Yingze Zhang



Alder, J.K., Sutton, R.M., Iasella, C.J., Nouraie, M., Koshy, R., Hannan, S.J., Chan, E.G., Chen, X., Zhang, Y., Brown, M., Popescu, I., Veatch, M., Saul, M., Berndt, A., Methe, B.A., Morris, A., Pilewski, J.M., Sanchez, P.G., Morrell, M.R., Shapiro, S.D., Lindell, K.O., Gibson, K.F., Kass, D.J., & McDyer, J.F. (2022). Lung transplantation for idiopathic pulmonary fibrosis enriches for individuals with telomere-mediated disease. JOURNAL OF HEART AND LUNG TRANSPLANTATION, 41(5), 654-663.Elsevier BV. doi: 10.1016/j.healun.2021.11.008.

Snyder, M.E., Bondonese, A., Craig, A., Popescu, I., Morrell, M.R., Myerburg, M.M., Iasella, C.J., Lendermon, E., Pilweski, J., Johnson, B., Kilaru, S., Zhang, Y., Bittar, H.E.T., Wang, X., Sanchez, P.G., Lakkis, F., & McDyer, J. (2022). Rate of recipient-derived alveolar macrophage development and major histocompatibility complex cross-decoration after lung transplantation in humans. AMERICAN JOURNAL OF TRANSPLANTATION, 22(2), 574-587.Wiley. doi: 10.1111/ajt.16812.

Bain, W., Yang, H., Shah, F.A., Suber, T., Drohan, C., Al-Yousif, N., DeSensi, R.S., Bensen, N., Schaefer, C., Rosborough, B.R., Somasundaram, A., Workman, C.J., Lampenfeld, C., Cillo, A.R., Cardello, C., Shan, F., Bruno, T.C., Vignali, D.A.A., Ray, P., Ray, A., Zhang, Y., Lee, J.S., Methe, B., McVerry, B.J., Morris, A., & Kitsios, G.D. (2021). COVID-19 versus Non-COVID-19 Acute Respiratory Distress Syndrome Comparison of Demographics, Physiologic Parameters, Inflammatory Biomarkers, and Clinical Outcomes. ANNALS OF THE AMERICAN THORACIC SOCIETY, 18(7), 1202-1210.American Thoracic Society. doi: 10.1513/AnnalsATS.202008-1026OC.

Chen, D., Gregory, A.D., Li, X., Wei, J., Burton, C.L., Gibson, G., Scott, S.J., St Croix, C.M., Zhang, Y., & Shapiro, S.D. (2021). RIP3-dependent necroptosis contributes to the pathogenesis of chronic obstructive pulmonary disease. JCI INSIGHT, 6(12).American Society for Clinical Investigation. doi: 10.1172/jci.insight.144689.

Cillo, A.R., Somasundaram, A., Shan, F., Cardello, C., Workman, C.J., Kitsios, G.D., Ruffin, A.T., Kunning, S., Lampenfeld, C., Onkar, S., Grebinoski, S., Deshmukh, G., Methe, B., Liu, C., Nambulli, S., Andrews, L.P., Duprex, W.P., Joglekar, A.V., Benos, P.V., Ray, P., Ray, A., McVerry, B.J., Zhang, Y., Lee, J.S., Das, J., Singh, H., Morris, A., Bruno, T.C., & Vignali, D.A.A. (2021). People critically ill with COVID-19 exhibit peripheral immune profiles predictive of mortality and reflective of SARS-CoV-2 lung viral burden. CELL REPORTS MEDICINE, 2(12), 100476.Elsevier BV. doi: 10.1016/j.xcrm.2021.100476.

Farooq, N., Chuan, B., Mahmud, H., El Khoudary, S.R., Nouraie, S.M., Evankovich, J., Yang, L., Dunlap, D., Bain, W., Kitsios, G., Zhang, Y., O'Donnell, C.P., McVerry, B.J., & Shah, F.A. (2021). Association of the systemic host immune response with acute hyperglycemia in mechanically ventilated septic patients. PLOS ONE, 16(3), e0248853.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0248853.

