Recent Publications from PREPARE Institute Faculty

Here are a few of the hundreds of papers written or co-authored by our faculty. Click the links to view PubMed abstracts.

Aronoff-Spencer E, Mazrouee S, Graham R, Handcock MS, Nguyen K, Nebeker C, Malekinejad M, Longhurst CA. Exposure notification system activity as a leading indicator for SARS-COV-2 caseload forecasting. PLoS One. 2023 Aug 18;18(8):e0287368. doi: 10.1371/journal.pone.0287368. PMID: 37594936; PMCID: PMC10437830.

Aronoff-Spencer E, Nebeker C, Wenzel AT, Nguyen K, Kunowski R, Zhu M, Adamos G, Goyal R, Mazrouee S, Reyes A, May N, Howard H, Longhurst CA, Malekinejad M. Defining Key Performance Indicators for the California COVID-19 Exposure Notification System (CA Notify). Public Health Rep. 2022 Nov-Dec;137(2_suppl):67S-75S. doi: 10.1177/00333549221129354. Epub 2022 Oct 31. PMID: 36314660; PMCID: PMC9678789.

Aslam S, Liu J, Sigler R, Syed RR, Tu XM, Little SJ, De Gruttola V. Coronavirus disease 2019 vaccination is protective of clinical disease in solid organ transplant recipients. Transpl Infect Dis. 2022 Apr;24(2):e13788. doi: 10.1111/tid.13788. Epub 2022 Feb 24. PMID: 34989104; PMCID: PMC9131390.

Ayers JW, Goodman AM, Smith DM. #MedEd: Medical Education and Knowledge Translation on Social Media. JAMA. Published online August 29, 2023. doi:10.1001/jama.2023.12465

Ayers JW, Poliak A, Dredze M, et al. Comparing Physician and Artificial Intelligence Chatbot Responses to Patient Questions Posted to a Public Social Media Forum. JAMA Intern Med. Published online April 28, 2023. doi:10.1001/jamainternmed.2023.1838.

Bojórquez-Chapela I, Strathdee SA, Garfein RS, Benson CA, Chaillon A, Ignacio C, Sepulveda J. The impact of the COVID-19 pandemic among migrants in shelters in Tijuana, Baja California, Mexico. BMJ Glob Health. 2022;7(3):e007202. doi:10.1136/bmjgh-2021-007202. PMID35277428; PMC8919131.

Branche E, Wang YT, Viramontes K, Valls Cuevas JM, Xie J, Ana-Sosa-Batiz F, Shafee N, Duttke SH, McMillan RE, Clark E, Nguyen MN, Garretson AF, Crames JJ, J. SN, Zhu Z, Rich JN, Spector DH, Benner CB, Shresta S, Carlin AF. SREBP2-dependent lipid gene transcription enhances the infection of human dendritic cells by Zika virus. Nat Commun. 2022;13(1):5341. doi:doi: 10.1038/s41467-022-33041-1; PMID36097162.

Carlile M, Hurt B, Hsiao A, Hogarth M, Longhurst CA, Dameff C. Deployment of artificial intelligence for radiographic diagnosis of COVID-19 pneumonia in the emergency department. J Am Coll Emerg Physicians Open. 2020 Nov 5;1(6):1459-1464. doi: 10.1002/emp2.12297. PMID: 33392549; PMCID: PMC7771783.

Carlin AF, Beadle JR, Clark AE, et al. 1-O-Octadecyl-2-O-benzyl-sn-glyceryl-3-phospho-GS-441524 (V2043). Evaluation of Oral V2043 in a Mouse Model of SARS-CoV-2 Infection and Synthesis and Antiviral Evaluation of Additional Phospholipid Esters with Enhanced Anti-SARS-CoV-2 Activity. J. Med. Chem. 2023; 66 (8): 5802–5819. doi.org/10.1021/acs.jmedchem.3c00046.

Carter C, Akrami K, Hall D, Smith D, Aronoff-Spencer E. Lyophilized visually readable loop-mediated isothermal reverse transcriptase nucleic acid amplification test for detection Ebola Zaire RNA. J Virol Methods. 2017;244:32-38. doi:10.1016/j.jviromet.2017.02.013; PMID28242293; PMC5568651.

