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David A Baker

TitleAsst Professor
InstitutionUniversity of Colorado Denver - Anschutz Medical Campus
DepartmentSOM-PM&R General Operations
Phone720/777-5474

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Bavinton BR, Vaccher S, Jin F, Prestage GP, Holt M, Zablotska-Manos IB, Guy R, Amin J, Templeton DJ, Yeung B, Hammoud MA, Lewis D, Baker D, Dharan N, McNulty AM, Grulich AE. High Levels of Prevention-Effective Adherence to HIV PrEP: An Analysis of Substudy Data From the EPIC-NSW Trial. J Acquir Immune Defic Syndr. 2021 08 01; 87(4):1040-1047. PMID: 33852503.
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    2. Hunt AC, Case JB, Park YJ, Cao L, Wu K, Walls AC, Liu Z, Bowen JE, Yeh HW, Saini S, Helms L, Zhao YT, Hsiang TY, Starr TN, Goreshnik I, Kozodoy L, Carter L, Ravichandran R, Green LB, Matochko WL, Thomson CA, Vögeli B, Krüger-Gericke A, VanBlargan LA, Chen RE, Ying B, Bailey AL, Kafai NM, Boyken S, Ljubetic A, Edman N, Ueda G, Chow C, Addetia A, Panpradist N, Gale M, Freedman BS, Lutz BR, Bloom JD, Ruohola-Baker H, Whelan SPJ, Stewart L, Diamond MS, Veesler D, Jewett MC, Baker D. Multivalent designed proteins protect against SARS-CoV-2 variants of concern. bioRxiv. 2021 Jul 07. PMID: 34268509.
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    3. Imai M, Halfmann PJ, Yamayoshi S, Iwatsuki-Horimoto K, Chiba S, Watanabe T, Nakajima N, Ito M, Kuroda M, Kiso M, Maemura T, Takahashi K, Loeber S, Hatta M, Koga M, Nagai H, Yamamoto S, Saito M, Adachi E, Akasaka O, Nakamura M, Nakachi I, Ogura T, Baba R, Fujita K, Ochi J, Mitamura K, Kato H, Nakajima H, Yagi K, Hattori SI, Maeda K, Suzuki T, Miyazato Y, Valdez R, Gherasim C, Furusawa Y, Okuda M, Ujie M, Lopes TJS, Yasuhara A, Ueki H, Sakai-Tagawa Y, Eisfeld AJ, Baczenas JJ, Baker DA, O'Connor SL, O'Connor DH, Fukushi S, Fujimoto T, Kuroda Y, Gordon A, Maeda K, Ohmagari N, Sugaya N, Yotsuyanagi H, Mitsuya H, Suzuki T, Kawaoka Y. Characterization of a new SARS-CoV-2 variant that emerged in Brazil. Proc Natl Acad Sci U S A. 2021 07 06; 118(27). PMID: 34140350.
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    4. Grulich AE, Jin F, Bavinton BR, Yeung B, Hammoud MA, Amin J, Cabrera G, Clackett S, Ogilvie E, Vaccher S, Vickers T, McNulty A, Smith DJ, Dharan NJ, Selvey C, Power C, Price K, Zablotska I, Baker DA, Bloch M, Brown K, Carmody CJ, Carr A, Chanisheff D, Doong N, Finlayson R, Lewis DA, Lusk J, Martin S, Ooi C, Read P, Ryder N, Smith D, Tuck Meng Soo C, Templeton DJ, Vlahakis E, Guy R. Long-term protection from HIV infection with oral HIV pre-exposure prophylaxis in gay and bisexual men: findings from the expanded and extended EPIC-NSW prospective implementation study. Lancet HIV. 2021 08; 8(8):e486-e494. PMID: 34217426.