Iasella, C.J., Hoji, A., Popescu, I., Wei, J., Snyder, M.E., Zhang, Y., Xu, W., Iouchmanov, V., Koshy, R., Brown, M., Fung, M., Langelier, C., Lendermon, E.A., Dugger, D., Shah, R., Lee, J., Johnson, B., Golden, J., Leard, L.E., Ellen Kleinhenz, M., Kilaru, S., Hays, S.R., Singer, J.P., Sanchez, P.G., Morrell, M.R., Pilewski, J.M., Greenland, J.R., Chen, K., & McDyer, J.F. (2021). Type-1 immunity and endogenous immune regulators predominate in the airway transcriptome during chronic lung allograft dysfunction. AMERICAN JOURNAL OF TRANSPLANTATION, 21(6), 2145-2160.Wiley. doi: 10.1111/ajt.16360.

Kitsios, G.D., Kotok, D., Yang, H., Finkelman, M.A., Zhang, Y., Britton, N., Li, X., Levochkina, M.S., Wagner, A.K., Schaefer, C., Villandre, J.J., Guo, R., Evankovich, J.W., Bain, W., Shah, F., Zhang, Y., Methe, B.A., Benos, P.V., McVerry, B.J., & Morris, A. (2021). Plasma 1,3-beta-D-glucan levels predict adverse clinical outcomes in critical illness. JCI INSIGHT, 6(14).American Society for Clinical Investigation. doi: 10.1172/jci.insight.141277.

Kliment, C.R., Nguyen, J.M.K., Kaltreider, M.J., Lu, Y., Claypool, S.M., Radder, J.E., Sciurba, F.C., Zhang, Y., Gregory, A.D., Iglesias, P.A., Sidhaye, V.K., & Robinson, D.N. (2021). Adenine nucleotide translocase regulates airway epithelial metabolism, surface hydration and ciliary function. JOURNAL OF CELL SCIENCE, 134(4).The Company of Biologists. doi: 10.1242/jcs.257162.

Lai, Y., Li, X., Li, T., Nyunoya, T., Chen, K., Kitsios, G.D., Nouraie, S.M., Zhang, Y., McVerry, B.J., Lee, J.S., Mallampalli, R.K., & Zou, C. (2021). Endotoxin stabilizes protein arginine methyltransferase 4 (PRMT4) protein triggering death of lung epithelia. CELL DEATH & DISEASE, 12(9), 828.Springer Science and Business Media LLC. doi: 10.1038/s41419-021-04115-7.

Li, X., Goobie, G.C., & Zhang, Y. (2021). Toll-interacting protein impacts on inflammation, autophagy, and vacuole trafficking in human disease. J Mol Med (Berl), 99(1), 21-31.Springer Science and Business Media LLC. doi: 10.1007/s00109-020-01999-4.

Li, X., Goobie, G.C., Gregory, A.D., Kass, D.J., & Zhang, Y. (2021). Toll-Interacting Protein in Pulmonary Diseases Abiding by the Goldilocks Principle. AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY, 64(5), 536-546.American Thoracic Society. doi: 10.1165/rcmb.2020-0470TR.

Li, X., Montesi, S.B., & Zhang, Y. (2021). FKBP13: A New Player on the Block in Endoplasmic Reticulum Stress and Lung Fibrosis. Am J Respir Cell Mol Biol, 64(2), 161-162.American Thoracic Society. doi: 10.1165/rcmb.2020-0532ED.

Li, X., Noell, G., Tabib, T., Gregory, A.D., Trejo Bittar, H.E., Vats, R., Kaminski, T.W., Sembrat, J., Snyder, M.E., Chandra, D., Chen, K., Zou, C., Zhang, Y., Sundd, P., McDyer, J.F., Sciurba, F., Rojas, M., Lafyatis, R., Shapiro, S.D., Faner, R., & Nyunoya, T. (2021). Single cell RNA sequencing identifies IGFBP5 and QKI as ciliated epithelial cell genes associated with severe COPD. RESPIRATORY RESEARCH, 22(1), 100.Springer Science and Business Media LLC. doi: 10.1186/s12931-021-01675-2.