Chaillon A, Smith DM. Phylogenetic analyses of SARS-CoV-2 B.1.1.7 lineage suggest a single origin followed by multiple exportation events versus convergent evolution. Clin Infect Dis. 2021:73(12):2314-2317. doi:10.1093/cid/ciab265; PMID33772259; PMC8083653.

Chaillon A, Thurairajah PH, Hsiang JC, Martin NK. What is required for achieving hepatitis C virus elimination in Singapore? A modeling study. J Gastroenterol Hepatol. 2021;36(4):1110-1117. doi:10.1111/jgh.15211; PMID32777859; PMC8174139.

Chang, M.R., Tomasovic, L., Kuzmina, N.A. et al. IgG-like bispecific antibodies with potent and synergistic neutralization against circulating SARS-CoV-2 variants of concern. Nat Commun 13, 5814 (2022). https://doi.org/10.1038/s41467-022-33030-4. PMID36192374; PMC9528872.

Clark, A.E, Furst, A., Sejane, K., Stellwagen, L., Proost, M., Pride, D., Smith, D.M., Carlin, A.F. Bode, L. Validating Tools to Detect and Inactivate Monkeypox Virus in Human Milk. Breastfeeding Medicine. Published online September 21, 2023. doi.org/10.1089/bfm.2023.0175.

Daniels LB, Ren J, Kumar K, Bui QM, Zhang J, Zhang X, Sawan MA, Eisen H, Longhurst CA, Messer K. Relation of prior statin and anti-hypertensive use to severity of disease among patients hospitalized with COVID-19: Findings from the American Heart Association's COVID-19 Cardiovascular Disease Registry. PLoS One. 2021 Jul 15;16(7):e0254635. doi: 10.1371/journal.pone.0254635. PMID: 34264974; PMCID: PMC8281996.

Daniels LB, Sitapati AM, Zhang J, Zou J, Bui QM, Ren J, Longhurst CA, Criqui MH, Messer K. Relation of Statin Use Prior to Admission to Severity and Recovery Among COVID-19 Inpatients. Am J Cardiol. 2020 Dec 1;136:149-155. doi: 10.1016/j.amjcard.2020.09.012. Epub 2020 Sep 16. PMID: 32946859; PMCID: PMC7492151.

Fielding-Miller R, Karthikeyan S, Gaines T, Garfein RS, Salido RA, Cantu VJ, Kohn L, Martin NK, Wynn A, Wijaya C, Flores M, Omaleki V, Majnoonian A, Gonzalez-Zuniga P, Nguyen M, Vo AV, Le T, Duong D, Hassani A, Tweeten S, Jepsen K, Henson B, Hakim A, Birmingham A, De Hoff P, Mark AM, Nasamran CA, Rosenthal SB, Moshiri N, Fisch KM, Humphrey G, Farmer S, Tubb HM, Valles T, Morris J, Kang J, Khaleghi B, Young C, Akel AD, Eilert S, Eno J, Curewitz K, Laurent LC, Rosing T, Knight R; SEARCH. Safer at school early alert: an observational study of wastewater and surface monitoring to detect COVID-19 in elementary schools. Lancet Reg Health Am. 2023 Feb 20;19:100449. doi: 10.1016/j.lana.2023.100449. PMID: 36844610; PMCID: PMC9939935.

Goldhaber NH, Ogan WS, Greaves A, Tai-Seale M, Sitapati A, Longhurst CA, Horton LE. Population-Based Evaluation of Postacute Coronavirus Disease-2019 (COVID-19) Chronic Sequelae in Patients Who Tested Positive for Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2). Open Forum Infect Dis. 2022 Sep 29;9(10):ofac495. doi: 10.1093/ofid/ofac495. PMID: 36267244; PMCID: PMC9578157.

Goldhaber NH, Kohn JN, Ogan WS, Sitapati A, Longhurst CA, Wang A, Lee S, Hong S, Horton LE. Deep Dive into the Long Haul: Analysis of Symptom Clusters and Risk Factors for Post-Acute Sequelae of COVID-19 to Inform Clinical Care. Int J Environ Res Public Health. 2022 Dec 15;19(24):16841. doi: 10.3390/ijerph192416841. PMID: 36554723; PMCID: PMC9778884.

Gottesman BL, Yu J, Tanaka C, Longhurst CA, Kim JJ. Incidence of New-Onset Type 1 Diabetes Among US Children During the COVID-19 Global Pandemic. JAMA Pediatr. 2022 Apr 1;176(4):414-415. doi: 10.1001/jamapediatrics.2021.5801. PMID: 35072727; PMCID: PMC8787677.

