My Bibliography

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Wildenthal JA, Olsen MA, Tran HD, Robinson JI, Myckatyn TM, Warren DK, Brandt KE, Tenenbaum MM, Christensen JM, Tung TH, Sacks JM, Anolik RA, Nickel KB, Fujiwara H, Mucha PJ, Henderson JP. Small-molecule correlates of infection precede infection diagnosis in breast implant reconstruction patients. J Clin Invest. 2026 Feb 16;136(4). doi: 10.1172/JCI192104. eCollection 2026 Feb 16. PubMed PMID: 41433109; PubMed Central PMCID: PMC12904714.

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Masuda N, Boyd ZM, Garlaschelli D, Mucha PJ. Introduction to correlation networks: Interdisciplinary approaches beyond thresholding. Phys Rep. 2025 Aug 21;1136:1-39. doi: 10.1016/j.physrep.2025.06.002. Epub 2025 Jun 30. PubMed PMID: 40814354; PubMed Central PMCID: PMC12345407.

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Robinson JI, Marks LR, Hinton AL, O'Halloran JA, Goss CW, Mucha PJ, Henderson JP. Development of a metabolome-based respiratory infection prognostic during COVID-19 arrival. mBio. 2025 Jan 8;16(1):e0334323. doi: 10.1128/mbio.03343-23. Epub 2024 Nov 22. PubMed PMID: 39576111; PubMed Central PMCID: PMC11708037.

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Dragotakes Q, Johnson PW, Buras MR, Carter RE, Joyner MJ, Bloch E, Gebo KA, Hanley DF, Henderson JP, Pirofski LA, Shoham S, Senefeld JW, Tobian AAR, Wiggins CC, Wright RS, Paneth NS, Sullivan DJ, Casadevall A. Estimates of actual and potential lives saved in the United States from the use of COVID-19 convalescent plasma. Proc Natl Acad Sci U S A. 2024 Oct 8;121(41):e2414957121. doi: 10.1073/pnas.2414957121. Epub 2024 Oct 1. PubMed PMID: 39352932; PubMed Central PMCID: PMC11474081.

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Shafiuddin M, Prather GW, Huang WC, Anton JR, Martin AL, Sillart SB, Tang JZ, Vittori MR, Prinsen MJ, Ninneman JJ, Manithody C, Henderson JP, Aleem AW, Ilagan MXG, McCoy WH. Cutibacterium adaptation to life on humans provides a novel biomarker of C. acnes infections. bioRxiv. 2024 Sep 18;. doi: 10.1101/2024.09.18.613542. PubMed PMID: 39345635; PubMed Central PMCID: PMC11429735.

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Senefeld JW, Henderson JP, Joyner MJ. Convalescent Plasma for Covid-19-Induced ARDS. N Engl J Med. 2024 Jan 25;390(4):385. doi: 10.1056/NEJMc2313675. PubMed PMID: 38265660.

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Heffernan JR, Wildenthal JA, Tran H, Katumba GL, McCoy WH, Henderson JP. Yersiniabactin is a quorum-sensing autoinducer and siderophore in uropathogenic Escherichia coli. mBio. 2024 Feb 14;15(2):e0027723. doi: 10.1128/mbio.00277-23. Epub 2024 Jan 18. PubMed PMID: 38236035; PubMed Central PMCID: PMC10865836.

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Wildenthal JA, Schwartz DJ, Nolan NS, Zhao L, Robinson JI, Jones E, Jawa R, Henderson JP, Marks LR. Everything but the Kitchen Sink: An Analysis of Bacterial and Chemical Contaminants Found in Syringe Residue From People Who Inject Drugs. Open Forum Infect Dis. 2024 Jan;11(1):ofad628. doi: 10.1093/ofid/ofad628. eCollection 2024 Jan. PubMed PMID: 38179104; PubMed Central PMCID: PMC10766411.

