1. Aberg J. 2012. Aging, inflammation, and HIV infection, vol 20, p 101-5. Topics in Antiviral Medicine.
2. Deeks SG. 2011. HIV Infection, Inflammation, Immunosenescence, and Aging. Annual Review of Medicine, Vol 62, 2011 62:141-155.
3. Desai S, Landay A. 2010. Early immune senescence in HIV disease. Curr HIV/AIDS Rep 7:4-10.
4. Guaraldi G, Orlando G, Zona S, Menozzi M, Carli F, Garlassi E, Berti A, Rossi E, Roverato A, Palella F. 2011. Premature Age-Related Comorbidities Among HIV-Infected Persons Compared With the General Population. Clinical Infectious Diseases 53:1120-1126.
5. Grossman Z, Meier-Schellersheim M, Paul WE, Picker LJ. 2006. Pathogenesis of HIV infection: what the virus spares is as important as what it destroys. Nature Medicine 12:289-295.
6. Silvestri G, Feinberg MB. 2003. Turnover of lymphocytes and conceptual paradigms in HIV infection. Journal of Clinical Investigation 112:821-824.
7. Doitsh G, Cavrois M, Lassen KG, Zepeda O, Yang ZY, Santiago ML, Hebbeler AM, Greene WC. 2014. Abortive HIV Infection Mediates CD4 T Cell Depletion and Inflammation in Human Lymphoid Tissue (vol 143, pg 789, 2010). Cell 156:1112-1113.
8. Lehmann C, Harper JM, Taubert D, Hartmann P, Faetkenheuer G, Jung N, van Lunzen J, Stellbrink HJ, Gallo RC, Romerio F. 2008. Increased interferon alpha expression in circulating plasmacytoid dendritic cells of HIV-1-infected patients. Jaids-Journal of Acquired Immune Deficiency Syndromes 48:522-530.
9. Sedaghat AR, German J, Teslovich TM, Cofrancesco J, Jie CC, Talbot CC, Siliciano RF. 2008. Chronic CD4(+) T-cell activation and depletion in human immunodeficiency virus type 1 infection: Type I interferon-mediated disruption of T-cell dynamics. Journal of Virology 82:1870-1883.
10. Vassallo M, Mercie P, Cottalorda J, Ticchioni M, Dellamonica P. 2012. The role of lipopolysaccharide as a marker of immune activation in HIV-1 infected patients: a systematic literature review. Virology Journal 9.
11. Brenchley JM, Price DA, Schacker TW, Asher TE, Silvestri G, Rao S, Kazzaz Z, Bornstein E, Lambotte O, Altmann D, Blazar BR, Rodriguez B, Teixeira-Johnson L, Landay A, Martin JN, Hecht FM, Picker LJ, Lederman MM, Deeks SG, Douek DC. 2006. Microbial translocation is a cause of systemic immune activation in chronic HIV infection. Nature Medicine 12:1365-1371.
12. Hunt PW, Martin JN, Sinclair E, Epling L, Teague J, Jacobson MA, Tracy RP, Corey L, Deeks SG. 2011. Valganciclovir Reduces T Cell Activation in HIV-infected Individuals With Incomplete CD4(+) T Cell Recovery on Antiretroviral Therapy. Journal of Infectious Diseases 203:1474-1483.
13. Freeman TL, Swartz TH. 2020. Purinergic Receptors: Elucidating the Role of these Immune Mediators in HIV-1 Fusion. Viruses-Basel 12.
14. Galvão-Lima LJ, Zambuzi FA, Soares LS, Fontanari C, Meireles AFG, Brauer VS, Faccioli LH, Gama L, Figueiredo LTM, Bou-Habib DC, Frantz FG. 2022. HIV-1 Gag and Vpr impair the inflammasome activation and contribute to the establishment of chronic infection in human primary macrophages. Mol Immunol 148:68-80.
15. Shi J, Zhang Z, Wu J. 2022. Research Progress on the Relationship between the NLRP3 Inflammasome and Immune Reconstitution in HIV-Infected Patients Receiving Antiretroviral Therapy. Comput Math Methods Med 2022:3179200.
16. Ekabe CJ, Clinton NA, Kehbila J, Franck NC. 2021. The Role of Inflammasome Activation in Early HIV Infection. J Immunol Res 2021:1487287.
17. Triantafilou K, Ward CJK, Czubala M, Ferris RG, Koppe E, Haffner C, Piguet V, Patel VK, Amrine-Madsen H, Modis LK, Masters SL, Triantafilou M. 2021. Differential recognition of HIV-stimulated IL-1β and IL-18 secretion through NLR and NAIP signalling in monocyte-derived macrophages. PLoS Pathog 17:e1009417.
