My Bibliography

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Smith DM, May SJ, Pérez-Santiago J, Strain MC, Haubrich R, Richman DD, Benson C, Little SJ. The Use of Pooled Viral Load Testing to Identify Antiretroviral Treatment Failure. Conference on Retroviruses and Opportunistic Infections. 2009 February; Montreal, Canada.

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Smith DM, May SJ, Pérez-Santiago J, Strain MC, Ignacio CC, Haubrich RH, Richman DD, Benson CA, Little SJ. The use of pooled viral load testing to identify antiretroviral treatment failure. AIDS. 2009 Oct 23;23(16):2151-8. doi: 10.1097/QAD.0b013e3283313ca9. PubMed PMID: 19730348; PubMed Central PMCID: PMC2915784.

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Woelk CH, Beliakova-Bethell N, Goicoechea M, Zhao Y, Du P, Rought SE, Lozach J, Pérez-Santiago J, Richman DD, Smith DM, Little SJ. Gene expression before HAART initiation predicts HIV-infected individuals at risk of poor CD4+ T-cell recovery. AIDS. 2010 Jan 16;24(2):217-22. doi: 10.1097/QAD.0b013e328334f1f0. PubMed PMID: 19952713; PubMed Central PMCID: PMC2915828.

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Manosuthi W, Butler DM, Pérez-Santiago J, Poon AF, Pillai SK, Mehta SR, Pacold ME, Richman DD, Pond SK, Smith DM. Protease polymorphisms in HIV-1 subtype CRF01_AE represent selection by antiretroviral therapy and host immune pressure. AIDS. 2010 Jan 28;24(3):411-6. doi: 10.1097/QAD.0b013e3283350eef. PubMed PMID: 20009919; PubMed Central PMCID: PMC2913588.

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Pérez-Santiago J, Pond SL, Vaida F, Podar S, Pacold ME, Little SJ, Richman DD, Smith DM. Non-synonymous Mixtures Reveal Fixation of Viral Population after 3 Years of Infection. Conference on Retroviruses and Opportunistic Infections. 2010 February; San Francisco, CA, USA.

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Wang J, Pérez-Santiago J, Katz JE, Mallick P, Bandeira N. Peptide identification from mixture tandem mass spectra. Mol Cell Proteomics. 2010 Jul;9(7):1476-85. doi: 10.1074/mcp.M000136-MCP201. Epub 2010 Mar 27. PubMed PMID: 20348588; PubMed Central PMCID: PMC2938093.

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Hightower GK, May SJ, Mehta SR, Pérez-Santiago J, Yanez D, Little SJ, Richman DR, Pond SL, Smith DM. The velocity of HIV-1 pol Evolution following Primary Infection. Conference on Retroviruses and Opportunistic Infections. 2011 February; Boston, MA, USA.

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Tilghman MW, Guerena DD, Licea A, Pérez-Santiago J, Richman DD, May S, Smith DM. Pooled nucleic acid testing to detect antiretroviral treatment failure in Mexico. J Acquir Immune Defic Syndr. 2011 Mar 1;56(3):e70-4. doi: 10.1097/QAI.0b013e3181ff63d7. PubMed PMID: 21124228; PubMed Central PMCID: PMC3039117.

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Woelk CH, Singhania A, Pérez-Santiago J, Glatt SJ, Tsuang MT. The utility of gene expression in blood cells for diagnosing neuropsychiatric disorders. Int Rev Neurobiol. 2011;101:41-63. doi: 10.1016/B978-0-12-387718-5.00003-1. Review. PubMed PMID: 22050848.

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Massanella M, Carrillo J, Curriu M, Pérez-Santiago J, Puig J, Clotet B, Negredo E, Blanco J. Altered Numbers, Frequency and Phenotype of Tregs from Virologically Suppressed HIV-infected Individuals with Poor CD4 T-cell Recovery. Conference on Retroviruses and Opportunistic Infections. 2012 March; Seattle, WA, USA.

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Pérez-Santiago J, Plongthongkum N, Letendre SL, Ellis RJ, Moore DJ, Gouaux B, LeBlanc S, Rajagopal N, Zhang K, Woelk CH. DNA Methylation Correlates with Neurological Decline in HIV-Infected Individuals. Conference on Retroviruses and Opportunistic Infections. 2012 March; Seattle, WA, USA.

