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Emerging Patterns in HIV-1 gp120 Variable Domains in Anatomical Tissues in the Absence of a Plasma Viral Load.

Lamers SL, Fogel GB, Nolan DJ, Barbier AE, Rose R, Singer EJ, Gonzalez-Perez MP, McGrath MS.

AIDS Res Hum Retroviruses. 2019 Jun;35(6):588-596. doi: 10.1089/AID.2018.0267. Epub 2019 Apr 10.


Genomic Investigation of a Mycobacterium tuberculosis Outbreak Involving Prison and Community Cases in Florida, United States.

Séraphin MN, Didelot X, Nolan DJ, May JR, Khan MSR, Murray ER, Salemi M, Morris JG, Lauzardo M.

Am J Trop Med Hyg. 2018 Oct;99(4):867-874. doi: 10.4269/ajtmh.17-0700.


Ultradeep single-molecule real-time sequencing of HIV envelope reveals complete compartmentalization of highly macrophage-tropic R5 proviral variants in brain and CXCR4-using variants in immune and peripheral tissues.

Brese RL, Gonzalez-Perez MP, Koch M, O'Connell O, Luzuriaga K, Somasundaran M, Clapham PR, Dollar JJ, Nolan DJ, Rose R, Lamers SL.

J Neurovirol. 2018 Aug;24(4):439-453. doi: 10.1007/s13365-018-0633-5. Epub 2018 Apr 23.


Production of BMP4 by endothelial cells is crucial for endogenous thymic regeneration.

Wertheimer T, Velardi E, Tsai J, Cooper K, Xiao S, Kloss CC, Ottmüller KJ, Mokhtari Z, Brede C, deRoos P, Kinsella S, Palikuqi B, Ginsberg M, Young LF, Kreines F, Lieberman SR, Lazrak A, Guo P, Malard F, Smith OM, Shono Y, Jenq RR, Hanash AM, Nolan DJ, Butler JM, Beilhack A, Manley NR, Rafii S, Dudakov JA, van den Brink MRM.

Sci Immunol. 2018 Jan 12;3(19). pii: eaal2736. doi: 10.1126/sciimmunol.aal2736.


Evidence for Mother-to-Child Transmission of Zika Virus Through Breast Milk.

Blohm GM, Lednicky JA, Márquez M, White SK, Loeb JC, Pacheco CA, Nolan DJ, Paisie T, Salemi M, Rodríguez-Morales AJ, Glenn Morris J Jr, Pulliam JRC, Paniz-Mondolfi AE.

Clin Infect Dis. 2018 Mar 19;66(7):1120-1121. doi: 10.1093/cid/cix968.


The Spleen Is an HIV-1 Sanctuary During Combined Antiretroviral Therapy.

Nolan DJ, Rose R, Rodriguez PH, Salemi M, Singer EJ, Lamers SL, McGrath MS.

AIDS Res Hum Retroviruses. 2018 Jan;34(1):123-125. doi: 10.1089/AID.2017.0254. Epub 2017 Nov 30.


Brain-specific HIV Nef identified in multiple patients with neurological disease.

Lamers SL, Fogel GB, Liu ES, Barbier AE, Rodriguez CW, Singer EJ, Nolan DJ, Rose R, McGrath MS.

J Neurovirol. 2018 Feb;24(1):1-15. doi: 10.1007/s13365-017-0586-0. Epub 2017 Oct 23.


Insights into the Impact of CD8+ Immune Modulation on Human Immunodeficiency Virus Evolutionary Dynamics in Distinct Anatomical Compartments by Using Simian Immunodeficiency Virus-Infected Macaque Models of AIDS Progression.

Rife Magalis B, Nolan DJ, Autissier P, Burdo TH, Williams KC, Salemi M.

J Virol. 2017 Nov 14;91(23). pii: e01162-17. doi: 10.1128/JVI.01162-17. Print 2017 Dec 1.


Eradication of HIV from Tissue Reservoirs: Challenges for the Cure.

Rose R, Nolan DJ, Maidji E, Stoddart CA, Singer EJ, Lamers SL, McGrath MS.

AIDS Res Hum Retroviruses. 2018 Jan;34(1):3-8. doi: 10.1089/AID.2017.0072. Epub 2017 Aug 7. Review.