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Zou Z, Robinson JI, Steinberg LK, Henderson JP. Uropathogenic Escherichia coli wield enterobactin-derived catabolites as siderophores. J Biol Chem. 2024 Jan;300(1):105554. doi: 10.1016/j.jbc.2023.105554. Epub 2023 Dec 10. PubMed PMID: 38072063; PubMed Central PMCID: PMC10788543.

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Senefeld JW, Gorman EK, Johnson PW, Moir ME, Klassen SA, Carter RE, Paneth NS, Sullivan DJ, Morkeberg OH, Wright RS, Fairweather D, Bruno KA, Shoham S, Bloch EM, Focosi D, Henderson JP, Juskewitch JE, Pirofski LA, Grossman BJ, Tobian AAR, Franchini M, Ganesh R, Hurt RT, Kay NE, Parikh SA, Baker SE, Buchholtz ZA, Buras MR, Clayburn AJ, Dennis JJ, Diaz Soto JC, Herasevich V, Klompas AM, Kunze KL, Larson KF, Mills JR, Regimbal RJ, Ripoll JG, Sexton MA, Shepherd JRA, Stubbs JR, Theel ES, van Buskirk CM, van Helmond N, Vogt MNP, Whelan ER, Wiggins CC, Winters JL, Casadevall A, Joyner MJ. Rates Among Hospitalized Patients With COVID-19 Treated With Convalescent Plasma: A Systematic Review and Meta-Analysis. Mayo Clin Proc Innov Qual Outcomes. 2023 Oct;7(5):499-513. doi: 10.1016/j.mayocpiqo.2023.09.001. eCollection 2023 Oct. PubMed PMID: 37859995; PubMed Central PMCID: PMC10582279.

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Henderson JP. Igniting the slow burn of post-COVID conditions. mBio. 2023 Oct 31;14(5):e0148923. doi: 10.1128/mbio.01489-23. Epub 2023 Sep 26. PubMed PMID: 37750708; PubMed Central PMCID: PMC10653924.

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Zou Z, Robinson JI, Steinberg LK, Henderson JP. Uropathogenic Escherichia coli wield enterobactin-derived catabolites as siderophores. bioRxiv. 2023 Jul 25;. doi: 10.1101/2023.07.25.550588. PubMed PMID: 37546885; PubMed Central PMCID: PMC10402112.

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Bloch EM, Focosi D, Shoham S, Senefeld J, Tobian AAR, Baden LR, Tiberghien P, Sullivan DJ, Cohn C, Dioverti V, Henderson JP, So-Osman C, Juskewitch JE, Razonable RR, Franchini M, Goel R, Grossman BJ, Casadevall A, Joyner MJ, Avery RK, Pirofski LA, Gebo KA. Guidance on the Use of Convalescent Plasma to Treat Immunocompromised Patients With Coronavirus Disease 2019. Clin Infect Dis. 2023 Jun 8;76(11):2018-2024. doi: 10.1093/cid/ciad066. PubMed PMID: 36740590; PubMed Central PMCID: PMC10249987.

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Heffernan JR, Katumba GL, McCoy WH, Henderson JP. Yersiniabactin is a quorum sensing autoinducer and siderophore in uropathogenic Escherichia coli. bioRxiv. 2023 Feb 10;. doi: 10.1101/2023.02.09.527953. PubMed PMID: 36798367; PubMed Central PMCID: PMC9934619.

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Zou Z, Potter RF, McCoy WH 4th, Wildenthal JA, Katumba GL, Mucha PJ, Dantas G, Henderson JP. E. coli catheter-associated urinary tract infections are associated with distinctive virulence and biofilm gene determinants. JCI Insight. 2023 Jan 24;8(2). doi: 10.1172/jci.insight.161461. PubMed PMID: 36512427; PubMed Central PMCID: PMC9977300.

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Casadevall A, Henderson JP. COVID-19 Convalescent Plasma and Concomitant Therapies in PassITON. Chest. 2022 Nov;162(5):e284-e285. doi: 10.1016/j.chest.2022.07.028. PubMed PMID: 36344143; PubMed Central PMCID: PMC9634045.

