Publications

2022

Using social media to promote science.Iwasaki A. Nat Immunol. 2022 Jun 20; 2022 Jun 20. PMID: 35726062.
A humanized mouse model of chronic COVID-19.Sefik E, Israelow B, Mirza H, Zhao J, Qu R, Kaffe E, Song E, Halene S, Meffre E, Kluger Y, Nussenzweig M, Wilen CB, Iwasaki A, Flavell RA. Nat Biotechnol. 2022 Jun; 2021 Dec 17. PMID: 34921308.
Inflammasome activation in infected macrophages drives COVID-19 pathology.Sefik E, Qu R, Junqueira C, Kaffe E, Mirza H, Zhao J, Brewer JR, Han A, Steach HR, Israelow B, Blackburn HN, Velazquez SE, Chen YG, Halene S, Iwasaki A, Meffre E, Nussenzweig M, Lieberman J, Wilen CB, Kluger Y, Flavell RA. Nature. 2022 Jun; 2022 Apr 28. PMID: 35483404.
No evidence of fetal defects or anti-syncytin-1 antibody induction following COVID-19 mRNA vaccination.Lu-Culligan A, Tabachnikova A, Pérez-Then E, Tokuyama M, Lee HJ, Lucas C, Silva Monteiro V, Miric M, Brache V, Cochon L, Muenker MC, Mohanty S, Huang J, Kang I, Dela Cruz C, Farhadian S, Campbell M, Yildirim I, Shaw AC, Ma S, Vermund SH, Ko AI, Omer SB, Iwasaki A. PLoS Biol. 2022 May; 2022 May 24. PMID: 35609110.
APOBEC3A regulates transcription from interferon-stimulated response elements.Taura M, Frank JA, Takahashi T, Kong Y, Kudo E, Song E, Tokuyama M, Iwasaki A. Proc Natl Acad Sci U S A. 2022 May 17; 2022 May 12. PMID: 35549556.
SARS-CoV-2 variants do not evolve to promote further escape from MHC-I recognition.Moriyama M, Lucas C, Monteiro VS, Iwasaki A. bioRxiv. 2022 May 16; 2022 May 16. PMID: 35547852.
UVB-mediated DNA damage induces matrix metalloproteinases to promote photoaging in an AhR- and SP1-dependent manner.Kim DJ, Iwasaki A, Chien AL, Kang S. JCI Insight. 2022 May 9; 2022 May 9. PMID: 35316219.
Multiscale PHATE identifies multimodal signatures of COVID-19.Kuchroo M, Huang J, Wong P, Grenier JC, Shung D, Tong A, Lucas C, Klein J, Burkhardt DB, Gigante S, Godavarthi A, Rieck B, Israelow B, Simonov M, Mao T, Oh JE, Silva J, Takahashi T, Odio CD, Casanovas-Massana A, Fournier J, Farhadian S, Dela Cruz CS, Ko AI, Hirn MJ, Wilson FP, Hussin JG, Wolf G, Iwasaki A, Krishnaswamy S. Nat Biotechnol. 2022 May; 2022 Feb 28. PMID: 35228707.
Unexplained post-acute infection syndromes.Choutka J, Jansari V, Hornig M, Iwasaki A. Nat Med. 2022 May; 2022 May 18. PMID: 35585196.
Inflammasome activation in infected macrophages drives COVID-19 pathology.Sefik E, Qu R, Junqueira C, Kaffe E, Mirza H, Zhao J, Brewer JR, Han A, Steach HR, Israelow B, Blackburn HN, Velazquez S, Chen YG, Halene S, Iwasaki A, Meffre E, Nussenzweig M, Lieberman J, Wilen CB, Kluger Y, Flavell RA. bioRxiv. 2022 Apr 1; 2022 Apr 1. PMID: 34611663.
Inhalable polymer nanoparticles for versatile mRNA delivery and mucosal vaccination.Suberi A, Grun MK, Mao T, Israelow B, Reschke M, Grundler J, Akhtar L, Lee T, Shin K, Piotrowski-Daspit AS, Homer RJ, Iwasaki A, Suh HW, Saltzman WM. bioRxiv. 2022 Mar 23; 2022 Mar 23. PMID: 35350207.
De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: a case report.Gandhi S, Klein J, Robertson AJ, Peña-Hernández MA, Lin MJ, Roychoudhury P, Lu P, Fournier J, Ferguson D, Mohamed Bakhash SAK, Catherine Muenker M, Srivathsan A, Wunder EA Jr, Kerantzas N, Wang W, Lindenbach B, Pyle A, Wilen CB, Ogbuagu O, Greninger AL, Iwasaki A, Schulz WL, Ko AI. Nat Commun. 2022 Mar 17; 2022 Mar 17. PMID: 35301314.
A phase 2 evaluation of pembrolizumab for recurrent Lynch-like versus sporadic endometrial cancers with microsatellite instability.Bellone S, Roque DM, Siegel ER, Buza N, Hui P, Bonazzoli E, Guglielmi A, Zammataro L, Nagarkatti N, Zaidi S, Lee J, Silasi DA, Huang GS, Andikyan V, Damast S, Clark M, Azodi M, Schwartz PE, Tymon-Rosario JR, Harold JA, Mauricio D, Zeybek B, Menderes G, Altwerger G, Ratner E, Alexandrov LB, Iwasaki A, Kong Y, Song E, Dong W, Elvin JA, Choi J, Santin AD. Cancer. 2022 Mar 15; 2021 Dec 7. PMID: 34875107.
The immunology and immunopathology of COVID-19.Merad M, Blish CA, Sallusto F, Iwasaki A. Science. 2022 Mar 11; 2022 Mar 10. PMID: 35271343.
Gut microbiome dysbiosis during COVID-19 is associated with increased risk for bacteremia and microbial translocation.Venzon M, Bernard-Raichon L, Klein J, Axelrad JE, Zhang C, Hussey GA, Sullivan AP, Casanovas-Massana A, Noval MG, Valero-Jimenez AM, Gago J, Putzel G, Pironti A, Wilder E, Thorpe LE, Littman DR, Dittmann M, Stapleford KA, Shopsin B, Torres VJ, Ko AI, Iwasaki A, Cadwell K, Schluter J. bioRxiv. 2022 Mar 2; 2022 Mar 2. PMID: 35262080.