Mkorombindo, T., Tran-Nguyen, T.K., Yuan, K., Zhang, Y., Xue, J., Criner, G.J., Kim, Y.I., Pilewski, J.M., Gaggar, A., Cho, M.H., Sciurba, F.C., & Duncan, S.R. (2021). HLA-C and KIR permutations influence chronic obstructive pulmonary disease risk. JCI INSIGHT, 6(19).American Society for Clinical Investigation. doi: 10.1172/jci.insight.150187.

Pratte, K.A., Curtis, J.L., Kechris, K., Couper, D., Cho, M.H., Silverman, E.K., DeMeo, D.L., Sciurba, F.C., Zhang, Y., Ortega, V.E., O'Neal, W.K., Gillenwater, L.A., Lynch, D.A., Hoffman, E.A., Jr, N.J.D., Comellas, A.P., Castaldi, P.J., Miller, B.E., Pouwels, S.D., ten Hacken, N.H.T., Bischoff, R., Klont, F., Woodruff, P.G., Paine, R., Barr, R.G., Hoidal, J., Doerschuk, C.M., Charbonnier, J.P., Sung, R., Locantore, N., Yonchuk, J.G., Jacobson, S., Tal-singer, R., Merrill, D., & Bowler, R.P. (2021). Soluble receptor for advanced glycation end products (sRAGE) as a biomarker of COPD. RESPIRATORY RESEARCH, 22(1), 127.Springer Science and Business Media LLC. doi: 10.1186/s12931-021-01686-z.

So, S., Khalaf, A., Yi, X., Herring, C., Zhang, Y., Simon, M.A., Akcakaya, M., Lee, S., & Yun, M. (2021). Induced bioresistance via BNP detection for machine learning-based risk assessment. BIOSENSORS & BIOELECTRONICS, 175, 112903.Elsevier BV. doi: 10.1016/j.bios.2020.112903.

Sullivan, D.I., Jiang, M., Hinchie, A.M., Roth, M.G., Bahudhanapati, H., Nouraie, M., Liu, J., McDyer, J.F., Mallampalli, R.K., Zhang, Y., Kass, D.J., Finkel, T., & Alder, J.K. (2021). Transcriptional and Proteomic Characterization of Telomere-Induced Senescence in a Human Alveolar Epithelial Cell Line. FRONTIERS IN MEDICINE, 8, 600626.Frontiers Media SA. doi: 10.3389/fmed.2021.600626.

Toledo, F.G.S., Miller, R.G., Helbling, N.L., Zhang, Y., & DeLany, J.P. (2021). The effects of hydroxychloroquine on insulin sensitivity, insulin clearance and inflammation in insulin-resistant adults: A randomized trial. DIABETES OBESITY & METABOLISM, 23(6), 1252-1261.Wiley. doi: 10.1111/dom.14333.

Vukmirovic, M., Yan, X., Gibson, K.F., Gulati, M., Schupp, J.C., DeIuliis, G., Adams, T.S., Hu, B., Mihaljinec, A., Woolard, T.N., Lynn, H., Emeagwali, N., Herzog, E.L., Chen, E.S., Morris, A., Leader, J.K., Zhang, Y., Garcia, J.G.N., Maier, L.A., Collman, R.G., Drake, W.P., Becich, M.J., Hochheiser, H., Wisniewski, S.R., V. Benos, P., Moller, D.R., Prasse, A., Koth, L.L., Kaminski, N., & Investigators, G.R.A.D.S. (2021). Transcriptomics of bronchoalveolar lavage cells identifies new molecular endotypes of sarcoidosis. EUROPEAN RESPIRATORY JOURNAL, 58(6), 2002950.European Respiratory Society (ERS). doi: 10.1183/13993003.02950-2020.

Zhang, Y., Tedrow, J., Nouraie, M., Li, X., Chandra, D., Bon, J., Kass, D.J., Fuhrman, C.R., Leader, J.K., Duncan, S.R., Kaminski, N., & Sciurba, F.C. (2021). Elevated plasma level of Pentraxin 3 is associated with emphysema and mortality in smokers. THORAX, 76(4), 335-342.BMJ. doi: 10.1136/thoraxjnl-2020-215356.