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    5. Case JB, Chen RE, Cao L, Ying B, Winkler ES, Johnson M, Goreshnik I, Pham MN, Shrihari S, Kafai NM, Bailey AL, Xie X, Shi PY, Ravichandran R, Carter L, Stewart L, Baker D, Diamond MS. Ultrapotent miniproteins targeting the SARS-CoV-2 receptor-binding domain protect against infection and disease. Cell Host Microbe. 2021 07 14; 29(7):1151-1161.e5. PMID: 34192518.
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    6. Zhang JZ, Yeh HW, Walls AC, Wicky BIM, Sprouse K, VanBlargan LA, Treger R, Quijano-Rubio A, Pham MN, Kraft JC, Haydon IC, Yang W, DeWitt M, Chow C, Carter L, Wener MH, Stewart L, Veesler D, Diamond MS, Baker D. Detection of antibodies neutralizing historical and emerging SARS-CoV-2 strains using a thermodynamically coupled de novo biosensor system. bioRxiv. 2021 Jun 22. PMID: 34189528.
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    7. Heffron AS, McIlwain SJ, Amjadi MF, Baker DA, Khullar S, Armbrust T, Halfmann PJ, Kawaoka Y, Sethi AK, Palmenberg AC, Shelef MA, O'Connor DH, Ong IM. The landscape of antibody binding in SARS-CoV-2 infection. PLoS Biol. 2021 06; 19(6):e3001265. PMID: 34143766.
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    8. Dharan NJ, Yeh P, Bloch M, Yeung MM, Baker D, Guinto J, Roth N, Ftouni S, Ognenovska K, Smith D, Hoy JF, Woolley I, Pell C, Templeton DJ, Fraser N, Rose N, Hutchinson J, Petoumenos K, Dawson SJ, Polizzotto MN, Dawson MA. HIV is associated with an increased risk of age-related clonal hematopoiesis among older adults. Nat Med. 2021 06; 27(6):1006-1011. PMID: 34099923.
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    9. Weinberg ZY, Hilburger CE, Kim M, Cao L, Khalid M, Elmes S, Diwanji D, Hernandez E, Lopez J, Schaefer K, Smith AM, Zhou F, Renuka Kumar G, Ott M, Baker D, El-Samad H. Sentinel cells enable genetic detection of SARS-CoV-2 Spike protein. bioRxiv. 2021 Apr 20. PMID: 33907743.
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    10. Braun KM, Moreno GK, Buys A, Somsen ED, Bobholz M, Accola MA, Anderson L, Rehrauer WM, Baker DA, Safdar N, Lepak AJ, O'Connor DH, Friedrich TC. Viral sequencing reveals US healthcare personnel rarely become infected with SARS-CoV-2 through patient contact. Clin Infect Dis. 2021 Apr 15. PMID: 33857303.
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    11. Balestra AC, Koussis K, Klages N, Howell SA, Flynn HR, Bantscheff M, Pasquarello C, Perrin AJ, Brusini L, Arboit P, Sanz O, Castaño LP, Withers-Martinez C, Hainard A, Ghidelli-Disse S, Snijders AP, Baker DA, Blackman MJ, Brochet M. Ca2+ signals critical for egress and gametogenesis in malaria parasites depend on a multipass membrane protein that interacts with PKG. Sci Adv. 2021 Mar; 7(13). PMID: 33762339.
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    12. Prall TM, Neumann EK, Karl JA, Shortreed CG, Baker DA, Bussan HE, Wiseman RW, O'Connor DH. Consistent ultra-long DNA sequencing with automated slow pipetting. BMC Genomics. 2021 Mar 12; 22(1):182. PMID: 33711930.
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    13. Perrin AJ, Bisson C, Faull PA, Renshaw MJ, Lees RA, Fleck RA, Saibil HR, Snijders AP, Baker DA, Blackman MJ. Malaria Parasite Schizont Egress Antigen-1 Plays an Essential Role in Nuclear Segregation during Schizogony. mBio. 2021 03 09; 12(2). PMID: 33688001.