Neutralizing antibodies against the SARS-CoV-2 Delta and Omicron variants following heterologous CoronaVac plus BNT162b2 booster vaccination.Pérez-Then E, Lucas C, Monteiro VS, Miric M, Brache V, Cochon L, Vogels CBF, Malik AA, De la Cruz E, Jorge A, De Los Santos M, Leon P, Breban MI, Billig K, Yildirim I, Pearson C, Downing R, Gagnon E, Muyombwe A, Razeq J, Campbell M, Ko AI, Omer SB, Grubaugh ND, Vermund SH, Iwasaki A. Nat Med. 2022 Mar; 2022 Jan 20. PMID: 35051990.
Lack of association between pandemic chilblains and SARS-CoV-2 infection.Gehlhausen JR, Little AJ, Ko CJ, Emmenegger M, Lucas C, Wong P, Klein J, Lu P, Mao T, Jaycox J, Wang E, Ugwu N, Muenker C, Mekael D, Klein RQ, Patrignelli R, Antaya R, McNiff J, Damsky W, Kamath K, Shon J, Ring AM, Yildirim I, Omer S, Ko AI, Aguzzi A, Iwasaki A. Proc Natl Acad Sci U S A. 2022 Mar 1. PMID: 35217624.
Targeting stem-loop 1 of the SARS-CoV-2 5' UTR to suppress viral translation and Nsp1 evasion.Vora SM, Fontana P, Mao T, Leger V, Zhang Y, Fu TM, Lieberman J, Gehrke L, Shi M, Wang L, Iwasaki A, Wu H. Proc Natl Acad Sci U S A. 2022 Mar 1. PMID: 35149555.
Equity, diversity, and inclusion in academia: lessons from the Canadian Society of Immunology.Tejeira YV, Iwasaki A, Tye C. Trends Immunol. 2022 Mar; 2022 Jan 31. PMID: 35093304.
High-affinity, neutralizing antibodies to SARS-CoV-2 can be made without T follicular helper cells.Chen JS, Chow RD, Song E, Mao T, Israelow B, Kamath K, Bozekowski J, Haynes WA, Filler RB, Menasche BL, Wei J, Alfajaro MM, Song W, Peng L, Carter L, Weinstein JS, Gowthaman U, Chen S, Craft J, Shon JC, Iwasaki A, Wilen CB, Eisenbarth SC. Sci Immunol. 2022 Feb 4; 2022 Feb 4. PMID: 34914544.
Prognostic Significance of Urinary Biomarkers in Patients Hospitalized With COVID-19.Menez S, Moledina DG, Thiessen-Philbrook H, Wilson FP, Obeid W, Simonov M, Yamamoto Y, Corona-Villalobos CP, Chang C, Garibaldi BT, Clarke W, Farhadian S, Dela Cruz C, Coca SG, Parikh CR. Am J Kidney Dis. 2022 Feb; 2021 Oct 25. PMID: 34710516.
Impact of Chronic HIV Infection on SARS-CoV-2 Infection, COVID-19 Disease and Vaccines.Yang Y, Iwasaki A. Curr HIV/AIDS Rep. 2022 Feb; 2021 Nov 29. PMID: 34843064.
Longitudinal Immune Profiling of a Severe Acute Respiratory Syndrome Coronavirus 2 Reinfection in a Solid Organ Transplant Recipient.Klein J, Brito AF, Trubin P, Lu P, Wong P, Alpert T, Peña-Hernández MA, Haynes W, Kamath K, Liu F, Vogels CBF, Fauver JR, Lucas C, Oh J, Mao T, Silva J, Wyllie AL, Muenker MC, Casanovas-Massana A, Moore AJ, Petrone ME, Kalinich CC, Dela Cruz C, Farhadian S, Ring A, Shon J, Ko AI, Grubaugh ND, Israelow B, Iwasaki A, Azar MM. J Infect Dis. 2022 Feb 1. PMID: 34718647.
Prevention of host-to-host transmission by SARS-CoV-2 vaccines.Mostaghimi D, Valdez CN, Larson HT, Kalinich CC, Iwasaki A. Lancet Infect Dis. 2022 Feb; 2021 Sep 14. PMID: 34534512.
Unadjuvanted intranasal spike vaccine booster elicits robust protective mucosal immunity against sarbecoviruses.Mao T, Israelow B, Suberi A, Zhou L, Reschke M, Peña-Hernández MA, Dong H, Homer RJ, Saltzman WM, Iwasaki A. bioRxiv. 2022 Jan 26; 2022 Jan 26. PMID: 35118464.
Single-cell multi-omics reveals dyssynchrony of the innate and adaptive immune system in progressive COVID-19.Unterman A, Sumida TS, Nouri N, Yan X, Zhao AY, Gasque V, Schupp JC, Asashima H, Liu Y, Cosme C Jr, Deng W, Chen M, Raredon MSB, Hoehn KB, Wang G, Wang Z, DeIuliis G, Ravindra NG, Li N, Castaldi C, Wong P, Fournier J, Bermejo S, Sharma L, Casanovas-Massana A, Vogels CBF, Wyllie AL, Grubaugh ND, Melillo A, Meng H, Stein Y, Minasyan M, Mohanty S, Ruff WE, Cohen I, Raddassi K, Niklason LE, Ko AI, Montgomery RR, Farhadian SF, Iwasaki A, Shaw AC, van Dijk D, Zhao H, Kleinstein SH, Hafler DA, Kaminski N, Dela Cruz CS. Nat Commun. 2022 Jan 21; 2022 Jan 21. PMID: 35064122.
Development and utilization of a surrogate SARS-CoV-2 viral neutralization assay to assess mRNA vaccine responses.Wisnewski AV, Liu J, Lucas C, Klein J, Iwasaki A, Cantley L, Fazen L, Campillo Luna J, Slade M, Redlich CA. PLoS One. 2022; 2022 Jan 18. PMID: 35041700.