Halabi R, Smith G, Sylwestrzak M, Clay B, Longhurst CA, Lander L. The Impact of Inpatient Telemedicine on Personal Protective Equipment Savings During the COVID-19 Pandemic: Cross-sectional Study. J Med Internet Res. 2021 May 19;23(5):e28845. doi: 10.2196/28845. PMID: 33945494; PMCID: PMC8136403.

Holmgren AJ, Downing NL, Tang M, Sharp C, Longhurst C, Huckman RS. Corrigendum to: Assessing the impact of the COVID-19 pandemic on clinician ambulatory electronic health record use. J Am Med Inform Assoc. 2022 Mar 15;29(4):749. doi: 10.1093/jamia/ocab288. Erratum for: J Am Med Inform Assoc. 2022 Jan 29;29(3):453-460. PMID: 35020882; PMCID: PMC8922166.

Holmgren AJ, Downing NL, Tang M, Sharp C, Longhurst C, Huckman RS. Assessing the impact of the COVID-19 pandemic on clinician ambulatory electronic health record use. J Am Med Inform Assoc. 2022 Jan 29;29(3):453-460. doi: 10.1093/jamia/ocab268. Erratum in: J Am Med Inform Assoc. 2022 Jan 10;: PMID: 34888680; PMCID: PMC8689796.

Ji D, Aboukhalil R, Moshiri N. ViralWasm: a client-side user-friendly web application suite for viral genomics. Bioinformatics. 2024 Jan 2;40(1):btae018. doi: 10.1093/bioinformatics/btae018. PMID: 38200583; PMCID: PMC10809900.

Karthikeyan S, Levy JI, De Hoff P, Humphrey G, Birmingham A, Jepsen K, Farmer S, Tubb HM, Valles T, Tribelhorn CE, Tsai R, Aigner S, Sathe S, Moshiri N, Henson B, Mark AM, Hakim A, Baer NA, Barber T, Belda-Ferre P, Chacón M, Cheung W, Cresini ES, Eisner ER, Lastrella AL, Lawrence ES, Marotz CA, Ngo TT, Ostrander T, Plascencia A, Salido RA, Seaver P, Smoot EW, McDonald D, Neuhard RM, Scioscia AL, Satterlund AM, Simmons EH, Abelman DB, Brenner D, Bruner JC, Buckley A, Ellison M, Gattas J, Gonias SL, Hale M, Hawkins F, Ikeda L, Jhaveri H, Johnson T, Kellen V, Kremer B, Matthews G, McLawhon RW, Ouillet P, Park D, Pradenas A, Reed S, Riggs L, Sanders A, Sollenberger B, Song A, White B, Winbush T, Aceves CM, Anderson C, Gangavarapu K, Hufbauer E, Kurzban E, Lee J, Matteson NL, Parker E, Perkins SA, Ramesh KS, Robles-Sikisaka R, Schwab MA, Spencer E, Wohl S, Nicholson L, McHardy IH, Dimmock DP, Hobbs CA, Bakhtar O, Harding A, Mendoza A, Bolze A, Becker D, Cirulli ET, Isaksson M, Schiabor Barrett KM, Washington NL, Malone JD, Schafer AM, Gurfield N, Stous S, Fielding-Miller R, Garfein RS, Gaines T, Anderson C, Martin NK, Schooley R, Austin B, MacCannell DR, Kingsmore SF, Lee W, Shah S, McDonald E, Yu AT, Zeller M, Fisch KM, Longhurst C, Maysent P, Pride D, Khosla PK, Laurent LC, Yeo GW, Andersen KG, Knight R. Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission. Nature. 2022 Sep;609(7925):101-108. doi: 10.1038/s41586-022-05049-6. Epub 2022 Jul 7. PMID: 35798029; PMCID: PMC9433318.