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    14. Case JB, Chen RE, Cao L, Ying B, Winkler ES, Goreshnik I, Shrihari S, Kafai NM, Bailey AL, Xie X, Shi PY, Ravichandran R, Carter L, Stewart L, Baker D, Diamond MS. Ultrapotent miniproteins targeting the receptor-binding domain protect against SARS-CoV-2 infection and disease in mice. bioRxiv. 2021 Mar 01. PMID: 33688650.
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    15. Braun KM, Moreno GK, Halfmann PJ, Hodcroft EB, Baker DA, Boehm EC, Weiler AM, Haj AK, Hatta M, Chiba S, Maemura T, Kawaoka Y, Koelle K, O'Connor DH, Friedrich TC. Transmission of SARS-CoV-2 in domestic cats imposes a narrow bottleneck. PLoS Pathog. 2021 02; 17(2):e1009373. PMID: 33635912.
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    16. Nofal SD, Patel A, Blackman MJ, Flueck C, Baker DA. Plasmodium falciparum Guanylyl Cyclase-Alpha and the Activity of Its Appended P4-ATPase Domain Are Essential for cGMP Synthesis and Blood-Stage Egress. mBio. 2021 01 26; 12(1). PMID: 33500341.
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    17. Heffron AS, McIlwain SJ, Amjadi MF, Baker DA, Khullar S, Sethi AK, Palmenberg AC, Shelef MA, O'Connor DH, Ong IM. The landscape of antibody binding in SARS-CoV-2 infection. bioRxiv. 2021 Jan 08. PMID: 33052349.
      View in: PubMed
    18. Braun KM, Moreno GK, Halfmann PJ, Hodcroft EB, Baker DA, Boehm EC, Weiler AM, Haj AK, Hatta M, Chiba S, Maemura T, Kawaoka Y, Koelle K, O'Connor DH, Friedrich TC. Transmission of SARS-CoV-2 in domestic cats imposes a narrow bottleneck. bioRxiv. 2021 Jan 04. PMID: 33236011.
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    19. Zhao YT, Fallas JA, Saini S, Ueda G, Somasundaram L, Zhou Z, Xavier I, Ehnes D, Xu C, Carter L, Wrenn S, Mathieu J, Sellers DL, Baker D, Ruohola-Baker H. F-domain valency determines outcome of signaling through the angiopoietin pathway. bioRxiv. 2020 Dec 24. PMID: 33501432.
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    20. Baker DA, Matralis AN, Osborne SA, Large JM, Penzo M. Targeting the Malaria Parasite cGMP-Dependent Protein Kinase to Develop New Drugs. Front Microbiol. 2020; 11:602803. PMID: 33391223.
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    21. Divine R, Dang HV, Ueda G, Fallas JA, Vulovic I, Sheffler W, Saini S, Zhao YT, Raj IX, Morawski PA, Jennewein MF, Homad LJ, Wan YH, Tooley MR, Seeger F, Etemadi A, Fahning ML, Lazarovits J, Roederer A, Walls AC, Stewart L, Mazloomi M, King NP, Campbell DJ, McGuire AT, Stamatatos L, Ruohola-Baker H, Mathieu J, Veesler D, Baker D. Designed proteins assemble antibodies into modular nanocages. bioRxiv. 2020 Dec 01. PMID: 33299994.
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    22. Moreno GK, Braun KM, Riemersma KK, Martin MA, Halfmann PJ, Crooks CM, Prall T, Baker D, Baczenas JJ, Heffron AS, Ramuta M, Khubbar M, Weiler AM, Accola MA, Rehrauer WM, O'Connor SL, Safdar N, Pepperell CS, Dasu T, Bhattacharyya S, Kawaoka Y, Koelle K, O'Connor DH, Friedrich TC. Revealing fine-scale spatiotemporal differences in SARS-CoV-2 introduction and spread. Nat Commun. 2020 11 03; 11(1):5558. PMID: 33144575.
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    23. Martinello M, Yee J, Bartlett SR, Read P, Baker D, Post JJ, Finlayson R, Bloch M, Doyle J, Shaw D, Hellard M, Petoumenos K, Lin L, Marks P, Applegate T, Dore GJ, Matthews GV. Moving Towards Hepatitis C Microelimination Among People Living With Human Immunodeficiency Virus in Australia: The CEASE Study. Clin Infect Dis. 2020 09 12; 71(6):1502-1510. PMID: 31585005.