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Focosi D, Franchini M, Joyner MJ, Henderson JP, Casadevall A. Convalescent plasma in oncohematological patients. Hematol Oncol. 2023 Feb;41(1):208-209. doi: 10.1002/hon.3069. Epub 2022 Aug 27. PubMed PMID: 36001740; PubMed Central PMCID: PMC9538488.

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Paneth N, Casadevall A, Pirofski LA, Henderson JP, Grossman BJ, Shoham S, Joyner MJ. WHO covid-19 drugs guideline: reconsider using convalescent plasma. BMJ. 2022 Feb 8;376:o295. doi: 10.1136/bmj.o295. PubMed PMID: 35135758.

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Fishbein SR, Robinson JI, Hink T, Reske KA, Newcomer EP, Burnham CD, Henderson JP, Dubberke ER, Dantas G. Multi-omics investigation of Clostridioides difficile-colonized patients reveals pathogen and commensal correlates of C. difficile pathogenesis. Elife. 2022 Jan 27;11. doi: 10.7554/eLife.72801. PubMed PMID: 35083969; PubMed Central PMCID: PMC8794467.

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Katumba GL, Tran H, Henderson JP. The Yersinia High-Pathogenicity Island Encodes a Siderophore-Dependent Copper Response System in Uropathogenic Escherichia coli. mBio. 2022 Feb 22;13(1):e0239121. doi: 10.1128/mBio.02391-21. Epub 2022 Jan 4. PubMed PMID: 35089085; PubMed Central PMCID: PMC8725597.

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Marks LR, Calix JJ, Wildenthal JA, Wallace MA, Sawhney SS, Ransom EM, Durkin MJ, Henderson JP, Burnham CD, Dantas G. Staphylococcus aureus injection drug use-associated bloodstream infections are propagated by community outbreaks of diverse lineages. Commun Med (Lond). 2021;1:52. doi: 10.1038/s43856-021-00053-9. eCollection 2021. PubMed PMID: 35602233; PubMed Central PMCID: PMC9053277.

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Sun J, Li S, Li W, Gross ML. Carbocation Footprinting of Soluble and Transmembrane Proteins. Anal Chem. 2021 Oct 5;93(39):13101-13105. doi: 10.1021/acs.analchem.1c03274. Epub 2021 Sep 24. PubMed PMID: 34558889; PubMed Central PMCID: PMC8900486.

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Farnsworth CW, Case JB, Hock K, Chen RE, O'Halloran JA, Presti R, Goss CW, Rauseo AM, Ellebedy A, Theel ES, Diamond MS, Henderson JP. Assessment of serological assays for identifying high titer convalescent plasma. Transfusion. 2021 Sep;61(9):2658-2667. doi: 10.1111/trf.16580. Epub 2021 Jul 6. PubMed PMID: 34216156; PubMed Central PMCID: PMC8440373.

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Thompson MA, Henderson JP, Shah PK, Rubinstein SM, Joyner MJ, Choueiri TK, Flora DB, Griffiths EA, Gulati AP, Hwang C, Koshkin VS, Papadopoulos EB, Robilotti EV, Su CT, Wulff-Burchfield EM, Xie Z, Yu PP, Mishra S, Senefeld JW, Shah DP, Warner JL, COVID-19 and Cancer Consortium. Association of Convalescent Plasma Therapy With Survival in Patients With Hematologic Cancers and COVID-19. JAMA Oncol. 2021 Jun 17;7(8):1167-75. doi: 10.1001/jamaoncol.2021.1799. [Epub ahead of print] PubMed PMID: 34137799; PubMed Central PMCID: PMC8377563.

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Klassen SA, Senefeld JW, Senese KA, Johnson PW, Wiggins CC, Baker SE, van Helmond N, Bruno KA, Pirofski LA, Shoham S, Grossman BJ, Henderson JP, Wright RS, Fairweather D, Paneth NS, Carter RE, Casadevall A, Joyner MJ. Convalescent Plasma Therapy for COVID-19: A Graphical Mosaic of the Worldwide Evidence. Front Med (Lausanne). 2021;8:684151. doi: 10.3389/fmed.2021.684151. eCollection 2021. Review. PubMed PMID: 34164419; PubMed Central PMCID: PMC8215127.