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Pérez-Santiago J, Weir CR, Karris MY, Jordan PS, Young JA, Mehta SR, Massanella M, Richman DR, Little SJ, Smith DM. Specific Gut Bacterial Flora is Associated with Higher CD4% during HIV Primary Infection. Conference on Retroviruses and Opportunistic Infections. 2012 March; Seattle, WA, USA.

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Tilghman MW, May SJ, Pérez-Santiago J, Ignacio C, Little SJ, Richman DD, Smith DM. Combined Testing for Antiretroviral Treatment Failure and Drug Resistance in Resource-Limited Settings. Conference on Retroviruses and Opportunistic Infections. 2012 March; Seattle, WA, USA.

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Tilghman MW, May S, Pérez-Santiago J, Ignacio CC, Little SJ, Richman DD, Smith DM. A combined screening platform for HIV treatment failure and resistance. PLoS One. 2012;7(4):e35401. doi: 10.1371/journal.pone.0035401. Epub 2012 Apr 26. PubMed PMID: 22563383; PubMed Central PMCID: PMC3338506.

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Pérez-Santiago J, Diez-Alarcia R, Callado LF, Zhang JX, Chana G, White CH, Glatt SJ, Tsuang MT, Everall IP, Meana JJ, Woelk CH. A combined analysis of microarray gene expression studies of the human prefrontal cortex identifies genes implicated in schizophrenia. J Psychiatr Res. 2012 Nov;46(11):1464-74. doi: 10.1016/j.jpsychires.2012.08.005. Epub 2012 Sep 3. PubMed PMID: 22954356.

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Pérez-Santiago J, Gianella S, Massanella M, Spina CA, Karris MY, Var SR, Patel D, Jordan PS, Young JA, Little SJ, Richman DD, Smith DM. Gut Lactobacillales are associated with higher CD4 and less microbial translocation during HIV infection. Conference on Retroviruses and Opportunistic Infections. 2013 March; Atlanta, GA, USA.

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Negredo E, Massanella M, Puertas MC, Buzón MJ, Puig J, Pérez-Alvárez N, Pérez-Santiago J, Bonjoch A, Moltó J, Jou A, Echeverría P, Llibre JM, Martínez-Picado J, Clotet B, Blanco J. Early but limited effects of raltegravir intensification on CD4 T cell reconstitution in HIV-infected patients with an immunodiscordant response to antiretroviral therapy. J Antimicrob Chemother. 2013 Oct;68(10):2358-62. doi: 10.1093/jac/dkt183. Epub 2013 May 14. PubMed PMID: 23677919; PubMed Central PMCID: PMC4439517.

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Hightower GK, May SJ, Pérez-Santiago J, Pacold ME, Wagner GA, Little SJ, Richman DD, Mehta SR, Smith DM, Pond SL. HIV-1 clade B pol evolution following primary infection. PLoS One. 2013;8(6):e68188. doi: 10.1371/journal.pone.0068188. Print 2013. PubMed PMID: 23840830; PubMed Central PMCID: PMC3695957.

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Pérez-Santiago J, Gianella S, Massanella M, Spina CA, Karris MY, Var SR, Patel D, Jordan PS, Young JA, Little SJ, Richman DD, Smith DM. Gut Lactobacillales are associated with higher CD4 and less microbial translocation during HIV infection. AIDS. 2013 Jul 31;27(12):1921-31. doi: 10.1097/qad.0b013e3283611816. PubMed PMID: 24180001; PubMed Central PMCID: PMC3816380.

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Massanella M, Singhania A, Beliakova-Bethell N, Pier R, Lada SM, White CH, Pérez-Santiago J, Blanco J, Richman DD, Little SJ, Woelk CH. Differential gene expression in HIV-infected individuals following ART. Antiviral Res. 2013 Nov;100(2):420-8. doi: 10.1016/j.antiviral.2013.07.017. Epub 2013 Aug 6. PubMed PMID: 23933117; PubMed Central PMCID: PMC3899918.