Concerted regulation of retinal pigment epithelium basement membrane and barrier function by angiocrine factors.

Benedicto I, Lehmann GL, Ginsberg M, Nolan DJ, Bareja R, Elemento O, Salfati Z, Alam NM, Prusky GT, Llanos P, Rabbany SY, Maminishkis A, Miller SS, Rafii S, Rodriguez-Boulan E.

Nat Commun. 2017 May 19;8:15374. doi: 10.1038/ncomms15374.


Complete Genome Sequences of Identical Zika virus Isolates in a Nursing Mother and Her Infant.

Blohm GM, Lednicky JA, Márquez M, White SK, Loeb JC, Pacheco CA, Nolan DJ, Paisie T, Salemi M, Rodríguez-Morales AJ, Morris JG Jr, Pulliam JRC, Carrillo AS, Plaza JD, Paniz-Mondolfi AE.

Genome Announc. 2017 Apr 27;5(17). pii: e00231-17. doi: 10.1128/genomeA.00231-17.


Predicted coreceptor usage at end-stage HIV disease in tissues derived from subjects on antiretroviral therapy with an undetectable plasma viral load.

Lamers SL, Fogel GB, Liu ES, Nolan DJ, Salemi M, Barbier AE, Rose R, Singer EJ, McGrath MS.

Infect Genet Evol. 2017 Jul;51:194-197. doi: 10.1016/j.meegid.2017.04.004. Epub 2017 Apr 6.


Endothelial Cells Promote Expansion of Long-Term Engrafting Marrow Hematopoietic Stem and Progenitor Cells in Primates.

Gori JL, Butler JM, Kunar B, Poulos MG, Ginsberg M, Nolan DJ, Norgaard ZK, Adair JE, Rafii S, Kiem HP.

Stem Cells Transl Med. 2017 Mar;6(3):864-876. doi: 10.5966/sctm.2016-0240. Epub 2016 Oct 14.


A method for obtaining simian immunodeficiency virus RNA sequences from laser capture microdissected and immune captured CD68+ and CD163+ macrophages from frozen tissue sections of bone marrow and brain.

Mallard J, Papazian E, Soulas C, Nolan DJ, Salemi M, Williams KC.

J Immunol Methods. 2017 Mar;442:59-63. doi: 10.1016/j.jim.2017.01.003. Epub 2017 Jan 14.


Non-toxigenic environmental Vibrio cholerae O1 strain from Haiti provides evidence of pre-pandemic cholera in Hispaniola.

Azarian T, Ali A, Johnson JA, Jubair M, Cella E, Ciccozzi M, Nolan DJ, Farmerie W, Rashid MH, Sinha-Ray S, Alam MT, Morris JG, Salemi M.

Sci Rep. 2016 Oct 27;6:36115. doi: 10.1038/srep36115.


HIV-1 Evolutionary Patterns Associated with Metastatic Kaposi's Sarcoma during AIDS.

Lamers SL, Rose R, Nolan DJ, Fogel GB, Barbier AE, Salemi M, McGrath MS.

Sarcoma. 2016;2016:4510483. doi: 10.1155/2016/4510483. Epub 2016 Aug 29.


Correction for Rife et al., Evolution of Neuroadaptation in the Periphery and Purifying Selection in the Brain Contribute to Compartmentalization of Simian Immunodeficiency Virus (SIV) in the Brains of Rhesus Macaques with SIV-Associated Encephalitis.

Rife BD, Nolan DJ, Lamers SL, Autissier P, Burdo T, Williams KC, Salemi M.

J Virol. 2016 Sep 12;90(19):8947. doi: 10.1128/JVI.01304-16. Print 2016 Oct 1. No abstract available.


HIV DNA Is Frequently Present within Pathologic Tissues Evaluated at Autopsy from Combined Antiretroviral Therapy-Treated Patients with Undetectable Viral Loads.

Lamers SL, Rose R, Maidji E, Agsalda-Garcia M, Nolan DJ, Fogel GB, Salemi M, Garcia DL, Bracci P, Yong W, Commins D, Said J, Khanlou N, Hinkin CH, Sueiras MV, Mathisen G, Donovan S, Shiramizu B, Stoddart CA, McGrath MS, Singer EJ.