18. Zhang C, Song JW, Huang HH, Fan X, Huang L, Deng JN, Tu B, Wang K, Li J, Zhou MJ, Yang CX, Zhao QW, Yang T, Wang LF, Zhang JY, Xu RN, Jiao YM, Shi M, Shao F, Sékaly RP, Wang FS. 2021. NLRP3 inflammasome induces CD4+ T cell loss in chronically HIV-1-infected patients. J Clin Invest 131.
19. Mazaheri-Tehrani E, Mohraz M, Nasi M, Chester J, De Gaetano A, Lo Tartaro D, SeyedAlinaghi S, Gholami M, De Biasi S, Gibellini L, Mattioli AV, Pinti M, Mussini C, Cossarizza A. 2021. NLRP3 and IL-1β Gene Expression Is Elevated in Monocytes From HIV-Treated Patients With Neurocognitive Disorders. J Acquir Immune Defic Syndr 86:496-499.
20. Sil S, Niu F, Chivero ET, Singh S, Periyasamy P, Buch S. 2020. Role of Inflammasomes in HIV-1 and Drug Abuse Mediated Neuroinflammaging. Cells 9.
21. Mullis C, Swartz TH. 2020. NLRP3 Inflammasome Signaling as a Link Between HIV-1 Infection and Atherosclerotic Cardiovascular Disease. Front Cardiovasc Med 7:95.
22. Leal VNC, Reis EC, Pontillo A. 2020. Inflammasome in HIV infection: Lights and shadows. Mol Immunol 118:9-18.
23. He X, Yang W, Zeng Z, Wei Y, Gao J, Zhang B, Li L, Liu L, Wan Y, Zeng Q, Gong Z, Zhang H, Li Y, Yang S, Hu T, Wu L, Masliah E, Huang S, Cao H. 2020. NLRP3-dependent pyroptosis is required for HIV-1 gp120-induced neuropathology. Cell Mol Immunol 17:283-299.
24. Paoletti A, Allouch A, Caillet M, Saïdi H, Subra F, Nardacci R, Wu Q, Muradova Z, Voisin L, Raza SQ, Law F, Thoreau M, Dakhli H, Delelis O, Poirier-Beaudouin B, Dereuddre-Bosquet N, Le Grand R, Lambotte O, Saez-Cirion A, Pancino G, Ojcius DM, Solary E, Deutsch E, Piacentini M, Gougeon ML, Kroemer G, Perfettini JL. 2019. HIV-1 Envelope Overcomes NLRP3-Mediated Inhibition of F-Actin Polymerization for Viral Entry. Cell Rep 28:3381-3394.e7.
25. Lisco A, Wong CS, Lage SL, Levy I, Brophy J, Lennox J, Manion M, Anderson MV, Mejia Y, Grivas C, Mystakelis H, Burbelo PD, Perez-Diez A, Rupert A, Martens CA, Anzick SL, Morse C, Chan S, Deleage C, Sereti I. 2019. Identification of rare HIV-1-infected patients with extreme CD4+ T cell decline despite ART-mediated viral suppression. JCI Insight 4.
26. Katuri A, Bryant J, Heredia A, Makar TK. 2019. Role of the inflammasomes in HIV-associated neuroinflammation and neurocognitive disorders. Exp Mol Pathol 108:64-72.
27. Ojeda DS, Grasso D, Urquiza J, Till A, Vaccaro MI, Quarleri J. 2018. Cell Death Is Counteracted by Mitophagy in HIV-Productively Infected Astrocytes but Is Promoted by Inflammasome Activation Among Non-productively Infected Cells. Front Immunol 9:2633.
28. Feria MG, Taborda NA, Hernandez JC, Rugeles MT. 2018. HIV replication is associated to inflammasomes activation, IL-1β, IL-18 and caspase-1 expression in GALT and peripheral blood. PLoS One 13:e0192845.
29. Bandera A, Masetti M, Fabbiani M, Biasin M, Muscatello A, Squillace N, Clerici M, Gori A, Trabattoni D. 2018. The NLRP3 Inflammasome Is Upregulated in HIV-Infected Antiretroviral Therapy-Treated Individuals with Defective Immune Recovery. Front Immunol 9:214.