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Pérez-Santiago J, Schrier RD, Massanella M, Gianella S, Cherner M, Var SR, Day TR, Ramirez-Gaona M, Smith DM, Ellis RJ, Letendre SL, Mehta SR. DNA in CSF is Associated with Inflammation and Severity of Neurocognitive Deficits in HIV Infection. Conference on Retroviruses and Opportunistic Infections. 2014 February; Boston, MA, USA.

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Gianella S, Anderson C, Var SR, Oliveira MF, Massanella M, Little SJ, Richman DD, Strain MC, Pérez-Santiago J, Smith DM. Detectable CMV in PBMC Is Associated with Slower HIV DNA Decay during Suppressive ART. Conference on Retroviruses and Opportunistic Infections. 2015 February; Boston, MA, USA.

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Pérez-Santiago J, Oliveira MF, Murrell B, Var SR, Day TR, Woods SP, Ellis RJ, Gianella S, Mehta SR. Mitochondrial DNA, Neurologic and Systemic Inflammation, and Immune Dysregulation. Conference on Retroviruses and Opportunistic Infections. 2015 February; Seattle, WA, USA.

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Var SR, Day TR, Vitomirov A, Smith DM, Soontornniyomkij V, Achim C, Mehta SR, Pérez-Santiago J. Mitochondrial Injury and Cognitive Function in HIV Infection and Methamphetamine. Conference on Retroviruses and Opportunistic Infections. 2015 February; Boston, MA, USA.

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Vitomirov A, Smith DM, Var SR, Jordan PS, Richman DD, Little SJ, Pérez-Santiago J. Maraviroc does not induce changes in the gut microbiome of HIV infected individuals. Conference on Retroviruses and Opportunistic Infections. 2015 February; Boston, MA, USA.

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Oliveira MF, Murrell B, Pérez-Santiago J, Vargas M, Ellis RJ, Letendre SL, Grant I, Smith DM, Woods SP, Gianella S. HIV DNA and Neurocognitive Impairment in Older Subjects on Suppressive ART. Conference on Retroviruses and Opportunistic Infections. 2015 February; Seattle, WA, USA.

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Day TR, Smith DM, Heaton R, Franklin D, Tilghman MW, Pérez-Santiago J. Subtype Associations with HIV Associated Neurocognitive Dysfunction. Conference on Retroviruses and Opportunistic Infections. 2015 February; Boston, MA, USA.

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Pérez-Santiago J, Massanella M, Ouchi D, Gomez E, Cabrera C, Clotet B, Negredo E, Blanco J. A Random Forest Approach to Define Immunological Thresholds for CD4 Recovery in HIV-treated Individuals. Conference on Retroviruses and Opportunistic Infections. 2015 February; Seattle, WA, USA.

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Schrier RD, Hong S, Crescini M, Ellis R, Pérez-Santiago J, Spina C, Letendre S. Cerebrospinal fluid (CSF) CD8+ T-cells that express interferon-gamma contribute to HIV associated neurocognitive disorders (HAND). PLoS One. 2015;10(2):e0116526. doi: 10.1371/journal.pone.0116526. eCollection 2015. PubMed PMID: 25719800; PubMed Central PMCID: PMC4342256.

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Fields JA, Pérez-Santiago J, Mehta SR, Smith DM, Ellis RJ, Masliah EE. Mitochondrial DNA Copy Number and Common Deletion Quantity Alterations in Peripheral Nerve Tissues from Donors with HIV Sensory Neuropathy. 13th International Symposium of NeuroVirology. 2015 June; San Diego, CA, USA.

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Pérez-Santiago J, Vitomirov A, Suben JD, Letendre SL, Little SJ, Smith DM. The Human Gut Microbiome is Associated with Neurocognitive Impairment during HIV Infection. 13th International Symposium of NeuroVirology. 2015 June; San Diego, CA, USA.

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Pérez-Santiago J, Mehta SR, Day TR, Suben JD, Barnholtz-Sloan J, Gittleman H, Letendre SL, Ellis RJ, Heaton R, Hulgan T, Kallianpur A. Cerebrospinal Fluid Cell-Free Mitochondrial DNA Levels are Elevated in HIV-Associated Neurocognitive Disorder. 13th International Symposium of NeuroVirology. 2015 June; San Diego, CA, United States.