J Virol. 2016 Sep 29;90(20):8968-83. doi: 10.1128/JVI.00674-16. Print 2016 Oct 15.


HIV Maintains an Evolving and Dispersed Population in Multiple Tissues during Suppressive Combined Antiretroviral Therapy in Individuals with Cancer.

Rose R, Lamers SL, Nolan DJ, Maidji E, Faria NR, Pybus OG, Dollar JJ, Maruniak SA, McAvoy AC, Salemi M, Stoddart CA, Singer EJ, McGrath MS.

J Virol. 2016 Sep 29;90(20):8984-93. doi: 10.1128/JVI.00684-16. Print 2016 Oct 15.


The meningeal lymphatic system: a route for HIV brain migration?

Lamers SL, Rose R, Ndhlovu LC, Nolan DJ, Salemi M, Maidji E, Stoddart CA, McGrath MS.

J Neurovirol. 2016 Jun;22(3):275-81. doi: 10.1007/s13365-015-0399-y. Epub 2015 Nov 16. Review.


Tracking the Emergence of Host-Specific Simian Immunodeficiency Virus env and nef Populations Reveals nef Early Adaptation and Convergent Evolution in Brain of Naturally Progressing Rhesus Macaques.

Lamers SL, Nolan DJ, Rife BD, Fogel GB, McGrath MS, Burdo TH, Autissier P, Williams KC, Goodenow MM, Salemi M.

J Virol. 2015 Aug;89(16):8484-96. doi: 10.1128/JVI.01010-15. Epub 2015 Jun 3.


Vascular niche promotes hematopoietic multipotent progenitor formation from pluripotent stem cells.

Gori JL, Butler JM, Chan YY, Chandrasekaran D, Poulos MG, Ginsberg M, Nolan DJ, Elemento O, Wood BL, Adair JE, Rafii S, Kiem HP.

J Clin Invest. 2015 Mar 2;125(3):1243-54. doi: 10.1172/JCI79328. Epub 2015 Feb 9.


Anti-α4 antibody treatment blocks virus traffic to the brain and gut early, and stabilizes CNS injury late in infection.

Campbell JH, Ratai EM, Autissier P, Nolan DJ, Tse S, Miller AD, González RG, Salemi M, Burdo TH, Williams KC.

PLoS Pathog. 2014 Dec 11;10(12):e1004533. doi: 10.1371/journal.ppat.1004533. eCollection 2014 Dec.


Spatiotemporal dynamics of simian immunodeficiency virus brain infection in CD8+ lymphocyte-depleted rhesus macaques with neuroAIDS.

Strickland SL, Rife BD, Lamers SL, Nolan DJ, Veras NM, Prosperi MC, Burdo TH, Autissier P, Nowlin B, Goodenow MM, Suchard MA, Williams KC, Salemi M.

J Gen Virol. 2014 Dec;95(Pt 12):2784-95. doi: 10.1099/vir.0.070318-0. Epub 2014 Sep 9.


HIV-associated neuropathogenesis: a systems biology perspective for modeling and therapy.

Lamers SL, Fogel GB, Nolan DJ, McGrath MS, Salemi M.

Biosystems. 2014 May;119:53-61. doi: 10.1016/j.biosystems.2014.04.002. Epub 2014 Apr 13. Review.


Divergent angiocrine signals from vascular niche balance liver regeneration and fibrosis.

Ding BS, Cao Z, Lis R, Nolan DJ, Guo P, Simons M, Penfold ME, Shido K, Rabbany SY, Rafii S.

Nature. 2014 Jan 2;505(7481):97-102. doi: 10.1038/nature12681. Epub 2013 Nov 20.


Empirical validation of viral quasispecies assembly algorithms: state-of-the-art and challenges.

Prosperi MC, Yin L, Nolan DJ, Lowe AD, Goodenow MM, Salemi M.

Sci Rep. 2013 Oct 3;3:2837. doi: 10.1038/srep02837.


Longitudinal analysis of intra-host simian immunodeficiency virus recombination in varied tissues of the rhesus macaque model for neuroAIDS.

Lamers SL, Nolan DJ, Strickland SL, Prosperi M, Fogel GB, Goodenow MM, Salemi M.

J Gen Virol. 2013 Nov;94(Pt 11):2469-79. doi: 10.1099/vir.0.055335-0. Epub 2013 Aug 20.


