Grant Publications

2020

• Xue J, Guijas C, Benton HP, Warth B, Siuzdak G. METLIN MS(2) molecular standards database: a broad chemical and biological resource. Nat Methods. 2020;17(10):953-4. Epub 2020/08/26. doi: 10.1038/s41592-020-0942-5. PubMed PMID: 32839599.
• Wiesman AI, Rezich MT, O'Neill J, Morsey B, Wang T, Ideker T, Swindells S, Fox HS, Wilson TW. Epigenetic Markers of Aging Predict the Neural Oscillations Serving Selective Attention. Cereb Cortex. 2020;30(3):1234-43. Epub 2019/09/11. doi: 10.1093/cercor/bhz162. PubMed PMID: 31504270; PMCID: PMC7132912.
• Wang W, Smith N, Makarov E, Sun Y, Gebhart CL, Ganesan M, Osna NA, Gendelman HE, Edagwa BJ, Poluektova LY. A long-acting 3TC ProTide nanoformulation suppresses HBV replication in humanized mice. Nanomedicine. 2020;28:102185. Epub 2020/03/29. doi: 10.1016/j.nano.2020.102185. PubMed PMID: 32217146; PMCID: PMC7438263.
• Vellichirammal NN, Albahrani A, Banwait JK, Mishra NK, Li Y, Roychoudhury S, Kling MJ, Mirza S, Bhakat KK, Band V, Joshi SS, Guda C. Pan-Cancer Analysis Reveals the Diverse Landscape of Novel Sense and Antisense Fusion Transcripts. Mol Ther Nucleic Acids. 2020;19:1379-98. Epub 2020/03/13. doi: 10.1016/j.omtn.2020.01.023. PubMed PMID: 32160708; PMCID: PMC7044684.
• Uppada SB, Madduri LSV, Singu S, Lawson B, Bauer L, Freifeld A, Bhatt VR, Byrareddy SN. Modified Papanicolaou staining for oral swab samples stored long term. Biotech Histochem. 2020:1-5. Epub 2020/08/22. doi: 10.1080/10520295.2020.1804075. PubMed PMID: 32820964; PMCID: PMC7897329.
• Trivedi J, Mohan M, Byrareddy SN. Drug Repurposing Approaches to Combating Viral Infections. J Clin Med. 2020;9(11). Epub 2020/11/27. doi: 10.3390/jcm9113777. PubMed PMID: 33238464; PMCID: PMC7700377.
• Thurman M, Johnson S, Acharya A, Pallikkuth S, Mahesh M, Byrareddy SN. Biomarkers of Activation and Inflammation to Track Disparity in Chronological and Physiological Age of People Living With HIV on Combination Antiretroviral Therapy. Front Immunol. 2020;11:583934. Epub 2020/11/10. doi: 10.3389/fimmu.2020.583934. PubMed PMID: 33162998; PMCID: PMC7581935.
• Tan YD, Xiao P, Guda C. In-depth Mendelian randomization analysis of causal factors for coronary artery disease. Sci Rep. 2020;10(1):9208. Epub 2020/06/10. doi: 10.1038/s41598-020-66027-4. PubMed PMID: 32514076; PMCID: PMC7280530.
• Su H, Sravanam S, Gorantla S, Kaminski R, Khalili K, Poluektova L, Gendelman HE, Dash PK. Amplification of Replication Competent HIV-1 by Adoptive Transfer of Human Cells From Infected Humanized Mice. Front Cell Infect Microbiol. 2020;10:38. Epub 2020/03/03. doi: 10.3389/fcimb.2020.00038. PubMed PMID: 32117811; PMCID: PMC7026001.
• Singu S, Acharya A, Challagundla K, Byrareddy SN. Impact of Social Determinants of Health on the Emerging COVID-19 Pandemic in the United States. Front Public Health. 2020;8:406. Epub 2020/08/15. doi: 10.3389/fpubh.2020.00406. PubMed PMID: 32793544; PMCID: PMC7385373.
• Sil S, Dagur RS, Liao K, Peeples ES, Hu G, Periyasamy P, Buch S. Strategies for the use of Extracellular Vesicles for the Delivery of Therapeutics. J Neuroimmune Pharmacol. 2020;15(3):422-42. Epub 2019/08/29. doi: 10.1007/s11481-019-09873-y. PubMed PMID: 31456107; PMCID: PMC7044028.
• Schwab AD, Thurston MJ, Machhi J, Olson KE, Namminga KL, Gendelman HE, Mosley RL. Immunotherapy for Parkinson's disease. Neurobiol Dis. 2020;137:104760. Epub 2020/01/25. doi: 10.1016/j.nbd.2020.104760. PubMed PMID: 31978602; PMCID: PMC7933730.
• Rothan HA, Acharya A, Reid SP, Kumar M, Byrareddy SN. Molecular Aspects of COVID-19 Differential Pathogenesis. Pathogens. 2020;9(7). Epub 2020/07/10. doi: 10.3390/pathogens9070538. PubMed PMID: 32640525; PMCID: PMC7400297.