30. Chivero ET, Guo ML, Periyasamy P, Liao K, Callen SE, Buch S. 2017. HIV-1 Tat Primes and Activates Microglial NLRP3 Inflammasome-Mediated Neuroinflammation. J Neurosci 37:3599-3609.
31. Kearns A, Gordon J, Burdo TH, Qin X. 2017. HIV-1-Associated Atherosclerosis: Unraveling the Missing Link. J Am Coll Cardiol 69:3084-3098.
32. Liu X, Lieberman J. 2017. A Mechanistic Understanding of Pyroptosis: The Fiery Death Triggered by Invasive Infection. Adv Immunol 135:81-117.
33. Haque S, Lan X, Wen H, Lederman R, Chawla A, Attia M, Bongu RP, Husain M, Mikulak J, Saleem MA, Popik W, Malhotra A, Chander PN, Singhal PC. 2016. HIV Promotes NLRP3 Inflammasome Complex Activation in Murine HIV-Associated Nephropathy. Am J Pathol 186:347-58.
34. Swartz TH, Dubyak GR, Chen BK. 2015. Purinergic Receptors: Key Mediators of HIV-1 Infection and Inflammation. Front Immunol 6:585.
35. Doitsh G, Greene WC. 2016. Dissecting How CD4 T Cells Are Lost During HIV Infection. Cell Host Microbe 19:280-91.
36. Muñoz-Arias I, Doitsh G, Yang Z, Sowinski S, Ruelas D, Greene WC. 2015. Blood-Derived CD4 T Cells Naturally Resist Pyroptosis during Abortive HIV-1 Infection. Cell Host Microbe 18:463-70.
37. Galloway NL, Doitsh G, Monroe KM, Yang Z, Muñoz-Arias I, Levy DN, Greene WC. 2015. Cell-to-Cell Transmission of HIV-1 Is Required to Trigger Pyroptotic Death of Lymphoid-Tissue-Derived CD4 T Cells. Cell Rep 12:1555-1563.
38. Maher DM, Zhang ZQ, Schacker TW, Southern PJ. 2005. Ex vivo modeling of oral HIV transmission in human palatine tonsil. Journal of Histochemistry & Cytochemistry 53:631-642.
39. Grivel JC, Elliott J, Lisco A, Biancotto A, Condack C, Shattock RJ, McGowan I, Margolis L, Anton P. 2007. HIV-1 pathogenesis differs in rectosigmoid and tonsillar tissues infected ex vivo with CCR5-and CXCR4-tropic HIV-1. Aids 21:1263-1272.
40. Pantaleo G, Graziosi C, Demarest JF, Butini L, Montroni M, Fox CH, Orenstein JM, Kotler DP, Fauci AS. 1993. HIV-INFECTION IS ACTIVE AND PROGRESSIVE IN LYMPHOID-TISSUE DURING THE CLINICALLY LATENT STAGE OF DISEASE. Nature 362:355-358.
41. Pantaleo G, Graziosi C, Demarest JF, Cohen OJ, Vaccarezza M, Gantt K, Murocacho C, Fauci AS. 1994. ROLE OF LYMPHOID ORGANS IN THE PATHOGENESIS OF HUMAN-IMMUNODEFICIENCY-VIRUS (HIV) INFECTION. Immunological Reviews 140:105-130.
42. Moutsopoulos NM, Vazquez N, Greenwell-Wild T, Ecevit I, Horn J, Orenstein J, Wahl SM. 2006. Regulation of the tonsil cytokine milieu favors HIV susceptibility. Journal of Leukocyte Biology 80:1145-1155.
43. Hagel JP, Bennett K, Buffa F, Klenerman P, Willberg CB, Powell K. 2021. Defining T Cell Subsets in Human Tonsils Using ChipCytometry. J Immunol 206:3073-3082.
44. Casteleyn C, Breugelmans S, Simoens P, Van den Broeck W. 2011. The tonsils revisited: review of the anatomical localization and histological characteristics of the tonsils of domestic and laboratory animals. Clin Dev Immunol 2011:472460.
45. Thul PJ, Åkesson L, Wiking M, Mahdessian D, Geladaki A, Ait Blal H, Alm T, Asplund A, Björk L, Breckels LM, Bäckström A, Danielsson F, Fagerberg L, Fall J, Gatto L, Gnann C, Hober S, Hjelmare M, Johansson F, Lee S, Lindskog C, Mulder J, Mulvey CM, Nilsson P, Oksvold P, Rockberg J, Schutten R, Schwenk JM, Sivertsson Å, Sjöstedt E, Skogs M, Stadler C, Sullivan DP, Tegel H, Winsnes C, Zhang C, Zwahlen M, Mardinoglu A, Pontén F, von Feilitzen K, Lilley KS, Uhlén M, Lundberg E. 2017. A subcellular map of the human proteome. Science 356.