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Massanella M, Gianella S, Schrier R, Dan JM, Pérez-Santiago J, Oliveira MF, Richman DD, Little SJ, Benson CA, Daar ES, Dube MP, Haubrich RH, Smith DM, Morris SR. Methamphetamine Use in HIV-infected Individuals Affects T-cell Function and Viral Outcome during Suppressive Antiretroviral Therapy. Sci Rep. 2015 Aug 24;5:13179. doi: 10.1038/srep13179. PubMed PMID: 26299251; PubMed Central PMCID: PMC4547398.

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Day TR, Smith DM, Heaton RK, Franklin D, Tilghman MW, Letendre S, Jin H, Wu Z, Shi C, Yu X, Pérez-Santiago J. Subtype associations with HIV-associated neurocognitive disorder in China. J Neurovirol. 2016 Apr;22(2):246-50. doi: 10.1007/s13365-015-0377-4. Epub 2015 Aug 26. PubMed PMID: 26306690; PubMed Central PMCID: PMC4769127.

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Pérez-Santiago J, Schrier RD, de Oliveira MF, Gianella S, Var SR, Day TR, Ramirez-Gaona M, Suben JD, Murrell B, Massanella M, Cherner M, Smith DM, Ellis RJ, Letendre SL, Mehta SR. Cell-free mitochondrial DNA in CSF is associated with early viral rebound, inflammation, and severity of neurocognitive deficits in HIV infection. J Neurovirol. 2016 Apr;22(2):191-200. doi: 10.1007/s13365-015-0384-5. Epub 2015 Oct 1. PubMed PMID: 26428514; PubMed Central PMCID: PMC4862614.

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de Oliveira MF, Murrell B, Pérez-Santiago J, Vargas M, Ellis RJ, Letendre S, Grant I, Smith DM, Woods SP, Gianella S. Circulating HIV DNA Correlates With Neurocognitive Impairment in Older HIV-infected Adults on Suppressive ART. Sci Rep. 2015 Nov 25;5:17094. doi: 10.1038/srep17094. PubMed PMID: 26603568; PubMed Central PMCID: PMC4658529.

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Chaillon A, Gianella S, Lada SM, Perez-Santiago J, Jordan P, Ignacio C, Karris M, Richman DD, Mehta SR, Little SJ, Wertheim JO, Smith DM. Size, Composition, and Evolution of HIV DNA Populations during Early Antiretroviral Therapy and Intensification with Maraviroc. J Virol. 2018 Feb 1;92(3). doi: 10.1128/JVI.01589-17. Print 2018 Feb 1. PubMed PMID: 29142136; PubMed Central PMCID: PMC5774877.

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Massanella M, Karris MY, Pérez-Santiago J, Yek C, Vitomirov A, Mehta SR. Analyses of Mitochondrial DNA and Immune Phenotyping Suggest Accelerated T-Cell Turnover in Treated HIV. J Acquir Immune Defic Syndr. 2018 Nov 1;79(3):399-406. doi: 10.1097/QAI.0000000000001824. PubMed PMID: 30312276; PubMed Central PMCID: PMC6650285.

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Swinton MK, Carson A, Telese F, Sanchez AB, Soontornniyomkij B, Rad L, Batki I, Quintanilla B, Pérez-Santiago J, Achim CL, Letendre S, Ellis RJ, Grant I, Murphy AN, Fields JA. Mitochondrial biogenesis is altered in HIV+ brains exposed to ART: Implications for therapeutic targeting of astroglia. Neurobiol Dis. 2019 Oct;130:104502. doi: 10.1016/j.nbd.2019.104502. Epub 2019 Jun 22. PubMed PMID: 31238091; PubMed Central PMCID: PMC6714553.

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Gómez-Moreno R, Martínez-Ramírez R, Roche-Lima A, Carrasquillo-Carrión K, Pérez-Santiago J, Baerga-Ortiz A. Hotspots of Sequence Variability in Gut Microbial Genes Encoding Pro-Inflammatory Factors Revealed by Oligotyping. Front Genet. 2019;10:631. doi: 10.3389/fgene.2019.00631. eCollection 2019. PubMed PMID: 31354787; PubMed Central PMCID: PMC6629961.