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Senefeld JW, Klassen SA, Ford SK, Senese KA, Wiggins CC, Bostrom BC, Thompson MA, Baker SE, Nicholson WT, Johnson PW, Carter RE, Henderson JP, Hartman WR, Pirofski LA, Wright RS, Fairweather L, Bruno KA, Paneth NS, Casadevall A, Joyner MJ. Use of convalescent plasma in COVID-19 patients with immunosuppression. Transfusion. 2021 Aug;61(8):2503-2511. doi: 10.1111/trf.16525. Epub 2021 Jun 1. Review. PubMed PMID: 34036587; PubMed Central PMCID: PMC8242637.

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Casadevall A, Henderson JP, Joyner MJ, Pirofski LA. SARS-CoV-2 variants and convalescent plasma: reality, fallacies, and opportunities. J Clin Invest. 2021 Apr 1;131(7). doi: 10.1172/JCI148832. PubMed PMID: 33621214; PubMed Central PMCID: PMC8011895.

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Farnsworth CW, Case JB, Hock K, Chen RE, O'Halloran JA, Presti R, Goss CW, Rauseo AM, Ellebedy A, Theel ES, Diamond MS, Henderson JP. Assessment of serological assays for identifying high titer convalescent plasma. medRxiv. 2021 Mar 28;. doi: 10.1101/2021.03.26.21254427. PubMed PMID: 33791711; PubMed Central PMCID: PMC8010743.

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Klassen SA, Senefeld JW, Johnson PW, Carter RE, Wiggins CC, Shoham S, Grossman BJ, Henderson JP, Musser J, Salazar E, Hartman WR, Bouvier NM, Liu STH, Pirofski LA, Baker SE, van Helmond N, Wright RS, Fairweather D, Bruno KA, Wang Z, Paneth NS, Casadevall A, Joyner MJ. The Effect of Convalescent Plasma Therapy on Mortality Among Patients With COVID-19: Systematic Review and Meta-analysis. Mayo Clin Proc. 2021 May;96(5):1262-1275. doi: 10.1016/j.mayocp.2021.02.008. Epub 2021 Feb 17. PubMed PMID: 33958057; PubMed Central PMCID: PMC7888247.

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Casadevall A, Grossman BJ, Henderson JP, Joyner MJ, Shoham S, Pirofski LA, Paneth N. The Assessment of Convalescent Plasma Efficacy against COVID-19. Med. 2020 Dec 18;1(1):66-77. doi: 10.1016/j.medj.2020.11.002. Review. PubMed PMID: 33363284; PubMed Central PMCID: PMC7747676.

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Henderson JP. What are protective antibody responses to pandemic SARS-CoV-2?. J Clin Invest. 2020 Dec 1;130(12):6232-6234. doi: 10.1172/JCI143466. PubMed PMID: 33055417; PubMed Central PMCID: PMC7685743.

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Guo C, Steinberg LK, Henderson JP, Gross ML. Organic Solvents for Enhanced Proteolysis of Stable Proteins for Hydrogen-Deuterium Exchange Mass Spectrometry. Anal Chem. 2020 Sep 1;92(17):11553-11557. doi: 10.1021/acs.analchem.0c02194. Epub 2020 Aug 12. PubMed PMID: 32867496; PubMed Central PMCID: PMC7485609.

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Bloch EM, Shoham S, Casadevall A, Sachais BS, Shaz B, Winters JL, van Buskirk C, Grossman BJ, Joyner M, Henderson JP, Pekosz A, Lau B, Wesolowski A, Katz L, Shan H, Auwaerter PG, Thomas D, Sullivan DJ, Paneth N, Gehrie E, Spitalnik S, Hod EA, Pollack L, Nicholson WT, Pirofski LA, Bailey JA, Tobian AA. Deployment of convalescent plasma for the prevention and treatment of COVID-19. J Clin Invest. 2020 Jun 1;130(6):2757-2765. doi: 10.1172/JCI138745. Review. PubMed PMID: 32254064; PubMed Central PMCID: PMC7259988.