Karthikeyan S, Levy JI, De Hoff P, Humphrey G, Birmingham A, Jepsen K, Farmer S, Tubb HM, Valles T, Tribelhorn CE, Tsai R, Aigner S, Sathe S, Moshiri N, Henson B, Mark AM, Hakim A, Baer NA, Barber T, Belda-Ferre P, Chacón M, Cheung W, Cresini ES, Eisner ER, Lastrella AL, Lawrence ES, Marotz CA, Ngo TT, Ostrander T, Plascencia A, Salido RA, Seaver P, Smoot EW, McDonald D, Neuhard RM, Scioscia AL, Satterlund AM, Simmons EH, Abelman DB, Brenner D, Bruner JC, Buckley A, Ellison M, Gattas J, Gonias SL, Hale M, Hawkins F, Ikeda L, Jhaveri H, Johnson T, Kellen V, Kremer B, Matthews G, McLawhon RW, Ouillet P, Park D, Pradenas A, Reed S, Riggs L, Sanders A, Sollenberger B, Song A, White B, Winbush T, Aceves CM, Anderson C, Gangavarapu K, Hufbauer E, Kurzban E, Lee J, Matteson NL, Parker E, Perkins SA, Ramesh KS, Robles-Sikisaka R, Schwab MA, Spencer E, Wohl S, Nicholson L, Mchardy IH, Dimmock DP, Hobbs CA, Bakhtar O, Harding A, Mendoza A, Bolze A, Becker D, Cirulli ET, Isaksson M, Barrett KMS, Washington NL, Malone JD, Schafer AM, Gurfield N, Stous S, Fielding-Miller R, Garfein RS, Gaines T, Anderson C, Martin NK, Schooley R, Austin B, MacCannell DR, Kingsmore SF, Lee W, Shah S, McDonald E, Yu AT, Zeller M, Fisch KM, Longhurst C, Maysent P, Pride D, Khosla PK, Laurent LC, Yeo GW, Andersen KG, Knight R. Wastewater sequencing uncovers early, cryptic SARS-CoV-2 variant transmission. medRxiv [Preprint]. 2022 Apr 4:2021.12.21.21268143. doi: 10.1101/2021.12.21.21268143. Update in: Nature. 2022 Jul 7;: PMID: 35411350; PMCID: PMC8996633.

Karthikeyan S, Nguyen A, McDonald D, Zong Y, Ronquillo N, Ren J, Zou J, Farmer S, Humphrey G, Henderson D, Javidi T, Messer K, Anderson C, Schooley R, Martin NK, Knight R. Rapid, large-scale wastewater surveillance and automated reporting system enable early detection of nearly 85% of COVID-19 cases on a university campus. mSystems. 2021:00793-21:e0079321. doi:10.1128/mSystems.00793-21; PMID34374562.

Karthikeyan S, Ronquillo N, Belda-Ferre P, Alvarado D, Javidi T, Longhurst CA, Knight R. High-Throughput Wastewater SARS-CoV-2 Detection Enables Forecasting of Community Infection Dynamics in San Diego County. mSystems. 2021 Mar 2;6(2):e00045-21. doi: 10.1128/mSystems.00045-21. PMID: 33653938; PMCID: PMC8546963.

Keehner J, Horton LE, Binkin NJ, Laurent LC; SEARCH Alliance; Pride D, Longhurst CA, Abeles SR, Torriani FJ. Resurgence of SARS-CoV-2 Infection in a Highly Vaccinated Health System Workforce. N Engl J Med. 2021 Sep 30;385(14):1330-1332. doi: 10.1056/NEJMc2112981. Epub 2021 Sep 1. PMID: 34469645; PMCID: PMC8451183.

Keehner J, Horton LE, Pfeffer MA, Longhurst CA, Schooley RT, Currier JS, Abeles SR, Torriani FJ. SARS-CoV-2 Infection after Vaccination in Health Care Workers in California. N Engl J Med. 2021 May 6;384(18):1774-1775. doi: 10.1056/NEJMc2101927. Epub 2021 Mar 23. PMID: 33755376; PMCID: PMC8008750.

Li N, Rana TM. Regulation of antiviral innate immunity by chemical modification of viral RNA. Wiley Interdiscip Rev RNA. 2022 Nov;13(6):e1720. doi: 10.1002/wrna.1720. Epub 2022 Feb 12. PMID: 35150188.

Li R, Mor M, Ma B, Clark AE, Alter J, Werbner M, Lee JC,  Leibel SL, Carlin AF, Dessau M, Gal-Tanamy M, Croker BA, Xiang Y, Freund NT. Conformational flexibility in neutralization of SARS-CoV-2 by naturally elicited anti-SARS-CoV-2 antibodies. Commun Biol. 2022;5:789. doi:10.1038/s42003-022-03739-5. PMID35931732; PMC9355996.