Bain, W., Li, H., van der Geest, R., Moore, S.R., Olonisakin, T.F., Ahn, B., Papke, E., Moghbeli, K., DeSensi, R., Rapport, S., Saul, M., Hulver, M., Xiong, Z., Mallampalli, R.K., Ray, P., Morris, A., Ma, L., Doi, Y., Zhang, Y., Kitsios, G.D., Kulkarni, H.S., McVerry, B.J., Ferreira, V.P., Nouraie, M., & Lee, J.S. (2020). Increased Alternative Complement Pathway Function and Improved Survival during Critical Illness. AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 202(2), 230-240.American Thoracic Society. doi: 10.1164/rccm.201910-2083OC.

Caliskan, C., Seeliger, B., Jäger, B., Fuge, J., Welte, T., Terwolbeck, O., Freise, J., van Moorsel, C.H.M., Zhang, Y., & Prasse, A. (2020). Genetic Variation in CCL18 Gene Influences CCL18 Expression and Correlates with Survival in Idiopathic Pulmonary Fibrosis-Part B. J Clin Med, 9(6), 1993.MDPI AG. doi: 10.3390/jcm9061993.

Chen, T.Y., Li, X., Hung, C.H., Bahudhanapati, H., Tan, J., Kass, D.J., & Zhang, Y. (2020). The relaxin family peptide receptor 1 (RXFP1): An emerging player in human health and disease. MOLECULAR GENETICS & GENOMIC MEDICINE, 8(4), e1194.Wiley. doi: 10.1002/mgg3.1194.

Chen, Y.C., Lin, C.Y., Li, C.Y., Zhang, Y., Ko, W.C., & Ko, N.Y. (2020). Obstructive sleep apnea among HIV-infected men in the highly active antiretroviral therapy era: a nation-wide longitudinal cohort study in Taiwan, 2000-2011. Sleep Med, 65, 89-95.Elsevier BV. doi: 10.1016/j.sleep.2019.07.011.

Chuan, B., Guo, L., Cooper, B., Rawal, S., Gallego-Martin, T., Zhang, Y., McVerry, B.J., O'Donnell, C.P., & Shah, F.A. (2020). Physiologic Effects of Exogenous Dextrose in Murine Klebsiella pneumoniae Sepsis Vary by Route of Provision. NUTRIENTS, 12(10), 2901.MDPI AG. doi: 10.3390/nu12102901.

Goobie, G.C., Nouraie, M., Zhang, Y., Kass, D.J., Ryerson, C.J., Carlsten, C., & Johannson, K.A. (2020). Air Pollution and Interstitial Lung Diseases: Defining Epigenomic Effects. AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 202(9), 1217-1224.American Thoracic Society. doi: 10.1164/rccm.202003-0836PP.

Gordeuk, V.R., Shah, B.N., Zhang, X., Thuma, P.E., Zulu, S., Moono, R., Reading, N.S., Song, J., Zhang, Y., Nouraie, M., Campbell, A., Minniti, C.P., Rana, S.R., Darbari, D.S., Kato, G.J., Niu, M., Castro, O.L., Machado, R., Gladwin, M.T., & Prchal, J.T. (2020). TheCYB5R3 (c)(.350C>G)andG6PDA alleles modify severity of anemia in malaria and sickle cell disease. AMERICAN JOURNAL OF HEMATOLOGY, 95(11), 1269-1279.Wiley. doi: 10.1002/ajh.25941.

Kass, D.J., Nouraie, M., Glassberg, M.K., Ramreddy, N., Fernandez, K., Harlow, L., Zhang, Y., Chen, J., Kerr, G.S., Reimold, A.M., England, B.R., Mikuls, T.R., Gibson, K.F., Dellaripa, P.F., Rosas, I.O., Oddis, C.V., & Ascherman, D.P. (2020). Comparative Profiling of Serum Protein Biomarkers in Rheumatoid Arthritis-Associated Interstitial Lung Disease and Idiopathic Pulmonary Fibrosis. ARTHRITIS & RHEUMATOLOGY, 72(3), 409-419.Wiley. doi: 10.1002/art.41123.

Kuipers, A.L., Miljkovic, I., Barinas-Mitchell, E., Nestlerode, C.S., Cvejkus, R.K., Wheeler, V.W., Zhang, Y., & Zmuda, J.M. (2020). Wnt Pathway Gene Expression Is Associated With Arterial Stiffness. JOURNAL OF THE AMERICAN HEART ASSOCIATION, 9(3), e014170.Ovid Technologies (Wolters Kluwer Health). doi: 10.1161/JAHA.119.014170.