• Proskovec AL, Rezich MT, O'Neill J, Morsey B, Wang T, Ideker T, Swindells S, Fox HS, Wilson TW. Association of Epigenetic Metrics of Biological Age With Cortical Thickness. JAMA Netw Open. 2020;3(9):e2015428. Epub 2020/09/15. doi: 10.1001/jamanetworkopen.2020.15428. PubMed PMID: 32926115; PMCID: PMC7490648holding an equity interest in Data4Cure, Inc, and serving on its scientific advisory board, holding an equity interest and serving on the Scientific Advisory Board of Ideaya BioSciences, Inc, and receiving income for sponsored research funding; the terms of these arrangements have been reviewed and approved by the University of California San Diego in accordance with its conflict of interest policies. Dr Swindells reported receiving grants from ViiVHealthcare outside the submitted work. No other disclosures were reported.
• Olwenyi OA, Dyavar SR, Acharya A, Podany AT, Fletcher CV, Ng CL, Reid SP, Byrareddy SN. Immuno-epidemiology and pathophysiology of coronavirus disease 2019 (COVID-19). J Mol Med (Berl). 2020;98(10):1369-83. Epub 2020/08/19. doi: 10.1007/s00109-020-01961-4. PubMed PMID: 32808094; PMCID: PMC7431311.
• Olwenyi OA, Acharya A, Routhu NK, Pierzchalski K, Jones JW, Kane MA, Sidell N, Mohan M, Byrareddy SN. Retinoic Acid Improves the Recovery of Replication-Competent Virus from Latent SIV Infected Cells. Cells. 2020;9(9). Epub 2020/09/17. doi: 10.3390/cells9092076. PubMed PMID: 32932813; PMCID: PMC7565696.
• Olson KE, Namminga KL, Schwab AD, Thurston MJ, Lu Y, Woods A, Lei L, Shen W, Wang F, Joseph SB, Gendelman HE, Mosley RL. Neuroprotective Activities of Long-Acting Granulocyte-Macrophage Colony-Stimulating Factor (mPDM608) in 1-Methyl-4-Phenyl-1,2,3,6-Tetrahydropyridine-Intoxicated Mice. Neurotherapeutics. 2020;17(4):1861-77. Epub 2020/07/09. doi: 10.1007/s13311-020-00877-8. PubMed PMID: 32638217; PMCID: PMC7851309.
• Odegaard KE, Schaal VL, Clark AR, Koul S, Gowen A, Sankarasubramani J, Xiao P, Guda C, Lisco SJ, Yelamanchili SV, Pendyala G. Characterization of the intergenerational impact of in utero and postnatal oxycodone exposure. Transl Psychiatry. 2020;10(1):329. Epub 2020/09/25. doi: 10.1038/s41398-020-01012-z. PubMed PMID: 32968044; PMCID: PMC7511347.
• Niu M, Morsey B, Lamberty BG, Emanuel K, Yu F, León-Rivera R, Berman JW, Gaskill PJ, Matt SM, Ciborowski PS, Fox HS. Methamphetamine Increases the Proportion of SIV-Infected Microglia/Macrophages, Alters Metabolic Pathways, and Elevates Cell Death Pathways: A Single-Cell Analysis. Viruses. 2020;12(11). Epub 2020/11/18. doi: 10.3390/v12111297. PubMed PMID: 33198269; PMCID: PMC7697917.
• Mukadam IZ, Machhi J, Herskovitz J, Hasan M, Oleynikov MD, Blomberg WR, Svechkarev D, Mohs AM, Zhou Y, Dash P, McMillan J, Gorantla S, Garrison J, Gendelman HE, Kevadiya BD. Rilpivirine-associated aggregation-induced emission enables cell-based nanoparticle tracking. Biomaterials. 2020;231:119669. Epub 2019/12/23. doi: 10.1016/j.biomaterials.2019.119669. PubMed PMID: 31865227; PMCID: PMC7334833.
• Mishra PK, Tandon R, Byrareddy SN. Diabetes and COVID-19 risk: an miRNA perspective. Am J Physiol Heart Circ Physiol. 2020;319(3):H604-h9. Epub 2020/08/09. doi: 10.1152/ajpheart.00489.2020. PubMed PMID: 32762561; PMCID: PMC7509271.
• Mishra NK, Southekal S, Guda C. Prognostic value of biomarkers in the tumor microenvironment of pancreatic ductal adenocarcinoma. Ann Transl Med. 2020;8(10):615. Epub 2020/06/23. doi: 10.21037/atm.2020.03.59. PubMed PMID: 32566552; PMCID: PMC7290607 (available at http://dx.doi.org/10.21037/atm.2020.03.59). The authors have no conflicts of interest to declare.
• Mishra NK, Niu M, Southekal S, Bajpai P, Elkholy A, Manne U, Guda C. Identification of Prognostic Markers in Cholangiocarcinoma Using Altered DNA Methylation and Gene Expression Profiles. Front Genet. 2020;11:522125. Epub 2020/11/17. doi: 10.3389/fgene.2020.522125. PubMed PMID: 33193605; PMCID: PMC7606733.Machhi J, Kevadiya BD, Muhammad IK, Herskovitz J, Olson KE, Mosley RL, Gendelman HE. Harnessing regulatory T cell neuroprotective activities for treatment of neurodegenerative disorders. Mol Neurodegener. 2020;15(1):32. Epub 2020/06/07. doi: 10.1186/s13024-020-00375-7. PubMed PMID: 32503641; PMCID: PMC7275301.
