fetal, child and adult hematopoietic stem cells. Gene. 2023 Jan 30;851:147049. doi: 10.1016/j.gene.2022.147049. Epub 2022 Nov 13. PubMed PMID: 36384171; PubMed Central PMCID: PMC10492510.
Haase C, Richter D, Lin CP. Laser Micromachining of Bone as a Tool for Studying Bone Marrow Biology. Methods Mol Biol. 2023;2567:163-180. doi: 10.1007/978-1-0716-2679-5_11. PubMed PMID: 36255701; PubMed Central PMCID: PMC10287113.
Kerr MD, McBride DA, Johnson WT, Chumber AK, Najibi AJ, Seo BR, Stafford AG, Scadden DT, Mooney DJ, Shah NJ. Immune-responsive biodegradable scaffolds for enhancing neutrophil regeneration. Bioeng Transl Med. 2023 Jan;8(1):e10309. doi: 10.1002/btm2.10309. eCollection 2023 Jan. PubMed PMID: 36684088; PubMed Central PMCID: PMC9842036.
Gustafsson K, Scadden DT. Isolation of Thymus Stromal Cells from Human and Murine Tissue. Methods Mol Biol. 2023;2567:191-201. doi: 10.1007/978-1-0716-2679-5_13. PubMed PMID: 36255703.
Haase C, Gustafsson K, Mei S, Yeh SC, Richter D, Milosevic J, Turcotte R, Kharchenko PV, Sykes DB, Scadden DT, Lin CP. Image-seq: spatially resolved single-cell sequencing guided by in situ and in vivo imaging. Nat Methods. 2022 Dec;19(12):1622-1633. doi: 10.1038/s41592-022-01673-2. Epub 2022 Nov 24. PubMed PMID: 36424441; PubMed Central PMCID: PMC9718684.
McAlpine CS, Kiss MG, Zuraikat FM, Cheek D, Schiroli G, Amatullah H, Huynh P, Bhatti MZ, Wong LP, Yates AG, Poller WC, Mindur JE, Chan CT, Janssen H, Downey J, Singh S, Sadreyev RI, Nahrendorf M, Jeffrey KL, Scadden DT, Naxerova K, St-Onge MP, Swirski FK. Sleep exerts lasting effects on hematopoietic stem cell function and diversity. J Exp Med. 2022 Nov 7;219(11). doi: 10.1084/jem.20220081. Epub 2022 Sep 21. PubMed PMID: 36129517; PubMed Central PMCID: PMC9499822.
Patel SB, Kuznetsova V, Matkins VR, Franceski AM, Bassal MA, Welner RS. Ex Vivo Expansion of Phenotypic and Transcriptomic Chronic Myeloid Leukemia Stem Cells. Exp Hematol. 2022 Nov;115:1-13. doi: 10.1016/j.exphem.2022.09.001. Epub 2022 Sep 15. PubMed PMID: 36115580.
Sankaran VG, Weissman JS, Zon LI. Cellular barcoding to decipher clonal dynamics in disease. Science. 2022 Oct 14;378(6616):eabm5874. doi: 10.1126/science.abm5874. Epub 2022 Oct 14. Review. PubMed PMID: 36227997; PubMed Central PMCID: PMC10111813.
Wattrus SJ, Smith ML, Rodrigues CP, Hagedorn EJ, Kim JW, Budnik B, Zon LI. Quality assurance of hematopoietic stem cells by macrophages determines stem cell clonality. Science. 2022 Sep 23;377(6613):1413-1419. doi: 10.1126/science.abo4837. Epub 2022 Sep 22. PubMed PMID: 36137040; PubMed Central PMCID: PMC9524573.
Zhao X, Bartholdy B, Yamamoto Y, Evans EK, Alberich-Jordà M, Staber PB, Benoukraf T, Zhang P, Zhang J, Trinh BQ, Crispino JD, Hoang T, Bassal MA, Tenen DG. PU.1-c-Jun interaction is crucial for PU.1 function in myeloid development. Commun Biol. 2022 Sep 14;5(1):961. doi: 10.1038/s42003-022-03888-7. PubMed PMID: 36104445; PubMed Central PMCID: PMC9474506.
Rubin SA, Baron CS, Pessoa Rodrigues C, Duran M, Corbin AF, Yang SP, Trapnell C, Zon LI. Single-cell analyses reveal early thymic progenitors and pre-B cells in zebrafish. J Exp Med. 2022 Sep 5;219(9). doi: 10.1084/jem.20220038. Epub 2022 Aug 8. PubMed PMID: 35938989; PubMed Central PMCID: PMC9365674.