Mild respiratory SARS-CoV-2 infection can cause multi-lineage cellular dysregulation and myelin loss in the brain.Fernández-Castañeda A, Lu P, Geraghty AC, Song E, Lee MH, Wood J, Yalçın B, Taylor KR, Dutton S, Acosta-Alvarez L, Ni L, Contreras-Esquivel D, Gehlhausen JR, Klein J, Lucas C, Mao T, Silva J, Peña-Hernández MA, Tabachnikova A, Takahashi T, Tabacof L, Tosto-Mancuso J, Breyman E, Kontorovich A, McCarthy D, Quezado M, Hefti M, Perl D, Folkerth R, Putrino D, Nath A, Iwasaki A, Monje M. bioRxiv. 2022 Jan 10; 2022 Jan 10. PMID: 35043113.
A stem-loop RNA RIG-I agonist protects against acute and chronic SARS-CoV-2 infection in mice.Mao T, Israelow B, Lucas C, Vogels CBF, Gomez-Calvo ML, Fedorova O, Breban MI, Menasche BL, Dong H, Linehan M, Wilen CB, Landry ML, Grubaugh ND, Pyle AM, Iwasaki A. J Exp Med. 2022 Jan 3; 2021 Nov 10. PMID: 34757384.

2021

Endogenous Retroviruses Provide Protection Against Vaginal HSV-2 Disease.Jayewickreme R, Mao T, Philbrick W, Kong Y, Treger RS, Lu P, Rakib T, Dong H, Dang-Lawson M, Guild WA, Lau TJ, Iwasaki A, Tokuyama M. Front Immunol. 2021; 2022 Jan 4. PMID: 35058919.
Intranasal priming induces local lung-resident B cell populations that secrete protective mucosal antiviral IgA.Oh JE, Song E, Moriyama M, Wong P, Zhang S, Jiang R, Strohmeier S, Kleinstein SH, Krammer F, Iwasaki A. Sci Immunol. 2021 Dec 10; 2021 Dec 10. PMID: 34890255.
De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: A case report.Gandhi S, Klein J, Robertson A, Peña-Hernández MA, Lin MJ, Roychoudhury P, Lu P, Fournier J, Ferguson D, Mohamed Bakhash SA, Catherine Muenker M, Srivathsan A, Wunder EA, Kerantzas N, Wang W, Lindenbach B, Pyle A, Wilen CB, Ogbuagu O, Greninger AL, Iwasaki A, Schulz WL, Ko AI. medRxiv. 2021 Dec 7; 2021 Dec 7. PMID: 34909781.
Impact of circulating SARS-CoV-2 variants on mRNA vaccine-induced immunity.Lucas C, Vogels CBF, Yildirim I, Rothman JE, Lu P, Monteiro V, Gehlhausen JR, Campbell M, Silva J, Tabachnikova A, Peña-Hernandez MA, Muenker MC, Breban MI, Fauver JR, Mohanty S, Huang J, Shaw AC, Ko AI, Omer SB, Grubaugh ND, Iwasaki A. Nature. 2021 Dec; 2021 Oct 11. PMID: 34634791.
High-resolution epitope mapping and characterization of SARS-CoV-2 antibodies in large cohorts of subjects with COVID-19.Haynes WA, Kamath K, Bozekowski J, Baum-Jones E, Campbell M, Casanovas-Massana A, Daugherty PS, Dela Cruz CS, Dhal A, Farhadian SF, Fitzgibbons L, Fournier J, Jhatro M, Jordan G, Klein J, Lucas C, Kessler D, Luchsinger LL, Martinez B, Catherine Muenker M, Pischel L, Reifert J, Sawyer JR, Waitz R, Wunder EA Jr, Zhang M, Iwasaki A, Ko A, Shon JC. Commun Biol. 2021 Nov 22; 2021 Nov 22. PMID: 34811480.
Evolving A RIG-I Antagonist: A Modified DNA Aptamer Mimics Viral RNA.Ren X, Gelinas AD, Linehan M, Iwasaki A, Wang W, Janjic N, Pyle AM. J Mol Biol. 2021 Oct 15; 2021 Sep 3. PMID: 34487794.
Adaptive immune determinants of viral clearance and protection in mouse models of SARS-CoV-2.Israelow B, Mao T, Klein J, Song E, Menasche B, Omer SB, Iwasaki A. Sci Immunol. 2021 Oct 15; 2021 Sep 2. PMID: 34623900.
How COVID-19 has transformed my science.Iwasaki A. Neuron. 2021 Oct 6; 2021 Aug 6. PMID: 34363752.
KDM5B promotes immune evasion by recruiting SETDB1 to silence retroelements.Zhang SM, Cai WL, Liu X, Thakral D, Luo J, Chan LH, McGeary MK, Song E, Blenman KRM, Micevic G, Jessel S, Zhang Y, Yin M, Booth CJ, Jilaveanu LB, Damsky W, Sznol M, Kluger HM, Iwasaki A, Bosenberg MW, Yan Q. Nature. 2021 Oct; 2021 Oct 20. PMID: 34671158.
COVID-19 vaccines: Keeping pace with SARS-CoV-2 variants.Cevik M, Grubaugh ND, Iwasaki A, Openshaw P. Cell. 2021 Sep 30; 2021 Sep 17. PMID: 34534444.
Human Leukocyte Antigen Class I Deficiency in Gastric Carcinoma: An Adaptive Immune Evasion Strategy Most Common in Microsatellite Instable Tumors.Iwasaki A, Shinozaki-Ushiku A, Kunita A, Yamazawa S, Sato Y, Yamashita H, Fukayama M, Seto Y, Ushiku T. Am J Surg Pathol. 2021 Sep 1. PMID: 34310369.
Reply to: A finding of sex similarities rather than differences in COVID-19 outcomes.Takahashi T, Ellingson MK, Wong P, Israelow B, Lucas C, Klein J, Silva J, Mao T, Oh JE, Tokuyama M, Lu P, Venkataraman A, Park A, Liu F, Meir A, Sun J, Wang EY, Casanovas-Massana A, Wyllie AL, Vogels CBF, Earnest R, Lapidus S, Ott IM, Moore AJ, Shaw A, Fournier JB, Odio CD, Farhadian S, Dela Cruz C, Grubaugh ND, Schulz WL, Ring AM, Ko AI, Omer SB, Iwasaki A. Nature. 2021 Sep. PMID: 34552250.