46. Reboldi A. 2018. In Vivo Imaging of Immune Cells in Peyer's Patches. Methods Mol Biol 1763:109-118.
47. Sayin I, Radtke AJ, Vella LA, Jin W, Wherry EJ, Buggert M, Betts MR, Herati RS, Germain RN, Canaday DH. 2018. Spatial distribution and function of T follicular regulatory cells in human lymph nodes. J Exp Med 215:1531-1542.
48. Thrane K, Eriksson H, Maaskola J, Hansson J, Lundeberg J. 2018. Spatially Resolved Transcriptomics Enables Dissection of Genetic Heterogeneity in Stage III Cutaneous Malignant Melanoma. Cancer Res 78:5970-5979.
49. Fletcher AL, Malhotra D, Acton SE, Lukacs-Kornek V, Bellemare-Pelletier A, Curry M, Armant M, Turley SJ. 2011. Reproducible isolation of lymph node stromal cells reveals site-dependent differences in fibroblastic reticular cells. Front Immunol 2:35.
50. Grivel JC, Margolis L. 2009. Use of human tissue explants to study human infectious agents. Nature Protocols 4:256-269.
51. Glushakova S, Baibakov B, Margolis LB, Zimmerberg J. 1995. INFECTION OF HUMAN TONSIL HISTOCULTURES - A MODEL FOR HIV PATHOGENESIS. Nature Medicine 1:1320-1322.
52. Finkel TH, Tudorwilliams G, Banda NK, Cotton MF, Curiel T, Monks C, Baba TW, Ruprecht RM, Kupfer A. 1995. APOPTOSIS OCCURS PREDOMINANTLY IN BYSTANDER CELLS AND NOT IN PRODUCTIVELY INFECTED-CELLS OF HIV-INFECTED AND SIV-INFECTED LYMPH-NODES. Nature Medicine 1:129-134.
53. Doitsh G, Cavrois M, Lassen KG, Zepeda O, Yang ZY, Santiago ML, Hebbeler AM, Greene WC. 2010. Abortive HIV Infection Mediates CD4 T Cell Depletion and Inflammation in Human Lymphoid Tissue. Cell 143:789-801.
54. Doitsh G, Galloway NLK, Geng X, Yang ZY, Monroe KM, Zepeda O, Hunt PW, Hatano H, Sowinski S, Munoz-Arias I, Greene WC. 2014. Cell death by pyroptosis drives CD4 T-cell depletion in HIV-1 infection. Nature 505:509-+.
55. Audige A, Schlaepfer E, Bonanomi A, Joller H, Knuchel MC, Weber M, Nadal D, Speck RF. 2004. HIV-1 does not provoke alteration of cytokine gene expression in lymphoid tissue after acute infection ex vivo. Journal of Immunology 172:2687-2696.
56. Glushakova S, Grivel JC, Fitzgerald W, Sylwester A, Zimmerberg J, Margolis LB. 1998. Evidence for the HIV-1 phenotype switch as a causal factor in acquired immunodeficiency. Nature Medicine 4:346-349.
57. Biancotto A, Iglehart SJ, Vanpouille C, Condack CE, Lisco A, Ruecker E, Hirsch I, Margolis LB, Grivel JC. 2008. HIV-1-induced activation of CD4(+) T cells creates new targets for HIV-1 infection in human lymphoid tissue ex vivo. Blood 111:699-704.
58. Fauci AS. 1996. Host factors and the pathogenesis of HIV-induced disease. Nature 384:529-534.
59. Glushakova S, Baibakov B, Margolis LB, Zimmerberg J. 1995. Infection of human tonsil histocultures: a model for HIV pathogenesis. Nat Med 1:1320-2.
60. Soare AY, Durham ND, Gopal R, Tweel B, Hoffman KW, Brown JA, O'Brien M, Bhardwaj N, Lim JK, Chen BK, Swartz TH. 2019. P2X Antagonists Inhibit HIV-1 Productive Infection and Inflammatory Cytokines Interleukin-10 (IL-10) and IL-1β in a Human Tonsil Explant Model. J Virol 93:e01186-18.
61. Cohen GB, Gandhi RT, Davis DM, Mandelboim O, Chen BK, Strominger JL, Baltimore D. 1999. The selective downregulation of class I major histocompatibility complex proteins by HIV-1 protects HIV-infected cells from NK cells. Immunity 10:661-71.