Patel SB, Nemkov T, D'Alessandro A, Welner RS. Deciphering Metabolic Adaptability of Leukemic Stem Cells. Front Oncol. 2022;12:846149. doi: 10.3389/fonc.2022.846149. eCollection 2022. Review. PubMed PMID: 35756656; PubMed Central PMCID: PMC9213881.
Liu YC, Kwon J, Fabiani E, Xiao Z, Liu YV, Follo MY, Liu J, Huang H, Gao C, Liu J, Falconi G, Valentini L, Gurnari C, Finelli C, Cocco L, Liu JH, Jones AI, Yang J, Yang H, Thoms JAI, Unnikrishnan A, Pimanda JE, Pan R, Bassal MA, Voso MT, Tenen DG, Chai L. Demethylation and Up-Regulation of an Oncogene after Hypomethylating Therapy. N Engl J Med. 2022 May 26;386(21):1998-2010. doi: 10.1056/NEJMoa2119771. PubMed PMID: 35613022; PubMed Central PMCID: PMC9514878.
Louie SM, Moye AL, Wong IG, Lu E, Shehaj A, Garcia-de-Alba C, Ararat E, Raby BA, Lu B, Paschini M, Bronson RT, Kim CF. Progenitor potential of lung epithelial organoid cells in a transplantation model. Cell Rep. 2022 Apr 12;39(2):110662. doi: 10.1016/j.celrep.2022.110662. PubMed PMID: 35417699; PubMed Central PMCID: PMC9063850.
Teo WW, Cao X, Wu CS, Tan HK, Zhou Q, Gao C, Vanuytsel K, Kumar SS, Murphy GJ, Yang H, Chai L, Tenen DG. Non-coding RNA LEVER sequestration of PRC2 can mediate long range gene regulation. Commun Biol. 2022 Apr 11;5(1):343. doi: 10.1038/s42003-022-03250-x. PubMed PMID: 35411071; PubMed Central PMCID: PMC9001699.
Xia J, Liu ZY, Han ZY, Yuan Y, Shao Y, Feng XQ, Weitz DA. Regulation of cell attachment, spreading, and migration by hydrogel substrates with independently tunable mesh size. Acta Biomater. 2022 Mar 15;141:178-189. doi: 10.1016/j.actbio.2022.01.025. Epub 2022 Jan 15. PubMed PMID: 35041902; PubMed Central PMCID: PMC8898306.
Lobo de Figueiredo-Pontes L, Adamcova MK, Welner RS, Tenen DG, Alberich-Jorda M. Response to NK cell content does not seem to influence engraftment in ex vivo T cell depleted haploidentical stem cell transplantation. Stem Cell Reports. 2022 Mar 8;17(3):446-447. doi: 10.1016/j.stemcr.2022.02.007. PubMed PMID: 35263572; PubMed Central PMCID: PMC9039837.
Mishra S, Liu J, Chai L, Tenen DG. Diverse functions of long noncoding RNAs in acute myeloid leukemia: emerging roles in pathophysiology, prognosis, and treatment resistance. Curr Opin Hematol. 2022 Jan 1;29(1):34-43. doi: 10.1097/MOH.0000000000000692. Review. PubMed PMID: 34854833; PubMed Central PMCID: PMC8647777.
Kfoury YS, Ji F, Mazzola M, Sykes DB, Scherer AK, Anselmo A, Akiyama Y, Mercier F, Severe N, Kokkaliaris KD, Zhao T, Brouse T, Saez B, Seidl J, Papazian A, Ivanov P, Mansour MK, Sadreyev RI, Scadden DT. tiRNA signaling via stress-regulated vesicle transfer in the hematopoietic niche. Cell Stem Cell. 2021 Dec 2;28(12):2090-2103.e9. doi: 10.1016/j.stem.2021.08.014. Epub 2021 Sep 21. PubMed PMID: 34551362; PubMed Central PMCID: PMC8642285.
Patel SB, Nemkov T, Stefanoni D, Benavides GA, Bassal MA, Crown BL, Matkins VR, Camacho V, Kuznetsova V, Hoang AT, Tenen DE, Wolock SL, Park J, Ying L, Yue Z, Chen JY, Yang H, Tenen DG, Ferrell PB, Lu R, Darley-Usmar V, D'Alessandro A, Bhatia R, Welner RS. Metabolic alterations mediated by STAT3 promotes drug persistence in CML. Leukemia. 2021 Dec;35(12):3371-3382. doi: 10.1038/s41375-021-01315-0. Epub 2021 Jun 12. PubMed PMID: 34120146; PubMed Central PMCID: PMC8632690.