Associations of SARS-CoV-2 serum IgG with occupation and demographics of military personnel.Zell J, Wisnewski AV, Liu J, Klein J, Lucas C, Slade M, Iwasaki A, Redlich CA. PLoS One. 2021; 2021 Aug 30. PMID: 34460832.
Challenges in interpreting cytokine data in COVID-19 affect patient care and management.Wang SY, Takahashi T, Pine AB, Damsky WE, Simonov M, Zhang Y, Kieras E, Price CC, King BA, Siegel MD, Desir GV, Lee AI, Iwasaki A, Chun HJ. PLoS Biol. 2021 Aug; 2021 Aug 6. PMID: 34358229.
Gut microbiome dysbiosis during COVID-19 is associated with increased risk for bacteremia and microbial translocation.Venzon M, Bernard-Raichon L, Klein J, Axelrad J, Hussey G, Sullivan A, Casanovas-Massana A, Noval M, Valero-Jimenez A, Gago J, Wilder E, Team YIR, Iwasaki A, Thorpe L, Littman D, Dittmann M, Stapleford K, Shopsin B, Torres V, Ko A, Cadwell K, Schluter J. Res Sq. 2021 Jul 27; 2021 Jul 27. PMID: 34341786.
Kynurenic acid may underlie sex-specific immune responses to COVID-19.Cai Y, Kim DJ, Takahashi T, Broadhurst DI, Yan H, Ma S, Rattray NJW, Casanovas-Massana A, Israelow B, Klein J, Lucas C, Mao T, Moore AJ, Muenker MC, Oh JE, Silva J, Wong P, Ko AI, Khan SA, Iwasaki A, Johnson CH. Sci Signal. 2021 Jul 6; 2021 Jul 6. PMID: 34230210.
Antibodies against human endogenous retrovirus K102 envelope activate neutrophils in systemic lupus erythematosus.Tokuyama M, Gunn BM, Venkataraman A, Kong Y, Kang I, Rakib T, Townsend MJ, Costenbader KH, Alter G, Iwasaki A. J Exp Med. 2021 Jul 5; 2021 May 21. PMID: 34019642.
Author Correction: Delayed production of neutralizing antibodies correlates with fatal COVID-19.Lucas C, Klein J, Sundaram ME, Liu F, Wong P, Silva J, Mao T, Oh JE, Mohanty S, Huang J, Tokuyama M, Lu P, Venkataraman A, Park A, Israelow B, Vogels CBF, Muenker MC, Chang CH, Casanovas-Massana A, Moore AJ, Zell J, Fournier JB, Wyllie AL, Campbell M, Lee AI, Chun HJ, Grubaugh ND, Schulz WL, Farhadian S, Dela Cruz C, Ring AM, Shaw AC, Wisnewski AV, Yildirim I, Ko AI, Omer SB, Iwasaki A. Nat Med. 2021 Jul. PMID: 34145437.
Delayed production of neutralizing antibodies correlates with fatal COVID-19.Lucas C, Klein J, Sundaram ME, Liu F, Wong P, Silva J, Mao T, Oh JE, Mohanty S, Huang J, Tokuyama M, Lu P, Venkataraman A, Park A, Israelow B, Vogels CBF, Muenker MC, Chang CH, Casanovas-Massana A, Moore AJ, Zell J, Fournier JB, Wyllie AL, Campbell M, Lee AI, Chun HJ, Grubaugh ND, Schulz WL, Farhadian S, Dela Cruz C, Ring AM, Shaw AC, Wisnewski AV, Yildirim I, Ko AI, Omer SB, Iwasaki A. Nat Med. 2021 Jul; 2021 May 5. PMID: 33953384.
Diverse functional autoantibodies in patients with COVID-19.Wang EY, Mao T, Klein J, Dai Y, Huck JD, Jaycox JR, Liu F, Zhou T, Israelow B, Wong P, Coppi A, Lucas C, Silva J, Oh JE, Song E, Perotti ES, Zheng NS, Fischer S, Campbell M, Fournier JB, Wyllie AL, Vogels CBF, Ott IM, Kalinich CC, Petrone ME, Watkins AE, Dela Cruz C, Farhadian SF, Schulz WL, Ma S, Grubaugh ND, Ko AI, Iwasaki A, Ring AM. Nature. 2021 Jul; 2021 May 19. PMID: 34010947.
A stem-loop RNA RIG-I agonist confers prophylactic and therapeutic protection against acute and chronic SARS-CoV-2 infection in mice.Mao T, Israelow B, Lucas C, Vogels CBF, Fedorova O, Breban MI, Menasche BL, Dong H, Linehan M, Wilen CB, Landry ML, Grubaugh ND, Pyle AM, Iwasaki A. bioRxiv. 2021 Jun 17; 2021 Jun 17. PMID: 34159330.
Generating hard-to-obtain information from easy-to-obtain information: Applications in drug discovery and clinical inference.Amodio M, Shung D, Burkhardt DB, Wong P, Simonov M, Yamamoto Y, van Dijk D, Wilson FP, Iwasaki A, Krishnaswamy S. Patterns (N Y). 2021 Jul 9; 2021 Jun 17. PMID: 34286302.
Adaptive immune determinants of viral clearance and protection in mouse models of SARS-CoV-2.Israelow B, Mao T, Klein J, Song E, Menasche B, Omer SB, Iwasaki A. bioRxiv. 2021 May 19; 2021 May 19. PMID: 34031656.
Divergent and self-reactive immune responses in the CNS of COVID-19 patients with neurological symptoms.Song E, Bartley CM, Chow RD, Ngo TT, Jiang R, Zamecnik CR, Dandekar R, Loudermilk RP, Dai Y, Liu F, Sunshine S, Liu J, Wu W, Hawes IA, Alvarenga BD, Huynh T, McAlpine L, Rahman NT, Geng B, Chiarella J, Goldman-Israelow B, Vogels CBF, Grubaugh ND, Casanovas-Massana A, Phinney BS, Salemi M, Alexander JR, Gallego JA, Lencz T, Walsh H, Wapniarski AE, Mohanty S, Lucas C, Klein J, Mao T, Oh J, Ring A, Spudich S, Ko AI, Kleinstein SH, Pak J, DeRisi JL, Iwasaki A, Pleasure SJ, Wilson MR, Farhadian SF. Cell Rep Med. 2021 May 18; 2021 May 3. PMID: 33969321.