62. Introini A, Vanpouille C, Lisco A, Grivel JC, Margolis L. 2013. Interleukin-7 facilitates HIV-1 transmission to cervico-vaginal tissue ex vivo. PLoS Pathog 9:e1003148.
63. Eckstein DA, Sherman MP, Penn ML, Chin PS, De Noronha CM, Greene WC, Goldsmith MA. 2001. HIV-1 Vpr enhances viral burden by facilitating infection of tissue macrophages but not nondividing CD4+ T cells. J Exp Med 194:1407-19.
64. Wiegand A, Spindler J, Hong FF, Shao W, Cyktor JC, Cillo AR, Halvas EK, Coffin JM, Mellors JW, Kearney MF. 2017. Single-cell analysis of HIV-1 transcriptional activity reveals expression of proviruses in expanded clones during ART. Proc Natl Acad Sci U S A 114:E3659-E3668.
65. Telwatte S, Moron-Lopez S, Aran D, Kim P, Hsieh C, Joshi S, Montano M, Greene WC, Butte AJ, Wong JK, Yukl SA. 2019. Heterogeneity in HIV and cellular transcription profiles in cell line models of latent and productive infection: implications for HIV latency. Retrovirology 16:32.
66. Einkauf KB, Osborn MR, Gao C, Sun W, Sun X, Lian X, Parsons EM, Gladkov GT, Seiger KW, Blackmer JE, Jiang C, Yukl SA, Rosenberg ES, Yu XG, Lichterfeld M. 2022. Parallel analysis of transcription, integration, and sequence of single HIV-1 proviruses. Cell 185:266-282 e15.
67. Golumbeanu M, Cristinelli S, Rato S, Munoz M, Cavassini M, Beerenwinkel N, Ciuffi A. 2018. Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-Infected Cells. Cell Rep 23:942-950.
68. Lim AL, Moos P, Pond CD, Larson EC, Martins LJ, Szaniawski MA, Planelles V, Barrows LR. 2022. HIV-1 provirus transcription and translation in macrophages differs from pre-integrated cDNA complexes and requires E2F transcriptional programs. Virulence 13:386-413.
69. Leon-Rivera R, Morsey B, Niu M, Fox HS, Berman JW. 2020. Interactions of Monocytes, HIV, and ART Identified by an Innovative scRNAseq Pipeline: Pathways to Reservoirs and HIV-Associated Comorbidities. mBio 11.
70. Huérfano S, Šroller V, Bruštíková K, Horníková L, Forstová J. 2022. The Interplay between Viruses and Host DNA Sensors. Viruses 14.
71. Lage SL, Amaral EP, Hilligan KL, Laidlaw E, Rupert A, Namasivayan S, Rocco J, Galindo F, Kellogg A, Kumar P, Poon R, Wortmann GW, Shannon JP, Hickman HD, Lisco A, Manion M, Sher A, Sereti I. 2021. Persistent Oxidative Stress and Inflammasome Activation in CD14. Front Immunol 12:799558.
72. Toribio M, Burdo TH, Fulda ES, Cetlin M, Chu SM, Feldpausch MN, Robbins GK, Neilan TG, Melbourne K, Grinspoon SK, Zanni MV. 2020. Effects of Integrase Inhibitor-Based ART on the NLRP3 Inflammasome Among ART-Naïve People With HIV. Open Forum Infect Dis 7:ofaa459.
73. Ravimohan S, Maenetje P, Auld SC, Ncube I, Mlotshwa M, Chase W, Tiemessen CT, Vangu MD, Wallis RS, Churchyard G, Weissman D, Kornfeld H, Bisson GP. 2020. A Common NLRC4 Gene Variant Associates With Inflammation and Pulmonary Function in Human Immunodeficiency Virus and Tuberculosis. Clin Infect Dis 71:924-932.
74. Reis EC, Leal VNC, da Silva LT, Dos Reis MML, Argañaraz ER, Oshiro TM, Pontillo A. 2019. Antagonistic role of IL-1ß and NLRP3/IL-18 genetics in chronic HIV-1 infection. Clin Immunol 209:108266.
75. Dos Reis EC, Leal VNC, Soares JLDS, Fernandes FP, Souza de Lima D, de Alencar BC, Pontillo A. 2019. Flagellin/NLRC4 Pathway Rescues NLRP3-Inflammasome Defect in Dendritic Cells From HIV-Infected Patients: Perspective for New Adjuvant in Immunocompromised Individuals. Front Immunol 10:1291.