Li, X., Kim, S.E., Chen, T.Y., Wang, J., Yang, X., Tabib, T., Tan, J., Guo, B., Fung, S., Zhao, J., Sembrat, J., Rojas, M., Shiva, S., Lafyatis, R., St. Croix, C., Alder, J.K., Di, Y.P., Kass, D.J., & Zhang, Y. (2020). Toll interacting protein protects bronchial epithelial cells from bleomycin-induced apoptosis. FASEB JOURNAL, 34(8), 9884-9898.Wiley. doi: 10.1096/fj.201902636RR.

Liao, X., Li, Y., Liu, J., Zhang, Y., Tan, J., Kass, D.J., Rojas, M., Mallampalli, R.K., Zhao, J., & Zhao, Y. (2020). Deubiquitinase USP13 promotes extracellular matrix expression by stabilizing Smad4 in lung fibroblast cells. TRANSLATIONAL RESEARCH, 223, 15-24.Elsevier BV. doi: 10.1016/j.trsl.2020.05.004.

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Nouraie, M., Ashley-Koch, A.E., Garrett, M.E., Sritharan, N., Zhang, Y., Little, J., Gordeuk, V.R., Gladwin, M.T., Telen, M.J., & Kato, G.J. (2020). Serum albumin is independently associated with higher mortality in adult sickle cell patients: Results of three independent cohorts. PLOS ONE, 15(8), e0237543.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0237543.

Shah, F.A., Kitsios, G.D., Zhang, Y., Morris, A., Yende, S., Huang, D.T., O'Donnell, C.P., & McVerry, B.J. (2020). Rationale for and Design of the Study of Early Enteral Dextrose in Sepsis: A Pilot Placebo-Controlled Randomized Clinical Trial. JOURNAL OF PARENTERAL AND ENTERAL NUTRITION, 44(3), 541-547.Wiley. doi: 10.1002/jpen.1608.

Sun, W., Tang, Y., Tai, Y.Y., Handen, A., Zhao, J., Speyer, G., Al Aaraj, Y., Watson, A., Romanelli, M.E., Sembrat, J., Rojas, M., Simon, M.A., Zhang, Y., Lee, J., Xiong, Z., Dutta, P., Vasamsetti, S.B., McNamara, D., McVerry, B., McTiernan, C.F., Sciurba, F.C., Kim, S., Smith, K.A., Mazurek, J.A., Han, Y., Vaidya, A., Nouraie, S.M., Kelly, N.J., & Chan, S.Y. (2020). SCUBE1 Controls BMPR2-Relevant Pulmonary Endothelial Function Implications for Diagnostic Marker Development in Pulmonary Arterial Hypertension. JACC-BASIC TO TRANSLATIONAL SCIENCE, 5(11), 1073-1092.Elsevier BV. doi: 10.1016/j.jacbts.2020.08.010.

Tong, Y., Lear, T.B., Evankovich, J., Chen, Y., Londino, J.D., Myerburg, M.M., Zhang, Y., Popescu, I.D., McDyer, J.F., McVerry, B.J., Lockwood, K.C., Jurczak, M.J., Liu, Y., & Chen, B.B. (2020). The RNFT2/IL-3R alpha axis regulates IL-3 signaling and innate immunity. JCI INSIGHT, 5(3).American Society for Clinical Investigation. doi: 10.1172/jci.insight.133652.

Ware, S.A., Desai, N., Lopez, M., Leach, D., Zhang, Y., Giordano, L., Nouraie, M., Picard, M., & Kaufman, B.A. (2020). An automated, high-throughput methodology optimized for quantitative cell-free mitochondrial and nuclear DNA isolation from plasma. JOURNAL OF BIOLOGICAL CHEMISTRY, 295(46), 15677-15691.Elsevier BV. doi: 10.1074/jbc.RA120.015237.

Zhang, Y., Li, X., & Di, Y.P. (2020). Fast and Efficient Measurement of Clinical and Biological Samples Using Immunoassay-Based Multiplexing Systems. Methods Mol Biol, 2102, 129-147.Springer US. doi: 10.1007/978-1-0716-0223-2_6.