Molecular signatures of tissue-specific microvascular endothelial cell heterogeneity in organ maintenance and regeneration.

Nolan DJ, Ginsberg M, Israely E, Palikuqi B, Poulos MG, James D, Ding BS, Schachterle W, Liu Y, Rosenwaks Z, Butler JM, Xiang J, Rafii A, Shido K, Rabbany SY, Elemento O, Rafii S.

Dev Cell. 2013 Jul 29;26(2):204-19. doi: 10.1016/j.devcel.2013.06.017. Epub 2013 Jul 18.


HIV-1 Nef in macrophage-mediated disease pathogenesis.

Lamers SL, Fogel GB, Singer EJ, Salemi M, Nolan DJ, Huysentruyt LC, McGrath MS.

Int Rev Immunol. 2012 Dec;31(6):432-50. doi: 10.3109/08830185.2012.737073. Review.


Development of a vascular niche platform for expansion of repopulating human cord blood stem and progenitor cells.

Butler JM, Gars EJ, James DJ, Nolan DJ, Scandura JM, Rafii S.

Blood. 2012 Aug 9;120(6):1344-7. doi: 10.1182/blood-2011-12-398115. Epub 2012 Jun 18.


Assessment of annular distensibility in the aortic valve.

O'Dea J, Nolan DJ.

Interact Cardiovasc Thorac Surg. 2012 Sep;15(3):361-3. doi: 10.1093/icvts/ivs273. Epub 2012 Jun 13.


Efficient transmission and persistence of low-frequency SIVmac251 variants in CD8-depleted rhesus macaques with different neuropathology.

Strickland SL, Gray RR, Lamers SL, Burdo TH, Huenink E, Nolan DJ, Nowlin B, Alvarez X, Midkiff CC, Goodenow MM, Williams K, Salemi M.

J Gen Virol. 2012 May;93(Pt 5):925-38. doi: 10.1099/vir.0.039586-0. Epub 2012 Feb 1.


c-Kit-mediated functional positioning of stem cells to their niches is essential for maintenance and regeneration of adult hematopoiesis.

Kimura Y, Ding B, Imai N, Nolan DJ, Butler JM, Rafii S.

PLoS One. 2011;6(10):e26918. doi: 10.1371/journal.pone.0026918. Epub 2011 Oct 26.


Endothelial-derived angiocrine signals induce and sustain regenerative lung alveolarization.

Ding BS, Nolan DJ, Guo P, Babazadeh AO, Cao Z, Rosenwaks Z, Crystal RG, Simons M, Sato TN, Worgall S, Shido K, Rabbany SY, Rafii S.

Cell. 2011 Oct 28;147(3):539-53. doi: 10.1016/j.cell.2011.10.003.


Significant genetic heterogeneity of the SIVmac251 viral swarm derived from different sources.

Strickland SL, Gray RR, Lamers SL, Burdo TH, Huenink E, Nolan DJ, Nowlin B, Alvarez X, Midkiff CC, Goodenow MM, Williams K, Salemi M.

AIDS Res Hum Retroviruses. 2011 Dec;27(12):1327-32. doi: 10.1089/aid.2011.0100. Epub 2011 Jun 28.


Genetic adult lactase persistence is associated with risk of Crohn's Disease in a New Zealand population.

Nolan DJ, Han DY, Lam WJ, Morgan AR, Fraser AG, Tapsell LC, Ferguson LR.

BMC Res Notes. 2010 Dec 19;3:339. doi: 10.1186/1756-0500-3-339.


Inductive angiocrine signals from sinusoidal endothelium are required for liver regeneration.

Ding BS, Nolan DJ, Butler JM, James D, Babazadeh AO, Rosenwaks Z, Mittal V, Kobayashi H, Shido K, Lyden D, Sato TN, Rabbany SY, Rafii S.

Nature. 2010 Nov 11;468(7321):310-5. doi: 10.1038/nature09493.


Angiocrine factors from Akt-activated endothelial cells balance self-renewal and differentiation of haematopoietic stem cells.

Kobayashi H, Butler JM, O'Donnell R, Kobayashi M, Ding BS, Bonner B, Chiu VK, Nolan DJ, Shido K, Benjamin L, Rafii S.