Kfoury Y, Baryawno N, Severe N, Mei S, Gustafsson K, Hirz T, Brouse T, Scadden EW, Igolkina AA, Kokkaliaris K, Choi BD, Barkas N, Randolph MA, Shin JH, Saylor PJ, Scadden DT, Sykes DB, Kharchenko PV. Human prostate cancer bone metastases have an actionable immunosuppressive microenvironment. Cancer Cell. 2021 Nov 8;39(11):1464-1478.e8. doi: 10.1016/j.ccell.2021.09.005. Epub 2021 Oct 15. PubMed PMID: 34719426; PubMed Central PMCID: PMC8578470.
Trinh BQ, Ummarino S, Zhang Y, Ebralidze AK, Bassal MA, Nguyen TM, Heller G, Coffey R, Tenen DE, van der Kouwe E, Fabiani E, Gurnari C, Wu CS, Angarica VE, Yang H, Chen S, Zhang H, Thurm AR, Marchi F, Levantini E, Staber PB, Zhang P, Voso MT, Pandolfi PP, Kobayashi SS, Chai L, Di Ruscio A, Tenen DG. Myeloid lncRNA LOUP mediates opposing regulatory effects of RUNX1 and RUNX1-ETO in t(8;21) AML. Blood. 2021 Oct 14;138(15):1331-1344. doi: 10.1182/blood.2020007920. PubMed PMID: 33971010; PubMed Central PMCID: PMC8525335.
van der Kouwe E, Heller G, Czibere A, Pulikkan JA, Agreiter C, Castilla LH, Delwel R, Di Ruscio A, Ebralidze AK, Forte M, Grebien F, Heyes E, Kazianka L, Klinger J, Kornauth C, Le T, Lind K, Barbosa IAM, Pemovska T, Pichler A, Schmolke AS, Schweicker CM, Sill H, Sperr WR, Spittler A, Surapally S, Trinh BQ, Valent P, Vanura K, Welner RS, Zuber J, Tenen DG, Staber PB. Core-binding factor leukemia hijacks the T-cell-prone PU.1 antisense promoter. Blood. 2021 Oct 14;138(15):1345-1358. doi: 10.1182/blood.2020008971. PubMed PMID: 34010414; PubMed Central PMCID: PMC8525333.
Kwon J, Liu YV, Gao C, Bassal MA, Jones AI, Yang J, Chen Z, Li Y, Yang H, Chen L, Di Ruscio A, Tay Y, Chai L, Tenen DG. Pseudogene-mediated DNA demethylation leads to oncogene activation. Sci Adv. 2021 Oct;7(40):eabg1695. doi: 10.1126/sciadv.abg1695. Epub 2021 Oct 1. PubMed PMID: 34597139; PubMed Central PMCID: PMC10938534.
Lobo de Figueiredo-Pontes L, Adamcova MK, Grusanovic S, Kuzmina M, Aparecida Lopes I, Fernandes de Oliveira Costa A, Zhang H, Strnad H, Lee S, Moudra A, Jonasova AT, Zidka M, Welner RS, Tenen DG, Alberich-Jorda M. Improved hematopoietic stem cell transplantation upon inhibition of natural killer cell-derived interferon-gamma. Stem Cell Reports. 2021 Aug 10;16(8):1999-2013. doi: 10.1016/j.stemcr.2021.06.008. Epub 2021 Jul 8. PubMed PMID: 34242616; PubMed Central PMCID: PMC8365098.
Wu JW, Jung Y, Yeh SA, Seo Y, Runnels JM, Burns CS, Mizoguchi T, Ito K, Spencer JA, Lin CP. Intravital fluorescence microscopy with negative contrast. PLoS One. 2021;16(8):e0255204. doi: 10.1371/journal.pone.0255204. eCollection 2021. PubMed PMID: 34351959; PubMed Central PMCID: PMC8341626.
Higa KC, Goodspeed A, Chavez JS, De Dominici M, Danis E, Zaberezhnyy V, Rabe JL, Tenen DG, Pietras EM, DeGregori J. Chronic interleukin-1 exposure triggers selection for Cebpa-knockout multipotent hematopoietic progenitors. J Exp Med. 2021 Jun 7;218(6). doi: 10.1084/jem.20200560. PubMed PMID: 33914855; PubMed Central PMCID: PMC8094119.
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