Maternal respiratory SARS-CoV-2 infection in pregnancy is associated with a robust inflammatory response at the maternal-fetal interface.Lu-Culligan A, Chavan AR, Vijayakumar P, Irshaid L, Courchaine EM, Milano KM, Tang Z, Pope SD, Song E, Vogels CBF, Lu-Culligan WJ, Campbell KH, Casanovas-Massana A, Bermejo S, Toothaker JM, Lee HJ, Liu F, Schulz W, Fournier J, Muenker MC, Moore AJ, Konnikova L, Neugebauer KM, Ring A, Grubaugh ND, Ko AI, Morotti R, Guller S, Kliman HJ, Iwasaki A, Farhadian SF. Med (N Y). 2021 May 14; 2021 Apr 30. PMID: 33969332.
Investigate the origins of COVID-19.Bloom JD, Chan YA, Baric RS, Bjorkman PJ, Cobey S, Deverman BE, Fisman DN, Gupta R, Iwasaki A, Lipsitch M, Medzhitov R, Neher RA, Nielsen R, Patterson N, Stearns T, van Nimwegen E, Worobey M, Relman DA. Science. 2021 May 14. PMID: 33986172.
Plasmodium infection induces cross-reactive antibodies to carbohydrate epitopes on the SARS-CoV-2 Spike protein.Lapidus S, Liu F, Casanovas-Massana A, Dai Y, Huck JD, Lucas C, Klein J, Filler RB, Strine MS, Sy M, Deme AB, Badiane AS, Dieye B, Ndiaye IM, Diedhiou Y, Mbaye AM, Diagne CT, Vigan-Womas I, Mbengue A, Sadio BD, Diagne MM, Moore AJ, Mangou K, Diallo F, Sene SD, Pouye MN, Faye R, Diouf B, Nery N, Costa F, Reis M, Muenker MC, Hodson DZ, Mbarga Y, Katz BZ, Andrews JR, Campbell M, Srivathsan A, Kamath K, Baum-Jones E, Faye O, Sall AA, Vélez JCQ, Cappello M, Wilson M, Ben-Mamoun C, Somé FA, Dabiré RK, Moukoko CEE, Ouédraogo JB, Boum Y, Shon J, Ndiaye D, Wisnewski A, Parikh S, Iwasaki A, Wilen CB, Ko AI, Ring AM, Bei AK. medRxiv. 2021 May 12; 2021 May 12. PMID: 34013301.
Longitudinal immune profiling of a SARS-CoV-2 reinfection in a solid organ transplant recipient.Klein J, Brito A, Trubin P, Lu P, Wong P, Alpert T, Pena-Hernandez M, Haynes W, Kamath K, Liu F, Vogels C, Fauver J, Lucas C, Oh JE, Mao T, Silva J, Wyllie A, Muenker MC, Casanovas-Massana A, Moore A, Petrone M, Kalinich C, Cruz CD, Farhadian S, Ring A, Shon J, Ko A, Grubaugh N, Goldman-Israelow B, Iwasaki A, Azar M. Res Sq. 2021 May 5; 2021 May 5. PMID: 34013255.
B cells join T cell clusters in the host response to recurrent herpes simplex virus 2 infection.Gehlhausen JR, Iwasaki A. J Clin Invest. 2021 May 3. PMID: 33938452.
Increased SARS-CoV-2 Testing Capacity with Pooled Saliva Samples.Watkins AE, Fenichel EP, Weinberger DM, Vogels CBF, Brackney DE, Casanovas-Massana A, Campbell M, Fournier J, Bermejo S, Datta R, Dela Cruz CS, Farhadian SF, Iwasaki A, Ko AI, Grubaugh ND, Wyllie AL. Emerg Infect Dis. 2021 Apr. PMID: 33755009.
Stability of SARS-CoV-2 RNA in Nonsupplemented Saliva.Ott IM, Strine MS, Watkins AE, Boot M, Kalinich CC, Harden CA, Vogels CBF, Casanovas-Massana A, Moore AJ, Muenker MC, Nakahata M, Tokuyama M, Nelson A, Fournier J, Bermejo S, Campbell M, Datta R, Dela Cruz CS, Farhadian SF, Ko AI, Iwasaki A, Grubaugh ND, Wilen CB, Wyllie AL. Emerg Infect Dis. 2021 Apr. PMID: 33754989.
The first 12 months of COVID-19: a timeline of immunological insights.Carvalho T, Krammer F, Iwasaki A. Nat Rev Immunol. 2021 Apr; 2021 Mar 15. PMID: 33723416.
Clinical characteristics and outcomes for 7,995 patients with SARS-CoV-2 infection.McPadden J, Warner F, Young HP, Hurley NC, Pulk RA, Singh A, Durant TJS, Gong G, Desai N, Haimovich A, Taylor RA, Gunel M, Dela Cruz CS, Farhadian SF, Siner J, Villanueva M, Churchwell K, Hsiao A, Torre CJ Jr, Velazquez EJ, Herbst RS, Iwasaki A, Ko AI, Mortazavi BJ, Krumholz HM, Schulz WL. PLoS One. 2021; 2021 Mar 31. PMID: 33788846.
Case Study: Longitudinal immune profiling of a SARS-CoV-2 reinfection in a solid organ transplant recipient.Klein J, Brito AF, Trubin P, Lu P, Wong P, Alpert T, Peña-Hernández MA, Haynes W, Kamath K, Liu F, Vogels CBF, Fauver JR, Lucas C, Oh J, Mao T, Silva J, Wyllie AL, Muenker MC, Casanovas-Massana A, Moore AJ, Petrone ME, Kalinich CC, Cruz CD, Farhadian S, Ring A, Shon J, Ko AI, Grubaugh ND, Israelow B, Iwasaki A, Azar MM. medRxiv. 2021 Mar 26; 2021 Mar 26. PMID: 33791729.
Single-cell longitudinal analysis of SARS-CoV-2 infection in human airway epithelium identifies target cells, alterations in gene expression, and cell state changes.Ravindra NG, Alfajaro MM, Gasque V, Huston NC, Wan H, Szigeti-Buck K, Yasumoto Y, Greaney AM, Habet V, Chow RD, Chen JS, Wei J, Filler RB, Wang B, Wang G, Niklason LE, Montgomery RR, Eisenbarth SC, Chen S, Williams A, Iwasaki A, Horvath TL, Foxman EF, Pierce RW, Pyle AM, van Dijk D, Wilen CB. PLoS Biol. 2021 Mar; 2021 Mar 17. PMID: 33730024.