Marotz C, Belda-Ferre P, Ali F, Das P, Huang S, Cantrell K, Jiang L, Martino C, Diner RE, Rahman G, McDonald D, Armstrong G, Kodera S, Donato S, Ecklu-Mensah G, Gottel N, Salas Garcia MC, Chiang LY, Salido RA, Shaffer JP, Bryant MK, Sanders K, Humphrey G, Ackermann G, Haiminen N, Beck KL, Kim HC, Carrieri AP, Parida L, Vazquez-Baeza Y, Torriani FJ, Knight R, Gilbert J, Sweeney DA, Allard SM. SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment. Microbiome. 2021;9(1):132. doi:10.1186/s40168-021-01083-0; PMID34103074; PMC8186369.

Matteson NL, Hassler GW, Kurzban E, Schwab MA, Perkins SA, Gangavarapu K, Levy JI, Parker E, Pride D, Hakim A, De Hoff P, Cheung W, Castro-Martinez A, Rivera A, Veder A, Rivera A, Wauer C, Holmes J, Wilson J, Ngo SN, Plascencia A, Lawrence ES, Smoot EW, Eisner ER, Tsai R, Chacón M, Baer NA, Seaver P, Salido RA, Aigner S, Ngo TT, Barber T, Ostrander T, Fielding-Miller R, Simmons EH, Zazueta OE, Serafin-Higuera I, Sanchez-Alavez M, Moreno-Camacho JL, García-Gil A, Murphy Schafer AR, McDonald E, Corrigan J, Malone JD, Stous S, Shah S, Moshiri N, Weiss A, Anderson C, Aceves CM, Spencer EG, Hufbauer EC, Lee JJ, King AJ, Ramesh KS, Nguyen KN, Saucedo K, Robles-Sikisaka R, Fisch KM, Gonias SL, Birmingham A, McDonald D, Karthikeyan S, Martin NK, Schooley RT, Negrete AJ, Reyna HJ, Chavez JR, Garcia ML, Cornejo-Bravo JM, Becker D, Isaksson M, Washington NL, Lee W, Garfein RS, Luna-Ruiz Esparza MA, Alcántar-Fernández J, Henson B, Jepsen K, Olivares-Flores B, Barrera-Badillo G, Lopez-Martínez I, Ramírez-González JE, Flores-León R, Kingsmore SF, Sanders A, Pradenas A, White B, Matthews G, Hale M, McLawhon RW, Reed SL, Winbush T, McHardy IH, Fielding RA, Nicholson L, Quigley MM, Harding A, Mendoza A, Bakhtar O, Browne SH, Olivas Flores J, Rincon Rodríguez DG, Gonzalez Ibarra M, Robles Ibarra LC, Arellano Vera BJ, Gonzalez Garcia J, Harvey-Vera A, Knight R, Laurent LC, Yeo GW, Wertheim JO, Ji X, Worobey M, Suchard MA, Andersen KG, Campos-Romero A, Wohl S, Zeller M. Genomic surveillance reveals dynamic shifts in the connectivity of COVID-19 epidemics. Cell. 2023 Dec 21;186(26):5690-5704.e20. doi: 10.1016/j.cell.2023.11.024. Epub 2023 Dec 14. PMID: 38101407; PMCID: PMC10795731.

McMillan RE, Lo MK, Zhang XQ. Enhanced broad spectrum in vitro antiviral efficacy of 3-F-4-MeO-Bn, 3-CN, and 4-CN derivatives of lipid remdesivir nucleoside monophosphate prodrugs. Antiviral Research. 2023; 219: 105718. doi.org/10.1016/j.antiviral.2023.105718.

Meyer BC, Friedman LS, Payne K, Moore L, Cressler J, Holberg S, Partridge B, Prince B, Sylwestrzak M, Jenusaitis M, Kremer B, Kane CJ, Sitapati A, Clay B, Millen M, Longhurst C. Medical Undistancing Through Telemedicine: A Model Enabling Rapid Telemedicine Deployment in an Academic Health Center During the COVID-19 Pandemic. Telemed J E Health. 2021 Jun;27(6):625-634. doi: 10.1089/tmj.2020.0327. Epub 2020 Oct 7. PMID: 33030985.