76. Nasi M, Pecorini S, De Biasi S, Bianchini E, Digaetano M, Neroni A, Lo Tartaro D, Pullano R, Pinti M, Gibellini L, Mussini C, Cossarizza A. 2019. Altered Expression of PYCARD, Interleukin 1β, Interleukin 18, and NAIP in Successfully Treated HIV-Positive Patients With a Low Ratio of CD4+ to CD8+ T Cells. J Infect Dis 219:1743-1748.
77. Rawat P, Teodorof-Diedrich C, Spector SA. 2019. Human immunodeficiency virus Type-1 single-stranded RNA activates the NLRP3 inflammasome and impairs autophagic clearance of damaged mitochondria in human microglia. Glia 67:802-824.
78. Ahmad F, Mishra N, Ahrenstorf G, Franklin BS, Latz E, Schmidt RE, Bossaller L. 2018. Evidence of inflammasome activation and formation of monocyte-derived ASC specks in HIV-1 positive patients. AIDS 32:299-307.
79. Vaccari M, Fourati S, Gordon SN, Brown DR, Bissa M, Schifanella L, Silva de Castro I, Doster MN, Galli V, Omsland M, Fujikawa D, Gorini G, Liyanage NPM, Trinh HV, McKinnon KM, Foulds KE, Keele BF, Roederer M, Koup RA, Shen X, Tomaras GD, Wong MP, Munoz KJ, Gach JS, Forthal DN, Montefiori DC, Venzon DJ, Felber BK, Rosati M, Pavlakis GN, Rao M, Sekaly RP, Franchini G. 2018. HIV vaccine candidate activation of hypoxia and the inflammasome in CD14. Nat Med 24:847-856.
80. Adinolfi E, Giuliani AL, De Marchi E, Pegoraro A, Orioli E, Di Virgilio F. 2018. The P2X7 receptor: A main player in inflammation. Biochem Pharmacol 151:234-244.
81. Mamik MK, Hui E, Branton WG, McKenzie BA, Chisholm J, Cohen EA, Power C. 2017. HIV-1 Viral Protein R Activates NLRP3 Inflammasome in Microglia: implications for HIV-1 Associated Neuroinflammation. J Neuroimmune Pharmacol 12:233-248.
82. Xu E, Liu J, Wang X, Xiong H. 2017. Inflammasome in drug abuse. Int J Physiol Pathophysiol Pharmacol 9:165-177.
83. Toksoy A, Sennefelder H, Adam C, Hofmann S, Trautmann A, Goebeler M, Schmidt M. 2017. Potent NLRP3 Inflammasome Activation by the HIV Reverse Transcriptase Inhibitor Abacavir. J Biol Chem 292:2805-2814.
84. Allam O, Samarani S, Jenabian MA, Routy JP, Tremblay C, Amre D, Ahmad A. 2017. Differential synthesis and release of IL-18 and IL-18 Binding Protein from human platelets and their implications for HIV infection. Cytokine 90:144-154.
85. Atluri VS, Pilakka-Kanthikeel S, Garcia G, Jayant RD, Sagar V, Samikkannu T, Yndart A, Nair M. 2016. Effect of Cocaine on HIV Infection and Inflammasome Gene Expression Profile in HIV Infected Macrophages. Sci Rep 6:27864.
86. Di Micco A, Frera G, Lugrin J, Jamilloux Y, Hsu ET, Tardivel A, De Gassart A, Zaffalon L, Bujisic B, Siegert S, Quadroni M, Broz P, Henry T, Hrycyna CA, Martinon F. 2016. AIM2 inflammasome is activated by pharmacological disruption of nuclear envelope integrity. Proc Natl Acad Sci U S A 113:E4671-80.
87. Tan HY, Yong YK, Shankar EM, Paukovics G, Ellegard R, Larsson M, Kamarulzaman A, French MA, Crowe SM. 2016. Aberrant Inflammasome Activation Characterizes Tuberculosis-Associated Immune Reconstitution Inflammatory Syndrome. J Immunol 196:4052-63.
88. Barouch DH, Ghneim K, Bosche WJ, Li Y, Berkemeier B, Hull M, Bhattacharyya S, Cameron M, Liu J, Smith K, Borducchi E, Cabral C, Peter L, Brinkman A, Shetty M, Li H, Gittens C, Baker C, Wagner W, Lewis MG, Colantonio A, Kang HJ, Li W, Lifson JD, Piatak M, Sekaly RP. 2016. Rapid Inflammasome Activation following Mucosal SIV Infection of Rhesus Monkeys. Cell 165:656-67.