A humanized mouse model of chronic COVID-19 to evaluate disease mechanisms and treatment options.Sefik E, Israelow B, Zhao J, Qu R, Song E, Mirza H, Kaffe E, Halene S, Meffre E, Kluger Y, Nussenzweig M, Wilen C, Iwasaki A, Flavell RA. Res Sq. 2021 Mar 17; 2021 Mar 17. PMID: 33758831.
SalivaDirect: A simplified and flexible platform to enhance SARS-CoV-2 testing capacity.Vogels CBF, Watkins AE, Harden CA, Brackney DE, Shafer J, Wang J, Caraballo C, Kalinich CC, Ott IM, Fauver JR, Kudo E, Lu P, Venkataraman A, Tokuyama M, Moore AJ, Muenker MC, Casanovas-Massana A, Fournier J, Bermejo S, Campbell M, Datta R, Nelson A, Dela Cruz CS, Ko AI, Iwasaki A, Krumholz HM, Matheus JD, Hui P, Liu C, Farhadian SF, Sikka R, Wyllie AL, Grubaugh ND. Med (N Y). 2021 Mar 12; 2020 Dec 26. PMID: 33521748.
Tracking smell loss to identify healthcare workers with SARS-CoV-2 infection.Weiss JJ, Attuquayefio TN, White EB, Li F, Herz RS, White TL, Campbell M, Geng B, Datta R, Wyllie AL, Grubaugh ND, Casanovas-Massana A, Muenker MC, Moore AJ, Handoko R, Iwasaki A, Martinello RA, Ko AI, Small DM, Farhadian SF. PLoS One. 2021; 2021 Mar 3. PMID: 33657167.
Neuroinvasion of SARS-CoV-2 in human and mouse brain.Song E, Zhang C, Israelow B, Lu-Culligan A, Prado AV, Skriabine S, Lu P, Weizman OE, Liu F, Dai Y, Szigeti-Buck K, Yasumoto Y, Wang G, Castaldi C, Heltke J, Ng E, Wheeler J, Alfajaro MM, Levavasseur E, Fontes B, Ravindra NG, Van Dijk D, Mane S, Gunel M, Ring A, Kazmi SAJ, Zhang K, Wilen CB, Horvath TL, Plu I, Haik S, Thomas JL, Louvi A, Farhadian SF, Huttner A, Seilhean D, Renier N, Bilguvar K, Iwasaki A. J Exp Med. 2021 Mar 1. PMID: 33433624.
Diverse Functional Autoantibodies in Patients with COVID-19.Wang EY, Mao T, Klein J, Dai Y, Huck JD, Liu F, Zheng NS, Zhou T, Israelow B, Wong P, Lucas C, Silva J, Oh JE, Song E, Perotti ES, Fischer S, Campbell M, Fournier JB, Wyllie AL, Vogels CBF, Ott IM, Kalinich CC, Petrone ME, Watkins AE, Cruz CD, Farhadian SF, Schulz WL, Grubaugh ND, Ko AI, Iwasaki A, Ring AM. medRxiv. 2021 Feb 1; 2021 Feb 1. PMID: 33330894.
Publisher Correction: VEGF-C-driven lymphatic drainage enables immunosurveillance of brain tumours.Song E, Mao T, Dong H, Boisserand LSB, Antila S, Bosenberg M, Alitalo K, Thomas JL, Iwasaki A. Nature. 2021 Feb. PMID: 33500588.
SARS-CoV-2 infection in pregnancy is associated with robust inflammatory response at the maternal-fetal interface.Lu-Culligan A, Chavan AR, Vijayakumar P, Irshaid L, Courchaine EM, Milano KM, Tang Z, Pope SD, Song E, Vogels CBF, Lu-Culligan WJ, Campbell KH, Casanovas-Massana A, Bermejo S, Toothaker JM, Lee HJ, Liu F, Schulz W, Fournier J, Muenker MC, Moore AJ, Konnikova L, Neugebauer KM, Ring A, Grubaugh ND, Ko AI, Morotti R, Guller S, Kliman HJ, Iwasaki A, Farhadian SF. medRxiv. 2021 Jan 26; 2021 Jan 26. PMID: 33532791.
Sex differences in immune responses.Takahashi T, Iwasaki A. Science. 2021 Jan 22. PMID: 33479140.
Saliva viral load is a dynamic unifying correlate of COVID-19 severity and mortality.Silva J, Lucas C, Sundaram M, Israelow B, Wong P, Klein J, Tokuyama M, Lu P, Venkataraman A, Liu F, Mao T, Oh JE, Park A, Casanovas-Massana A, Vogels CBF, Muenker CM, Zell J, Fournier JB, Campbell M, Chiorazzi M, Ruiz Fuentes E, Petrone M, Kalinich CC, Ott IM, Watkins A, Moore AJ, Nakahata MI, Grubaugh ND, Farhadian S, Dela Cruz C, Ko A, Schulz WL, Ring AM, Ma S, Omer S, Wyllie AL, Iwasaki A. medRxiv. 2021 Jan 10; 2021 Jan 10. PMID: 33442706.
What reinfections mean for COVID-19.Iwasaki A. Lancet Infect Dis. 2021 Jan; 2020 Oct 12. PMID: 33058796.

2020

Kinetics of antibody responses dictate COVID-19 outcome.Lucas C, Klein J, Sundaram M, Liu F, Wong P, Silva J, Mao T, Oh JE, Tokuyama M, Lu P, Venkataraman A, Park A, Israelow B, Wyllie AL, Vogels CBF, Muenker MC, Casanovas-Massana A, Schulz WL, Zell J, Campbell M, Fournier JB, Grubaugh ND, Farhadian S, Wisnewski AV, Cruz CD, Omer S, Ko AI, Ring A, Iwasaki A. medRxiv. 2020 Dec 22; 2020 Dec 22. PMID: 33398304.