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    24. Cao L, Goreshnik I, Coventry B, Case JB, Miller L, Kozodoy L, Chen RE, Carter L, Walls L, Park YJ, Stewart L, Diamond M, Veesler D, Baker D. De novo design of picomolar SARS-CoV-2 miniprotein inhibitors. bioRxiv. 2020 Aug 03. PMID: 32793905.
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    25. Quijano-Rubio A, Yeh HW, Park J, Lee H, Langan RA, Boyken SE, Lajoie MJ, Cao L, Chow CM, Miranda MC, Wi J, Hong HJ, Stewart L, Oh BH, Baker D. De novo design of modular and tunable allosteric biosensors. bioRxiv. 2020 Jul 20. PMID: 32743576.
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    26. Hosseini-Hooshyar S, Martinello M, Yee J, Read P, Baker D, Post JJ, Finlayson R, Bloch M, Doyle JS, Shaw D, Hellard M, Petoumenos K, Carson J, Dore GJ, Matthews GV. Low hepatitis C virus reinfection rate despite ongoing risk following universal access to direct-acting antiviral therapy among people living with HIV. AIDS. 2020 07 15; 34(9):1347-1358. PMID: 32590433.
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    27. Baker D, Amor S, Kang AS, Schmierer K, Giovannoni G. The underpinning biology relating to multiple sclerosis disease modifying treatments during the COVID-19 pandemic. Mult Scler Relat Disord. 2020 Aug; 43:102174. PMID: 32464584.
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    28. Carr M, Richardson R, Tong W, Bloch M, Baker D, Hoy JF. Switch from tenofovir disoproxil fumarate to raltegravir is not associated with weight gain over 96 weeks. AIDS. 2020 04 01; 34(5):789-790. PMID: 31895147.
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    29. Mohring F, Hart MN, Patel A, Baker DA, Moon RW. CRISPR-Cas9 Genome Editing of Plasmodium knowlesi. Bio Protoc. 2020 Feb 20; 10(4):e3522. PMID: 33654746.
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    30. Aboud M, Orkin C, Podzamczer D, Bogner JR, Baker D, Khuong-Josses MA, Parks D, Angelis K, Kahl LP, Blair EA, Adkison K, Underwood M, Matthews JE, Wynne B, Vandermeulen K, Gartland M, Smith K. Efficacy and safety of dolutegravir-rilpivirine for maintenance of virological suppression in adults with HIV-1: 100-week data from the randomised, open-label, phase 3 SWORD-1 and SWORD-2 studies. Lancet HIV. 2019 09; 6(9):e576-e587. PMID: 31307948.
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    31. Bavinton BR, Prestage GP, Jin F, Phanuphak N, Grinsztejn B, Fairley CK, Baker D, Hoy J, Templeton DJ, Tee BK, Kelleher A, Grulich AE. Strategies used by gay male HIV serodiscordant couples to reduce the risk of HIV transmission from anal intercourse in three countries. J Int AIDS Soc. 2019 04; 22(4):e25277. PMID: 30983155.
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    32. Callander D, Bourne C, Wand H, Stoové M, Hocking JS, de Wit J, Kaldor JM, Donovan B, Pell C, Finlayson R, Baker D, Forssman B, Tee BK, Kefalas B, Duck T, Guy R. Assessing the Impacts of Integrated Decision Support Software on Sexual Orientation Recording, Comprehensive Sexual Health Testing, and Detection of Infections Among Gay and Bisexual Men Attending General Practice: Observational Study. JMIR Med Inform. 2018 Nov 06; 6(4):e10808. PMID: 30401672.