Bahudhanapati, H., Tan, J., Dutta, J.A., Strock, S.B., Sembrat, J., Alvarez, D., Rojas, M., Jaeger, B., Prasse, A., Zhang, Y., & Kass, D.J. (2019). MicroRNA-144-3p targets relaxin/insulin-like family peptide receptor 1 (RXFP1) expression in lung fibroblasts from patients with idiopathic pulmonary fibrosis. JOURNAL OF BIOLOGICAL CHEMISTRY, 294(13), 5008-5022.Elsevier BV. doi: 10.1074/jbc.RA118.004910.

Belmonte, F.R., Dedousis, N., Sipula, I., Desai, N.A., Singhi, A.D., Chu, Y., Zhang, Y., Bannwarth, S., Paquis-Flucklinger, V., Harrington, L., Shiva, S., Jurczak, M.J., O'Doherty, R.M., & Kaufman, B.A. (2019). Petite Integration Factor 1 (PIF1) helicase deficiency increases weight gain in Western diet-fed female mice without increased inflammatory markers or decreased glucose clearance. PLOS ONE, 14(5), e0203101.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0203101.

Chandra, D., Londino, J., Alexander, S., Bednash, J.S., Zhang, Y., Friedlander, R.M., Daskivich, G., Carlisle, D.L., Lariviere, W.R., Nakassa, A.C.I., Ross, M., St Croix, C., Nyunoya, T., Sciurba, F., Chen, B., & Mallampalli, R.K. (2019). The SCFFBXO3 ubiquitin E3 ligase regulates inflammation in atherosclerosis. JOURNAL OF MOLECULAR AND CELLULAR CARDIOLOGY, 126, 50-59.Elsevier BV. doi: 10.1016/j.yjmcc.2018.11.006.

D'Alessandro, A., Reisz, J.A., Zhang, Y., Gehrke, S., Alexander, K., Kanias, T., Triulzi, D.J., Donadee, C., Barge, S., Badlam, J., Jain, S., Risbano, M.G., & Gladwin, M.T. (2019). Effects of aged stored autologous red blood cells on human plasma metabolome. BLOOD ADVANCES, 3(6), 884-896.American Society of Hematology. doi: 10.1182/bloodadvances.2018029629.

Edmunds, L.R., Huckestein, B.R., Kahn, M., Zhang, D., Chu, Y., Zhang, Y., Wendell, S.G., Shulman, G.I., & Jurczak, M.J. (2019). Hepatic insulin sensitivity is improved in high-fat diet-fed Park2 knockout mice in association with increased hepatic AMPK activation and reduced steatosis. Physiol Rep, 7(21), e14281.Wiley. doi: 10.14814/phy2.14281.

Estephan, L.E., Genuardi, M.V., Kosanovich, C.M., Risbano, M.G., Zhang, Y., Petro, N., Watson, A., Al Aaraj, Y., Sembrat, J.C., Rojas, M., Goncharov, D.A., Simon, M.A., Goncharova, E.A., Vaidya, A., Smith, A., Mazurek, J., Han, Y., & Chan, S.Y. (2019). Distinct plasma gradients of microRNA-204 in the pulmonary circulation of patients suffering from WHO Groups I and II pulmonary hypertension. PULMONARY CIRCULATION, 9(2), 2045894019840646.Wiley. doi: 10.1177/2045894019840646.

Haak, A.J., Kostallari, E., Sicard, D., Ligresti, G., Choi, K.M., Caporarello, N., Jones, D.L., Tan, Q., Meridew, J., Espinosa, A.M.D., Aravamudhan, A., Maiers, J.L., Jr, B.R.D., Roden, A.C., Pabelick, C.M., Prakash, Y.S., Nouraie, S.M., Li, X., Zhang, Y., Kass, D.J., Lagares, D., Tager, A.M., Varelas, X., Shah, V.H., & Tschumperlin, D.J. (2019). Selective YAP/TAZ inhibition in fibroblasts via dopamine receptor D1 agonism reverses fibrosis. SCIENCE TRANSLATIONAL MEDICINE, 11(516).American Association for the Advancement of Science (AAAS). doi: 10.1126/scitranslmed.aau6296.

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