Nat Cell Biol. 2010 Nov;12(11):1046-56. doi: 10.1038/ncb2108. Epub 2010 Oct 24.


Using the transcription factor inhibitor of DNA binding 1 to selectively target endothelial progenitor cells offers novel strategies to inhibit tumor angiogenesis and growth.

Mellick AS, Plummer PN, Nolan DJ, Gao D, Bambino K, Hahn M, Catena R, Turner V, McDonnell K, Benezra R, Brink R, Swarbrick A, Mittal V.

Cancer Res. 2010 Sep 15;70(18):7273-82. doi: 10.1158/0008-5472.CAN-10-1142. Epub 2010 Aug 31.


Tumor associated mesenchymal stem cells protects ovarian cancer cells from hyperthermia through CXCL12.

Lis R, Touboul C, Mirshahi P, Ali F, Mathew S, Nolan DJ, Maleki M, Abdalla SA, Raynaud CM, Querleu D, Al-Azwani E, Malek J, Mirshahi M, Rafii A.

Int J Cancer. 2011 Feb 1;128(3):715-25. doi: 10.1002/ijc.25619.


Endothelial cells are essential for the self-renewal and repopulation of Notch-dependent hematopoietic stem cells.

Butler JM, Nolan DJ, Vertes EL, Varnum-Finney B, Kobayashi H, Hooper AT, Seandel M, Shido K, White IA, Kobayashi M, Witte L, May C, Shawber C, Kimura Y, Kitajewski J, Rosenwaks Z, Bernstein ID, Rafii S.

Cell Stem Cell. 2010 Mar 5;6(3):251-64. doi: 10.1016/j.stem.2010.02.001.


Engraftment and reconstitution of hematopoiesis is dependent on VEGFR2-mediated regeneration of sinusoidal endothelial cells.

Hooper AT, Butler JM, Nolan DJ, Kranz A, Iida K, Kobayashi M, Kopp HG, Shido K, Petit I, Yanger K, James D, Witte L, Zhu Z, Wu Y, Pytowski B, Rosenwaks Z, Mittal V, Sato TN, Rafii S.

Cell Stem Cell. 2009 Mar 6;4(3):263-74. doi: 10.1016/j.stem.2009.01.006.


Endothelial progenitor cells are cellular hubs essential for neoangiogenesis of certain aggressive adenocarcinomas and metastatic transition but not adenomas.

Kerbel RS, Benezra R, Lyden DC, Hattori K, Heissig B, Nolan DJ, Mittal V, Shaked Y, Dias S, Bertolini F, Rafii S.

Proc Natl Acad Sci U S A. 2008 Aug 26;105(34):E54; author reply E55. doi: 10.1073/pnas.0804876105. Epub 2008 Aug 20. No abstract available.


Endothelial progenitor cells control the angiogenic switch in mouse lung metastasis.

Gao D, Nolan DJ, Mellick AS, Bambino K, McDonnell K, Mittal V.

Science. 2008 Jan 11;319(5860):195-8. doi: 10.1126/science.1150224.


Id1 restrains p21 expression to control endothelial progenitor cell formation.

Ciarrocchi A, Jankovic V, Shaked Y, Nolan DJ, Mittal V, Kerbel RS, Nimer SD, Benezra R.

PLoS One. 2007 Dec 19;2(12):e1338.


Adipogenesis is inhibited by brief, daily exposure to high-frequency, extremely low-magnitude mechanical signals.

Rubin CT, Capilla E, Luu YK, Busa B, Crawford H, Nolan DJ, Mittal V, Rosen CJ, Pessin JE, Judex S.

Proc Natl Acad Sci U S A. 2007 Nov 6;104(45):17879-84. Epub 2007 Oct 24.


Bone marrow-derived endothelial progenitor cells are a major determinant of nascent tumor neovascularization.

Nolan DJ, Ciarrocchi A, Mellick AS, Jaggi JS, Bambino K, Gupta S, Heikamp E, McDevitt MR, Scheinberg DA, Benezra R, Mittal V.

Genes Dev. 2007 Jun 15;21(12):1546-58.


Genomics and proteomics approaches in understanding tumor angiogenesis.

Mittal V, Nolan DJ.

Expert Rev Mol Diagn. 2007 Mar;7(2):133-47. Review.


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