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    33. Mao Z, Álvarez-González C, Allen-Philbey K, De Trane S, Yildiz O, Campion T, Adams A, Turner BP, Marta M, Gnanapavan S, Espasandin M, Mathews J, Giovannoni G, Baker D, Schmierer K. Treating the ineligible: Disease modification in people with multiple sclerosis beyond NHS England commissioning policies. Mult Scler Relat Disord. 2019 Jan; 27:247-253. PMID: 30419510.
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    34. Grulich AE, Guy R, Amin J, Jin F, Selvey C, Holden J, Schmidt HA, Zablotska I, Price K, Whittaker B, Chant K, Cooper C, McGill S, Telfer B, Yeung B, Levitt G, Ogilvie EE, Dharan NJ, Hammoud MA, Vaccher S, Watchirs-Smith L, McNulty A, Smith DJ, Allen DM, Baker D, Bloch M, Bopage RI, Brown K, Carr A, Carmody CJ, Collins KL, Finlayson R, Foster R, Jackson EY, Lewis DA, Lusk J, O'Connor CC, Ryder N, Vlahakis E, Read P, Cooper DA. Population-level effectiveness of rapid, targeted, high-coverage roll-out of HIV pre-exposure prophylaxis in men who have sex with men: the EPIC-NSW prospective cohort study. Lancet HIV. 2018 11; 5(11):e629-e637. PMID: 30343026.
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    35. Bavinton BR, Pinto AN, Phanuphak N, Grinsztejn B, Prestage GP, Zablotska-Manos IB, Jin F, Fairley CK, Moore R, Roth N, Bloch M, Pell C, McNulty AM, Baker D, Hoy J, Tee BK, Templeton DJ, Cooper DA, Emery S, Kelleher A, Grulich AE. Viral suppression and HIV transmission in serodiscordant male couples: an international, prospective, observational, cohort study. Lancet HIV. 2018 08; 5(8):e438-e447. PMID: 30025681.
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    36. Ferrer PE, Bloch M, Roth N, Finlayson R, Baker D, Koh K, Orth D, Urbaityte R, Brown D, Drummond F. A retrospective clinical audit of general practices in Australia to determine the motivation for switch to dolutegravir/abacavir/lamivudine and clinical outcomes. Int J STD AIDS. 2018 03; 29(3):300-305. PMID: 28901212.
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    37. Petoumenos K, Huang R, Hoy J, Bloch M, Templeton DJ, Baker D, Giles M, Law MG, Cooper DA. Prevalence of self-reported comorbidities in HIV positive and HIV negative men who have sex with men over 55 years-The Australian Positive & Peers Longevity Evaluation Study (APPLES). PLoS One. 2017; 12(9):e0184583. PMID: 28886173.
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    38. Martinello M, Dore GJ, Skurowski J, Bopage RI, Finlayson R, Baker D, Bloch M, Matthews GV. Antiretroviral Use in the CEASE Cohort Study and Implications for Direct-Acting Antiviral Therapy in Human Immunodeficiency Virus/Hepatitis C Virus Coinfection. Open Forum Infect Dis. 2016 Apr; 3(2):ofw105. PMID: 27419177.
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    39. Read PJ, Guy R, Jeoffreys N, Baker D, Shields M, Donovan B. Treatment and outcomes of polymerase chain reaction-confirmed early syphilis. Sex Health. 2015 Nov; 12(6):506-11. PMID: 26255040.
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    40. McManus H, Petoumenos K, Brown K, Baker D, Russell D, Read T, Smith D, Wray L, Giles M, Hoy J, Carr A, Law MG. Loss to follow-up in the Australian HIV Observational Database. Antivir Ther. 2015; 20(7):731-41. PMID: 25377928.
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    41. Callander D, Bourne C, Pell C, Finlayson R, Forssman B, Baker D, de Wit J, Hocking J, Stoové M, Donovan B, Kaldor J, Guy R. Recording the sexual orientation of male patients attending general practice. Fam Pract. 2015 Feb; 32(1):35-40. PMID: 25236604.