89. Samarani S, Allam O, Sagala P, Aldabah Z, Jenabian MA, Mehraj V, Tremblay C, Routy JP, Amre D, Ahmad A. 2016. Imbalanced production of IL-18 and its antagonist in human diseases, and its implications for HIV-1 infection. Cytokine 82:38-51.
90. Nasi M, De Biasi S, Bianchini E, Digaetano M, Pinti M, Gibellini L, Pecorini S, Carnevale G, Guaraldi G, Borghi V, Mussini C, Cossarizza A. 2015. Analysis of inflammasomes and antiviral sensing components reveals decreased expression of NLRX1 in HIV-positive patients assuming efficient antiretroviral therapy. AIDS 29:1937-41.
91. Chattergoon MA, Latanich R, Quinn J, Winter ME, Buckheit RW, 3rd, Blankson JN, Pardoll D, Cox AL. 2014. HIV and HCV activate the inflammasome in monocytes and macrophages via endosomal Toll-like receptors without induction of type 1 interferon. PLoS Pathog 10:e1004082.
92. Fowler BJ, Gelfand BD, Kim Y, Kerur N, Tarallo V, Hirano Y, Amarnath S, Fowler DH, Radwan M, Young MT, Pittman K, Kubes P, Agarwal HK, Parang K, Hinton DR, Bastos-Carvalho A, Li S, Yasuma T, Mizutani T, Yasuma R, Wright C, Ambati J. 2014. Nucleoside reverse transcriptase inhibitors possess intrinsic anti-inflammatory activity. Science 346:1000-3.
93. Hernandez JC, Latz E, Urcuqui-Inchima S. 2014. HIV-1 induces the first signal to activate the NLRP3 inflammasome in monocyte-derived macrophages. Intervirology 57:36-42.
94. Walsh JG, Reinke SN, Mamik MK, McKenzie BA, Maingat F, Branton WG, Broadhurst DI, Power C. 2014. Rapid inflammasome activation in microglia contributes to brain disease in HIV/AIDS. Retrovirology 11:35.
95. Guo H, Gao J, Taxman DJ, Ting JP, Su L. 2014. HIV-1 infection induces interleukin-1β production via TLR8 protein-dependent and NLRP3 inflammasome mechanisms in human monocytes. J Biol Chem 289:21716-26.
96. Pontillo A, Carvalho MS, Kamada AJ, Moura R, Schindler HC, Duarte AJ, Crovella S. 2013. Susceptibility to Mycobacterium tuberculosis infection in HIV-positive patients is associated with CARD8 genetic variant. J Acquir Immune Defic Syndr 63:147-51.
97. Pontillo A, Santillo BT, Duarte AJ, Oshiro TM. 2013. Differential inflammasome expression and IL-1beta secretion in monocyte-derived dendritic cells differentiated with IL-4 or IFN-alpha. AIDS Res Ther 10:35.
98. Pontillo A, Oshiro TM, Girardelli M, Kamada AJ, Crovella S, Duarte AJ. 2012. Polymorphisms in inflammasome' genes and susceptibility to HIV-1 infection. J Acquir Immune Defic Syndr 59:121-5.
99. Pontillo A, Silva LT, Oshiro TM, Finazzo C, Crovella S, Duarte AJ. 2012. HIV-1 induces NALP3-inflammasome expression and interleukin-1beta secretion in dendritic cells from healthy individuals but not from HIV-positive patients. AIDS 26:11-8.
100. Dahl G, Keane RW. 2012. Pannexin: from discovery to bedside in 11±4 years? Brain Res 1487:150-9.
101. Butterfield TR, Hanna DB, Kaplan RC, Xue X, Kizer JR, Durkin HG, Kassaye SG, Nowicki M, Tien PC, Golub ET, Floris-Moore MA, Titanji K, Fischl MA, Heath S, Palmer CS, Landay AL, Anzinger JJ. 2022. Elevated CD4+ T cell glucose metabolism in HIV+ women with diabetes mellitus. AIDS.
102. Schank M, Zhao J, Moorman JP, Yao ZQ. 2021. The Impact of HIV- and ART-Induced Mitochondrial Dysfunction in Cellular Senescence and Aging. Cells 10.