The Global Response to the COVID-19 Pandemic.Nkengasong J, Iwasaki A, Victora C, Oh J, Gao GF, Agrawal A, Drosten C, Söderberg-Naucler C, López-Collazo E, Pollock AM, Viola A, Baker M. Med (N Y). 2020 Dec 18. PMID: 33363282.
Exploratory neuroimmune profiling identifies CNS-specific alterations in COVID-19 patients with neurological involvement.Song E, Bartley CM, Chow RD, Ngo TT, Jiang R, Zamecnik CR, Dandekar R, Loudermilk RP, Dai Y, Liu F, Hawes IA, Alvarenga BD, Huynh T, McAlpine L, Rahman NT, Geng B, Chiarella J, Goldman-Israelow B, Vogels CBF, Grubaugh ND, Casanovas-Massana A, Phinney BS, Salemi M, Alexander J, Gallego JA, Lencz T, Walsh H, Lucas C, Klein J, Mao T, Oh J, Ring A, Spudich S, Ko AI, Kleinstein SH, DeRisi JL, Iwasaki A, Pleasure SJ, Wilson MR, Farhadian SF. bioRxiv. 2020 Dec 9; 2020 Dec 9. PMID: 32935102.
Mouse model of SARS-CoV-2 reveals inflammatory role of type I interferon signaling.Israelow B, Song E, Mao T, Lu P, Meir A, Liu F, Alfajaro MM, Wei J, Dong H, Homer RJ, Ring A, Wilen CB, Iwasaki A. J Exp Med. 2020 Dec 7. PMID: 32750141.
Sex differences in immune responses that underlie COVID-19 disease outcomes.Takahashi T, Ellingson MK, Wong P, Israelow B, Lucas C, Klein J, Silva J, Mao T, Oh JE, Tokuyama M, Lu P, Venkataraman A, Park A, Liu F, Meir A, Sun J, Wang EY, Casanovas-Massana A, Wyllie AL, Vogels CBF, Earnest R, Lapidus S, Ott IM, Moore AJ, Shaw A, Fournier JB, Odio CD, Farhadian S, Dela Cruz C, Grubaugh ND, Schulz WL, Ring AM, Ko AI, Omer SB, Iwasaki A. Nature. 2020 Dec; 2020 Aug 26. PMID: 32846427.
Commensal Microbiota Modulation of Natural Resistance to Virus Infection.Stefan KL, Kim MV, Iwasaki A, Kasper DL. Cell. 2020 Nov 25; 2020 Nov 18. PMID: 33212011.
Clinical Characteristics and Outcomes for 7,995 Patients with SARS-CoV-2 Infection.McPadden J, Warner F, Young HP, Hurley NC, Pulk RA, Singh A, Durant TJ, Gong G, Desai N, Haimovich A, Taylor RA, Gunel M, Cruz CSD, Farhadian SF, Siner J, Villanueva M, Churchwell K, Hsiao A, Torre CJ Jr, Velazquez EJ, Herbst RS, Iwasaki A, Ko AI, Mortazavi BJ, Krumholz HM, Schulz WL. medRxiv. 2020 Nov 8; 2020 Nov 8. PMID: 32743602.
Interferon deficiency can lead to severe COVID.Meffre E, Iwasaki A. Nature. 2020 Nov. PMID: 33139913.
RUNX Binding Sites Are Enriched in Herpesvirus Genomes, and RUNX1 Overexpression Leads to Herpes Simplex Virus 1 Suppression.Kim DJ, Khoury-Hanold W, Jain PC, Klein J, Kong Y, Pope SD, Ge W, Medzhitov R, Iwasaki A. J Virol. 2020 Oct 27; 2020 Oct 27. PMID: 32878886.
Why and How Vaccines Work.Iwasaki A, Omer SB. Cell. 2020 Oct 15. PMID: 33064982.
Detection of SARS-CoV-2 RNA by multiplex RT-qPCR.Kudo E, Israelow B, Vogels CBF, Lu P, Wyllie AL, Tokuyama M, Venkataraman A, Brackney DE, Ott IM, Petrone ME, Earnest R, Lapidus S, Muenker MC, Moore AJ, Casanovas-Massana A, Omer SB, Dela Cruz CS, Farhadian SF, Ko AI, Grubaugh ND, Iwasaki A. PLoS Biol. 2020 Oct; 2020 Oct 7. PMID: 33027248.
The Role of Immune Factors in Shaping Fetal Neurodevelopment.Lu-Culligan A, Iwasaki A. Annu Rev Cell Dev Biol. 2020 Oct 6; 2020 Jul 28. PMID: 32722920.
Analytical sensitivity and efficiency comparisons of SARS-CoV-2 RT-qPCR primer-probe sets.Vogels CBF, Brito AF, Wyllie AL, Fauver JR, Ott IM, Kalinich CC, Petrone ME, Casanovas-Massana A, Catherine Muenker M, Moore AJ, Klein J, Lu P, Lu-Culligan A, Jiang X, Kim DJ, Kudo E, Mao T, Moriyama M, Oh JE, Park A, Silva J, Song E, Takahashi T, Taura M, Tokuyama M, Venkataraman A, Weizman OE, Wong P, Yang Y, Cheemarla NR, White EB, Lapidus S, Earnest R, Geng B, Vijayakumar P, Odio C, Fournier J, Bermejo S, Farhadian S, Dela Cruz CS, Iwasaki A, Ko AI, Landry ML, Foxman EF, Grubaugh ND. Nat Microbiol. 2020 Oct; 2020 Jul 10. PMID: 32651556.
Seasonality of Respiratory Viral Infections.Moriyama M, Hugentobler WJ, Iwasaki A. Annu Rev Virol. 2020 Sep 29; 2020 Mar 20. PMID: 32196426.
Saliva or Nasopharyngeal Swab Specimens for Detection of SARS-CoV-2.Wyllie AL, Fournier J, Casanovas-Massana A, Campbell M, Tokuyama M, Vijayakumar P, Warren JL, Geng B, Muenker MC, Moore AJ, Vogels CBF, Petrone ME, Ott IM, Lu P, Venkataraman A, Lu-Culligan A, Klein J, Earnest R, Simonov M, Datta R, Handoko R, Naushad N, Sewanan LR, Valdez J, White EB, Lapidus S, Kalinich CC, Jiang X, Kim DJ, Kudo E, Linehan M, Mao T, Moriyama M, Oh JE, Park A, Silva J, Song E, Takahashi T, Taura M, Weizman OE, Wong P, Yang Y, Bermejo S, Odio CD, Omer SB, Dela Cruz CS, Farhadian S, Martinello RA, Iwasaki A, Grubaugh ND, Ko AI. N Engl J Med. 2020 Sep 24; 2020 Aug 28. PMID: 32857487.