Moshiri N. ViralConsensus: a fast and memory-efficient tool for calling viral consensus genome sequences directly from read alignment data. Bioinformatics. 2023 May 4;39(5):btad317. doi: 10.1093/bioinformatics/btad317. PMID: 37171896; PMCID: PMC10212278.

Moshiri N, Fisch KM, Birmingham A, DeHoff P, Yeo GW, Jepsen K, Laurent LC, Knight R. The ViReflow pipeline enables user friendly large scale viral consensus genome reconstruction. Sci Rep. 2022 Mar 24;12(1):5077. doi: 10.1038/s41598-022-09035-w. PMID: 35332213; PMCID: PMC8943356.

Moshiri N. ViralMSA: massively scalable reference-guided multiple sequence alignment of viral genomes. Bioinformatics. 2021 May 5;37(5):714-716. doi: 10.1093/bioinformatics/btaa743. PMID: 32814953.

Payne PRO, Wilcox AB, Embi PJ, Longhurst CA. Better together: Integrating biomedical informatics and healthcare IT operations to create a learning health system during the COVID-19 pandemic. Learn Health Syst. 2022 Mar 30;6(2):e10309. doi: 10.1002/lrh2.10309. PMID: 35434359; PMCID: PMC9006527.

Pekar JE, Magee A, Parker E, Moshiri N, Izhikevich K, Havens JL, Gangavarapu K, Malpica Serrano LM, Crits-Christoph A, Matteson NL, Zeller M, Levy JI, Wang JC, Hughes S, Lee J, Park H, Park MS, Ching Zi Yan K, Lin RTP, Mat Isa MN, Noor YM, Vasylyeva TI, Garry RF, Holmes EC, Rambaut A, Suchard MA, Andersen KG, Worobey M, Wertheim JO. The molecular epidemiology of multiple zoonotic origins of SARS-CoV-2. Science. 2022 Aug 26;377(6609):960-966. doi: 10.1126/science.abp8337. Epub 2022 Jul 26. Erratum in: Science. 2023 Oct 13;382(6667):eadl0585. PMID: 35881005; PMCID: PMC9348752.

Pekar J, Worobey M, Moshiri N, Scheffler K, Wertheim JO. Timing the SARS-CoV-2 index case in Hubei province. Science. 2021 Apr 23;372(6540):412-417. doi: 10.1126/science.abf8003. Epub 2021 Mar 18. PMID: 33737402; PMCID: PMC8139421.

Rawlings SA, Scott B, Layman L, Naranatt P, Heltsley R, Ignacio C, Porrachia M, Gianella S, Smith D, Chaillon A. Can't work from home: pooled nucleic acid testing of laboratory workers during the COVID-19 pandemic. Open Forum Infect Dis. 2021;8(7):ofab129. doi:10.1093/ofid/ofab129; PMID34327248; PMC7989168.

Reeves JJ, Pageler NM, Wick EC, Melton GB, Tan YG, Clay BJ, Longhurst CA. The Clinical Information Systems Response to the COVID-19 Pandemic. Yearb Med Inform. 2021 Aug;30(1):105-125. doi: 10.1055/s-0041-1726513. Epub 2021 Sep 3. PMID: 34479384; PMCID: PMC8416224.

Reeves JJ, Ayers JW, Longhurst CA. Telehealth in the COVID-19 Era: A Balancing Act to Avoid Harm. J Med Internet Res. 2021 Feb 1;23(2):e24785. doi: 10.2196/24785. PMID: 33477104; PMCID: PMC7857524.

Reeves JJ, Longhurst CA, San Miguel SJ, Juarez R, Behymer J, Ramotar KM, Maysent P, Scioscia AL, Millen M. Bringing student health and Well-Being onto a health system EHR: the benefits of integration in the COVID-19 era. J Am Coll Health. 2022 Oct;70(7):1968-1974. doi: 10.1080/07448481.2020.1843468. Epub 2020 Nov 12. PMID: 33180683.

Reeves JJ, Hollandsworth HM, Torriani FJ, Taplitz R, Abeles S, Tai-Seale M, Millen M, Clay BJ, Longhurst CA. Rapid response to COVID-19: health informatics support for outbreak management in an academic health system. J Am Med Inform Assoc. 2020 Jun 1;27(6):853-859. doi: 10.1093/jamia/ocaa037. PMID: 32208481; PMCID: PMC7184393.