103. Hileman CO, Kalayjian RC, Azzam S, Schlatzer D, Wu K, Tassiopoulos K, Bedimo R, Ellis RJ, Erlandson KM, Kallianpur A, Koletar SL, Landay AL, Palella FJ, Taiwo B, Pallaki M, Hoppel CL. 2021. Plasma Citrate and Succinate Are Associated With Neurocognitive Impairment in Older People With HIV. Clin Infect Dis 73:e765-e772.
104. Gangcuangco LMA, Mitchell BI, Siriwardhana C, Kohorn LB, Chew GM, Bowler S, Kallianpur KJ, Chow DC, Ndhlovu LC, Gerschenson M, Shikuma CM. 2020. Mitochondrial oxidative phosphorylation in peripheral blood mononuclear cells is decreased in chronic HIV and correlates with immune dysregulation. PLoS One 15:e0231761.
105. Dagenais-Lussier X, Mouna A, Routy JP, Tremblay C, Sekaly RP, El-Far M, Grevenynghe J. 2015. Current topics in HIV-1 pathogenesis: The emergence of deregulated immuno-metabolism in HIV-infected subjects. Cytokine Growth Factor Rev 26:603-13.
106. Gerriets VA, Rathmell JC. 2012. Metabolic pathways in T cell fate and function. Trends Immunol 33:168-73.
107. Valle-Casuso JC, Angin M, Volant S, Passaes C, Monceaux V, Mikhailova A, Bourdic K, Avettand-Fenoel V, Boufassa F, Sitbon M, Lambotte O, Thoulouze MI, Müller-Trutwin M, Chomont N, Sáez-Cirión A. 2019. Cellular Metabolism Is a Major Determinant of HIV-1 Reservoir Seeding in CD4. Cell Metab 29:611-626.e5.
108. Palmer CS, Ostrowski M, Gouillou M, Tsai L, Yu D, Zhou J, Henstridge DC, Maisa A, Hearps AC, Lewin SR, Landay A, Jaworowski A, McCune JM, Crowe SM. 2014. Increased glucose metabolic activity is associated with CD4+ T-cell activation and depletion during chronic HIV infection. AIDS 28:297-309.
109. Palmer CS, Anzinger JJ, Zhou J, Gouillou M, Landay A, Jaworowski A, McCune JM, Crowe SM. 2014. Glucose transporter 1-expressing proinflammatory monocytes are elevated in combination antiretroviral therapy-treated and untreated HIV+ subjects. J Immunol 193:5595-603.
110. Guo H, Wang Q, Ghneim K, Wang L, Rampanelli E, Holley-Guthrie E, Cheng L, Garrido C, Margolis DM, Eller LA, Robb ML, Sekaly RP, Chen X, Su L, Ting JP. 2021. Multi-omics analyses reveal that HIV-1 alters CD4. Nat Immunol 22:423-433.
111. Satija R, Farrell JA, Gennert D, Schier AF, Regev A. 2015. Spatial reconstruction of single-cell gene expression data. Nat Biotechnol 33:495-502.
112. Gribov A, Sill M, Lück S, Rücker F, Döhner K, Bullinger L, Benner A, Unwin A. 2010. SEURAT: visual analytics for the integrated analysis of microarray data. BMC Med Genomics 3:21.
113. Yip SH, Sham PC, Wang J. 2018. Evaluation of tools for highly variable gene discovery from single-cell RNA-seq data. Brief Bioinform.
114. Stuart T, Butler A, Hoffman P, Hafemeister C, Papalexi E, Mauck WM, Hao YH, Stoeckius M, Smibert P, Satija R. 2019. Comprehensive Integration of Single-Cell Data. Cell 177:1888-+.
115. Fabregat A, Jupe S, Matthews L, Sidiropoulos K, Gillespie M, Garapati P, Haw R, Jassal B, Korninger F, May B, Milacic M, Roca CD, Rothfels K, Sevilla C, Shamovsky V, Shorser S, Varusai T, Viteri G, Weiser J, Wu GM, Stein L, Hermjakob H, D'Eustachio P. 2018. The Reactome Pathway Knowledgebase. Nucleic Acids Research 46:D649-D655.
116. Yu G, He QY. 2016. ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization. Mol Biosyst 12:477-9.
117. Zhou YY, Zhou B, Pache L, Chang M, Khodabakhshi AH, Tanaseichuk O, Benner C, Chanda SK. 2019. Metascape provides a biologist-oriented resource for the analysis of systems-level datasets. Nature Communications 10.
118. Haw R, Loney F, Ong E, He YQ, Wu GM. 2020. Perform Pathway Enrichment Analysis Using ReactomeFIViz. Protein-Protein Interaction Networks: Methods and Protocols 2074:165-179.