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Bridel C, van Wieringen WN, Zetterberg H, Tijms BM, Teunissen CE, Alvarez-Cermeño JC, Andreasson U, Axelsson M, Bäckström DC, Bartos A, Bjerke M, Blennow K, Boxer A, Brundin L, Burman J, Christensen T, Fialová L, Forsgren L, Frederiksen JL, Gisslén M, Gray E, Gunnarsson M, Hall S, Hansson O, Herbert MK, Jakobsson J, Jessen-Krut J, Janelidze S, Johannsson G, Jonsson M, Kappos L, Khademi M, Khalil M, Kuhle J, Landén M, Leinonen V, Logroscino G, Lu CH, Lycke J, Magdalinou NK, Malaspina A, Mattsson N, Meeter LH, Mehta SR, Modvig S, Olsson T, Paterson RW, Pérez-Santiago J, Piehl F, Pijnenburg YAL, Pyykkö OT, Ragnarsson O, Rojas JC, Romme Christensen J, Sandberg L, Scherling CS, Schott JM, Sellebjerg FT, Simone IL, Skillbäck T, Stilund M, Sundström P, Svenningsson A, Tortelli R, Tortorella C, Trentini A, Troiano M, Turner MR, van Swieten JC, Vågberg M, Verbeek MM, Villar LM, Visser PJ, Wallin A, Weiss A, Wikkelsø C, Wild EJ. Diagnostic Value of Cerebrospinal Fluid Neurofilament Light Protein in Neurology: A Systematic Review and Meta-analysis. JAMA Neurol. 2019 Sep 1;76(9):1035-1048. doi: 10.1001/jamaneurol.2019.1534. PubMed PMID: 31206160; PubMed Central PMCID: PMC6580449.

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González-Mercado VJ, Sarkar A, Penedo FJ, Pérez-Santiago J, McMillan S, Marrero SJ, Marrero-Falcón MA, Munro CL. Gut microbiota perturbation is associated with acute sleep disturbance among rectal cancer patients. J Sleep Res. 2020 Jun;29(3):e12915. doi: 10.1111/jsr.12915. Epub 2019 Oct 10. PubMed PMID: 31599472; PubMed Central PMCID: PMC7644135.

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Anderson AM, Pérez-Santiago J, Zheng Z, Huang E, Franklin D, Iudicello J, Moore DJ, Ellis RJ, Heaton RK, Letendre SL. Better executive function is independently associated with full HIV suppression during combination therapy. AIDS. 2019 Dec 1;33(15):2309-2316. doi: 10.1097/QAD.0000000000002348. PubMed PMID: 31764096; PubMed Central PMCID: PMC6905116.

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Tuddenham SA, Koay WLA, Zhao N, White JR, Ghanem KG, Sears CL. The Impact of Human Immunodeficiency Virus Infection on Gut Microbiota α-Diversity: An Individual-level Meta-analysis. Clin Infect Dis. 2020 Feb 3;70(4):615-627. doi: 10.1093/cid/ciz258. PubMed PMID: 30921452; PubMed Central PMCID: PMC7319268.

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González-Mercado VJ, Pérez-Santiago J, Lyon D, Dilán-Pantojas I, Henderson W, McMillan S, Groer M, Kane B, Marrero S, Pedro E, Saligan LN. The Role of Gut Microbiome Perturbation in Fatigue Induced by Repeated Stress from Chemoradiotherapy: A Proof of Concept Study. Adv Med. 2020;2020:6375876. doi: 10.1155/2020/6375876. eCollection 2020. PubMed PMID: 32090133; PubMed Central PMCID: PMC7029262.

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Pope CN, Montoya JL, Vasquez E, Pérez-Santiago J, Ellis R, McCutchan JA, Jeste DV, Moore DJ, Marquine MJ. Association of HIV serostatus and metabolic syndrome with neurobehavioral disturbances. J Neurovirol. 2020 Dec;26(6):888-898. doi: 10.1007/s13365-020-00878-5. Epub 2020 Jul 30. PubMed PMID: 32734380; PubMed Central PMCID: PMC7718338.