Schooley RT, Carlin AF, Beadle JR, Valiaeva N, Zhang XQ, Clark AE, McMillan RE, Leibel SL, McVicar RN, Xie J, Garretson AF, Smith VI, Murphy J, Hostetler KY. Rethinking Remdesivir: synthesis, antiviral activity and pharmacokinetics of oral lipid prodrugs. Antimicrob Agents Chemother. 2021:65(10):e0115521. doi:10.1128/AAC.01155-21; PMID34310217; PMC8448413.

Sette A, Crotty S. Immunological memory to SARS-CoV-2 infection and COVID-19 vaccines. Immunol Rev. 2022;310(1):27-46. doi: 10.1111/imr.13089; PMID35733376; PMC9349657

Sigler R, Covarrubias K, Chen B, Rubarth RB, Torosian K, Sanchez CR, Bharti A, DeGruttola V, Aslam S. Post-acute sequelae of COVID-19 in solid organ transplant recipients. Transpl Infect Dis. 2023 Dec;25(6):e14167. doi: 10.1111/tid.14167. Epub 2023 Nov 3. PMID: 37922371; PMCID: PMC10841400.

Singh NK, Ray P, Carlin AF, Magallanes C, Morgan SC, Laurent LC, Aronoff-Spencer ES, Hall DA. Hitting the diagnostic sweet spot: Point-of-care SARS-CoV-2 salivary antigen testing with an off-the-shelf glucometer. Biosens Bioelectron. 2021;180:113111. doi:10.1016/j.bios.2021.113111; PMID33743492; PMC7908832.

Strathdee SA, Abramovitz D, Harvey-Vera A, Vera CF, Rangel G, Artamonova I, Patterson TL, Mitchell RA, Bazzi AR. Correlates of Coronavirus Disease 2019 (COVID-19) Vaccine Hesitancy Among People Who Inject Drugs in the San Diego-Tijuana Border Region. Clin Infect Dis. 2022 Aug 24;75(1):e726-e733. doi: 10.1093/cid/ciab975. PMID35024825; PMC8690110.

Tai-Seale M, May N, Sitapati A, Longhurst CA. A learning health system approach to COVID-19 exposure notification system rollout. Learn Health Syst. 2021 Oct 13;6(2):e10290. doi: 10.1002/lrh2.10290. PMID: 34901440; PMCID: PMC8646517.

Tarke A, Sidney J, Methot N, Yu ED, Zhang Y, Dan JM, Goodwin B, Rubiro P, Sutherland A, Wang E, Frazier A, Ramirez SI, Rawlings SA, Smith DM, da Silva Antunes R, Peters B, Scheuermann RH, Weiskopf D, Crotty S, Grifoni A, Sette A. Impact of SARS-CoV-2 variants on the total CD4(+) and CD8(+) T cell reactivity in infected or vaccinated individuals. Cell Rep Med. 2021;2(7):100355. doi:10.1016/j.xcrm.2021.100355;  PMID34230917; PMC8249675.

Wali AR, Ryba BE, Kang K, Santiago-Dieppa DR, Steinberg J, Diaz-Aguilar LD, Stone LE, Brandel MG, Longhurst CA, Taylor W, Khalessi AA. Impact of COVID-19 on a Neurosurgical Service: Lessons from the University of California San Diego. World Neurosurg. 2021 Apr;148:e172-e181. doi: 10.1016/j.wneu.2020.12.103. Epub 2020 Dec 30. PMID: 33385598; PMCID: PMC7772085.

Wang L, Sievert D, Clark AE, Lee S, Federman H, Gastfriend BD, Shusta EV, Palecek SP, Carlin AF, Gleeson JG. A human three-dimensional neural-perivascular 'assembloid' promotes astrocytic development and enables modeling of SARS-CoV-2 neuropathology. Nat Med. 2021: Online ahead of print. doi:10.1038/s41591-021-01443-1; PMID34244682.

Weintraub R, Plotkin S, Liu M, Kim J, Garcon N, Bell D, Storisteanu D, Norman T, Aronoff-Spencer E. COVID-19 vaccine delivery: an opportunity to set up systems for the future. Gates Open Res. 2020;4:182. doi:10.12688/gatesopenres.13210.2; PMID34124587; PMC8173566.

Zhu et al., NET formation is the default epigenetic program controlled by PAD4 in apoptotic neutrophils. Science Advances. 2023; 9(51): eadj1397. PMID:38117877.