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Case JB, Rothlauf PW, Chen RE, Liu Z, Zhao H, Kim AS, Bloyet LM, Zeng Q, Tahan S, Droit L, Ilagan MXG, Tartell MA, Amarasinghe G, Henderson JP, Miersch S, Ustav M, Sidhu S, Virgin HW, Wang D, Ding S, Corti D, Theel ES, Fremont DH, Diamond MS, Whelan SPJ. Neutralizing antibody and soluble ACE2 inhibition of a replication-competent VSV-SARS-CoV-2 and a clinical isolate of SARS-CoV-2. bioRxiv. 2020 May 18;. doi: 10.1101/2020.05.18.102038. PubMed PMID: 32511401; PubMed Central PMCID: PMC7263548.

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Guo C, Steinberg LK, Cheng M, Song JH, Henderson JP, Gross ML. Site-Specific Siderocalin Binding to Ferric and Ferric-Free Enterobactin As Revealed by Mass Spectrometry. ACS Chem Biol. 2020 May 15;15(5):1154-1160. doi: 10.1021/acschembio.9b00741. Epub 2020 Jan 13. PubMed PMID: 31869199; PubMed Central PMCID: PMC7236765.

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Robinson JI, Weir WH, Crowley JR, Hink T, Reske KA, Kwon JH, Burnham CD, Dubberke ER, Mucha PJ, Henderson JP. Metabolomic networks connect host-microbiome processes to human Clostridioides difficile infections. J Clin Invest. 2019 Aug 12;129(9):3792-3806. doi: 10.1172/JCI126905. eCollection 2019 Aug 12. PubMed PMID: 31403473; PubMed Central PMCID: PMC6715368.

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Westfall C, Flores-Mireles AL, Robinson JI, Lynch AJL, Hultgren S, Henderson JP, Levin PA. The Widely Used Antimicrobial Triclosan Induces High Levels of Antibiotic Tolerance In Vitro and Reduces Antibiotic Efficacy up to 100-Fold In Vivo. Antimicrob Agents Chemother. 2019 May;63(5). doi: 10.1128/AAC.02312-18. Print 2019 May. PubMed PMID: 30782996; PubMed Central PMCID: PMC6496070.

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Nickel JC, Stephens-Shields AJ, Landis JR, Mullins C, van Bokhoven A, Lucia MS, Henderson JP, Sen B, Krol JE, Ehrlich GD, MAPP Research Network. A Culture-Independent Analysis of the Microbiota of Female Interstitial Cystitis/Bladder Pain Syndrome Participants in the MAPP Research Network. J Clin Med. 2019 Mar 26;8(3). doi: 10.3390/jcm8030415. PubMed PMID: 30917614; PubMed Central PMCID: PMC6462969.

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Ohlemacher SI, Xu Y, Kober DL, Malik M, Nix JC, Brett TJ, Henderson JP. YbtT is a low-specificity type II thioesterase that maintains production of the metallophore yersiniabactin in pathogenic enterobacteria. J Biol Chem. 2018 Dec 21;293(51):19572-19585. doi: 10.1074/jbc.RA118.005752. Epub 2018 Oct 24. PubMed PMID: 30355735; PubMed Central PMCID: PMC6314147.

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Dubberke ER, Reske KA, Hink T, Kwon JH, Cass C, Bongu J, Burnham CD, Henderson JP. Clostridium difficile colonization among patients with clinically significant diarrhea and no identifiable cause of diarrhea. Infect Control Hosp Epidemiol. 2018 Nov;39(11):1330-1333. doi: 10.1017/ice.2018.225. Epub 2018 Sep 18. PubMed PMID: 30226126; PubMed Central PMCID: PMC6890223.