Tracking Smell Loss to Identify Healthcare Workers with SARS-CoV-2 Infection.Weiss JJ, Attuquayefio TN, White EB, Li F, Herz RS, White TL, Campbell M, Geng B, Datta R, Wyllie AL, Grubaugh ND, Casanovas-Massana A, Muenker MC, Handoko R, Iwasaki A, Martinello RA, Ko AI, Small DM, Farhadian SF. medRxiv. 2020 Sep 10; 2020 Sep 10. PMID: 32935121.
Neuroinvasion of SARS-CoV-2 in human and mouse brain.Song E, Zhang C, Israelow B, Lu-Culligan A, Prado AV, Skriabine S, Lu P, Weizman OE, Liu F, Dai Y, Szigeti-Buck K, Yasumoto Y, Wang G, Castaldi C, Heltke J, Ng E, Wheeler J, Alfajaro MM, Levavasseur E, Fontes B, Ravindra NG, Van Dijk D, Mane S, Gunel M, Ring A, Kazmi SAJ, Zhang K, Wilen CB, Horvath TL, Plu I, Haik S, Thomas JL, Louvi A, Farhadian SF, Huttner A, Seilhean D, Renier N, Bilguvar K, Iwasaki A. bioRxiv. 2020 Sep 8; 2020 Sep 8. PMID: 32935108.
Kynurenic acid underlies sex-specific immune responses to COVID-19.Cai Y, Kim DJ, Takahashi T, Broadhurst DI, Ma S, Rattray NJW, Casanovas-Massana A, Israelow B, Klein J, Lucas C, Mao T, Moore AJ, Muenker MC, Oh J, Silva J, Wong P, Ko AI, Khan SA, Iwasaki A, Johnson CH. medRxiv. 2020 Sep 8; 2020 Sep 8. PMID: 32935119.
Pooling saliva to increase SARS-CoV-2 testing capacity.Watkins AE, Fenichel EP, Weinberger DM, Vogels CBF, Brackney DE, Casanovas-Massana A, Campbell M, Fournier J, Bermejo S, Datta R, Dela Cruz CS, Farhadian SF, Iwasaki A, Ko AI, Grubaugh ND, Wyllie AL. medRxiv. 2020 Sep 3; 2020 Sep 3. PMID: 32909003.
SARS-CoV-2 infection of the placenta.Hosier H, Farhadian SF, Morotti RA, Deshmukh U, Lu-Culligan A, Campbell KH, Yasumoto Y, Vogels CB, Casanovas-Massana A, Vijayakumar P, Geng B, Odio CD, Fournier J, Brito AF, Fauver JR, Liu F, Alpert T, Tal R, Szigeti-Buck K, Perincheri S, Larsen C, Gariepy AM, Aguilar G, Fardelmann KL, Harigopal M, Taylor HS, Pettker CM, Wyllie AL, Cruz CD, Ring AM, Grubaugh ND, Ko AI, Horvath TL, Iwasaki A, Reddy UM, Lipkind HS. J Clin Invest. 2020 Sep 1. PMID: 32573498.
Simply saliva: stability of SARS-CoV-2 detection negates the need for expensive collection devices.Ott IM, Strine MS, Watkins AE, Boot M, Kalinich CC, Harden CA, Vogels CBF, Casanovas-Massana A, Moore AJ, Muenker MC, Nakahata M, Tokuyama M, Nelson A, Fournier J, Bermejo S, Campbell M, Datta R, Dela Cruz CS, Farhadian SF, Ko AI, Iwasaki A, Grubaugh ND, Wilen CB, Wyllie AL. medRxiv. 2020 Aug 4; 2020 Aug 4. PMID: 32793924.
[Meningeal lymphatics, a potential target for the treatment of brain tumors].Thomas JL, Song E, Boisserand L, Iwasaki A. Med Sci (Paris). 2020 Aug-Sep; 2020 Aug 21. PMID: 32821046.
Longitudinal analyses reveal immunological misfiring in severe COVID-19.Lucas C, Wong P, Klein J, Castro TBR, Silva J, Sundaram M, Ellingson MK, Mao T, Oh JE, Israelow B, Takahashi T, Tokuyama M, Lu P, Venkataraman A, Park A, Mohanty S, Wang H, Wyllie AL, Vogels CBF, Earnest R, Lapidus S, Ott IM, Moore AJ, Muenker MC, Fournier JB, Campbell M, Odio CD, Casanovas-Massana A, Herbst R, Shaw AC, Medzhitov R, Schulz WL, Grubaugh ND, Dela Cruz C, Farhadian S, Ko AI, Omer SB, Iwasaki A. Nature. 2020 Aug; 2020 Jul 27. PMID: 32717743.
Inflammasomes and Pyroptosis as Therapeutic Targets for COVID-19.Yap JKY, Moriyama M, Iwasaki A. J Immunol. 2020 Jul 15; 2020 Jun 3. PMID: 32493814.
Single-cell longitudinal analysis of SARS-CoV-2 infection in human airway epithelium.Ravindra NG, Alfajaro MM, Gasque V, Habet V, Wei J, Filler RB, Huston NC, Wan H, Szigeti-Buck K, Wang B, Wang G, Montgomery RR, Eisenbarth SC, Williams A, Pyle AM, Iwasaki A, Horvath TL, Foxman EF, Pierce RW, van Dijk D, Wilen CB. bioRxiv. 2020 Jul 13; 2020 Jul 13. PMID: 32511382.
Vitamin B12 and folic acid alleviate symptoms of nutritional deficiency by antagonizing aryl hydrocarbon receptor.Kim DJ, Venkataraman A, Jain PC, Wiesler EP, DeBlasio M, Klein J, Tu SS, Lee S, Medzhitov R, Iwasaki A. Proc Natl Acad Sci U S A. 2020 Jul 7; 2020 Jun 22. PMID: 32571957.