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    42. Baker D, Alavi M, Erratt A, Hill S, Balcomb A, Hallinan R, Siriragavan S, Richmond D, Smart J, Keats J, Doong N, Marks P, Grebely J, Dore GJ. Delivery of treatment for hepatitis C virus infection in the primary care setting. Eur J Gastroenterol Hepatol. 2014 Sep; 26(9):1003-9. PMID: 25051216.
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    43. Magadán JG, Altman MO, Ince WL, Hickman HD, Stevens J, Chevalier A, Baker D, Wilson PC, Ahmed R, Bennink JR, Yewdell JW. Biogenesis of influenza a virus hemagglutinin cross-protective stem epitopes. PLoS Pathog. 2014 Jun; 10(6):e1004204. PMID: 24945804.
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    44. Baker DA, Schweitzer NJ, Risko EF, Ware JM. Visual attention and the neuroimage bias. PLoS One. 2013; 8(9):e74449. PMID: 24040251.
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    45. Guy R, El-Hayek C, Fairley CK, Wand H, Carr A, McNulty A, Hoy J, Bourne C, McAllister J, Tee BK, Baker D, Roth N, Stoove M, Chen M. Opt-out and opt-in testing increases syphilis screening of HIV-positive men who have sex with men in Australia. PLoS One. 2013; 8(8):e71436. PMID: 24009661.
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    46. Callander D, Baker D, Chen M, Guy R. Including syphilis testing as part of standard HIV management checks and improved syphilis screening in primary care. Sex Transm Dis. 2013 Apr; 40(4):338-40. PMID: 23486501.
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    47. Murray JM, McBride K, Boesecke C, Bailey M, Amin J, Suzuki K, Baker D, Zaunders JJ, Emery S, Cooper DA, Koelsch KK, Kelleher AD. Integrated HIV DNA accumulates prior to treatment while episomal HIV DNA records ongoing transmission afterwards. AIDS. 2012 Mar 13; 26(5):543-50. PMID: 22410637.
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    48. Koelsch KK, Boesecke C, McBride K, Gelgor L, Fahey P, Natarajan V, Baker D, Bloch M, Murray JM, Zaunders J, Emery S, Cooper DA, Kelleher AD. Impact of treatment with raltegravir during primary or chronic HIV infection on RNA decay characteristics and the HIV viral reservoir. AIDS. 2011 Nov 13; 25(17):2069-78. PMID: 21860347.
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    49. Martin A, Amin J, Emery S, Baker D, Carr A, Cooper DA, Bloch M. Predictors of limb fat gain in HIV positive patients following a change to tenofovir-emtricitabine or abacavir-lamivudine. PLoS One. 2011; 6(10):e26885. PMID: 22046394.
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    50. Martin A, Amin J, Cooper DA, Carr A, Kelleher AD, Bloch M, Baker D, Woolley I, Emery S. Abacavir does not affect circulating levels of inflammatory or coagulopathic biomarkers in suppressed HIV: a randomized clinical trial. AIDS. 2010 Nov 13; 24(17):2657-63. PMID: 20827168.
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    51. Martin A, Bloch M, Amin J, Baker D, Cooper DA, Emery S, Carr A. Simplification of antiretroviral therapy with tenofovir-emtricitabine or abacavir-Lamivudine: a randomized, 96-week trial. Clin Infect Dis. 2009 Nov 15; 49(10):1591-601. PMID: 19842973.
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    52. Carey DL, Baker D, Rogers GD, Petoumenos K, Chuah J, Easey N, Machon K, Cooper DA, Emery S, Carr A. A randomized, multicenter, open-label study of poly-L-lactic acid for HIV-1 facial lipoatrophy. . 2007 Dec 15; 46(5):581-9. PMID: 18193500.
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    53. Carr A, Workman C, Carey D, Rogers G, Martin A, Baker D, Wand H, Law M, Samaras K, Emery S, Cooper DA. No effect of rosiglitazone for treatment of HIV-1 lipoatrophy: randomised, double-blind, placebo-controlled trial. Lancet. 2004 Feb 07; 363(9407):429-38. PMID: 14962523.
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