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Robinson AE, Lowe JE, Koh EI, Henderson JP. Uropathogenic enterobacteria use the yersiniabactin metallophore system to acquire nickel. J Biol Chem. 2018 Sep 28;293(39):14953-14961. doi: 10.1074/jbc.RA118.004483. Epub 2018 Aug 14. PubMed PMID: 30108176; PubMed Central PMCID: PMC6166729.

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Stanley N, Kwitt R, Niethammer M, Mucha PJ. Compressing Networks with Super Nodes. Sci Rep. 2018 Jul 18;8(1):10892. doi: 10.1038/s41598-018-29174-3. PubMed PMID: 30022035; PubMed Central PMCID: PMC6052167.

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Robinson AE, Heffernan JR, Henderson JP. The iron hand of uropathogenic Escherichia coli: the role of transition metal control in virulence. Future Microbiol. 2018 Jun 1;13(7):745-756. doi: 10.2217/fmb-2017-0295. Epub 2018 Jun 5. Review. PubMed PMID: 29870278; PubMed Central PMCID: PMC6161082.

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Robinson AE, Henderson JP, Henzler-Wildman KA. A mass spectrometry based transport assay for studying EmrE transport of unlabeled substrates. Anal Biochem. 2018 May 15;549:130-135. doi: 10.1016/j.ab.2018.03.017. Epub 2018 Mar 17. PubMed PMID: 29559333; PubMed Central PMCID: PMC5938110.

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Ohlemacher SI, Giblin DE, d'Avignon DA, Stapleton AE, Trautner BW, Henderson JP. Enterobacteria secrete an inhibitor of Pseudomonas virulence during clinical bacteriuria. J Clin Invest. 2017 Nov 1;127(11):4018-4030. doi: 10.1172/JCI92464. Epub 2017 Sep 25. PubMed PMID: 28945201; PubMed Central PMCID: PMC5663353.

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Weir WH, Emmons S, Gibson R, Taylor D, Mucha PJ. Post-Processing Partitions to Identify Domains of Modularity Optimization. Algorithms. 2017 Sep;10(3). doi: 10.3390/a10030093. Epub 2017 Aug 19. PubMed PMID: 29046743; PubMed Central PMCID: PMC5642987.

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Koh EI, Robinson AE, Bandara N, Rogers BE, Henderson JP. Copper import in Escherichia coli by the yersiniabactin metallophore system. Nat Chem Biol. 2017 Sep;13(9):1016-1021. doi: 10.1038/nchembio.2441. Epub 2017 Jul 24. PubMed PMID: 28759019; PubMed Central PMCID: PMC5562518.

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Shields-Cutler RR, Crowley JR, Miller CD, Stapleton AE, Cui W, Henderson JP. Human Metabolome-derived Cofactors Are Required for the Antibacterial Activity of Siderocalin in Urine. J Biol Chem. 2016 Dec 9;291(50):25901-25910. doi: 10.1074/jbc.M116.759183. Epub 2016 Oct 25. PubMed PMID: 27780864; PubMed Central PMCID: PMC5207064.

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Koh EI, Hung CS, Henderson JP. The Yersiniabactin-Associated ATP Binding Cassette Proteins YbtP and YbtQ Enhance Escherichia coli Fitness during High-Titer Cystitis. Infect Immun. 2016 May;84(5):1312-1319. doi: 10.1128/IAI.01211-15. Print 2016 May. PubMed PMID: 26883590; PubMed Central PMCID: PMC4862725.

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Parker KS, Crowley JR, Stephens-Shields AJ, van Bokhoven A, Lucia MS, Lai HH, Andriole GL, Hooton TM, Mullins C, Henderson JP. Urinary Metabolomics Identifies a Molecular Correlate of Interstitial Cystitis/Bladder Pain Syndrome in a Multidisciplinary Approach to the Study of Chronic Pelvic Pain (MAPP) Research Network Cohort. EBioMedicine. 2016 May;7:167-74. doi: 10.1016/j.ebiom.2016.03.040. Epub 2016 Mar 31. PubMed PMID: 27322470; PubMed Central PMCID: PMC4909380.