• Machhi J, Herskovitz J, Senan AM, Dutta D, Nath B, Oleynikov MD, Blomberg WR, Meigs DD, Hasan M, Patel M, Kline P, Chang RC, Chang L, Gendelman HE, Kevadiya BD. The Natural History, Pathobiology, and Clinical Manifestations of SARS-CoV-2 Infections. J Neuroimmune Pharmacol. 2020;15(3):359-86. Epub 2020/07/23. doi: 10.1007/s11481-020-09944-5. PubMed PMID: 32696264; PMCID: PMC7373339.
• Liao K, Niu F, Hu G, Yang L, Dallon B, Villarreal D, Buch S. Morphine-mediated release of miR-138 in astrocyte-derived extracellular vesicles promotes microglial activation. J Extracell Vesicles. 2020;10(1):e12027. Epub 2020/12/12. doi: 10.1002/jev2.12027. PubMed PMID: 33304479; PMCID: PMC7710131.
• Liao K, Niu F, Hu G, Guo ML, Sil S, Buch S. HIV Tat-mediated induction of autophagy regulates the disruption of ZO-1 in brain endothelial cells. Tissue Barriers. 2020;8(2):1748983. Epub 2020/04/18. doi: 10.1080/21688370.2020.1748983. PubMed PMID: 32299282; PMCID: PMC7549738.
• Liao K, Niu F, Dagur RS, He M, Tian C, Hu G. Intranasal Delivery of lincRNA-Cox2 siRNA Loaded Extracellular Vesicles Decreases Lipopolysaccharide-Induced Microglial Proliferation in Mice. J Neuroimmune Pharmacol. 2020;15(3):390-9. Epub 2019/07/22. doi: 10.1007/s11481-019-09864-z. PubMed PMID: 31325121; PMCID: PMC6980430.
• León-Rivera R, Morsey B, Niu M, Fox HS, Berman JW. Interactions of Monocytes, HIV, and ART Identified by an Innovative scRNAseq Pipeline: Pathways to Reservoirs and HIV-Associated Comorbidities. mBio. 2020;11(4). Epub 2020/07/30. doi: 10.1128/mBio.01037-20. PubMed PMID: 32723919; PMCID: PMC7387797.
• Larabi A, Barnich N, Nguyen HTT. New insights into the interplay between autophagy, gut microbiota and inflammatory responses in IBD. Autophagy. 2020;16(1):38-51. Epub 2019/07/10. doi: 10.1080/15548627.2019.1635384. PubMed PMID: 31286804; PMCID: PMC6984609.
• Lakshmaiah Narayana J, Mishra B, Lushnikova T, Wu Q, Chhonker YS, Zhang Y, Zarena D, Salnikov ES, Dang X, Wang F, Murphy C, Foster KW, Gorantla S, Bechinger B, Murry DJ, Wang G. Two distinct amphipathic peptide antibiotics with systemic efficacy. Proc Natl Acad Sci U S A. 2020;117(32):19446-54. Epub 2020/07/30. doi: 10.1073/pnas.2005540117. PubMed PMID: 32723829; PMCID: PMC7431008.
• Kutchy NA, Peeples ES, Sil S, Liao K, Chivero ET, Hu G, Buch S. Extracellular Vesicles in Viral Infections of the Nervous System. Viruses. 2020;12(7). Epub 2020/07/02. doi: 10.3390/v12070700. PubMed PMID: 32605316; PMCID: PMC7411781.
• Kumar SRP, Wang X, Avuthu N, Bertolini TB, Terhorst C, Guda C, Daniell H, Herzog RW. Role of Small Intestine and Gut Microbiome in Plant-Based Oral Tolerance for Hemophilia. Front Immunol. 2020;11:844. Epub 2020/06/09. doi: 10.3389/fimmu.2020.00844. PubMed PMID: 32508814; PMCID: PMC7251037.
• Kulkarni TA, Bade AN, Sillman B, Shetty BLD, Wojtkiewicz MS, Gautam N, Hilaire JR, Sravanam S, Szlachetka A, Lamberty BG, Morsey BM, Fox HS, Alnouti Y, McMillan JM, Mosley RL, Meza J, Domanico PL, Yue TY, Moore G, Edagwa BJ, Gendelman HE. A year-long extended release nanoformulated cabotegravir prodrug. Nat Mater. 2020;19(8):910-20. Epub 2020/04/29. doi: 10.1038/s41563-020-0674-z. PubMed PMID: 32341511; PMCID: PMC7384935.
• Hu G, Niu F, Liao K, Periyasamy P, Sil S, Liu J, Dravid SM, Buch S. HIV-1 Tat-Induced Astrocytic Extracellular Vesicle miR-7 Impairs Synaptic Architecture. J Neuroimmune Pharmacol. 2020;15(3):538-53. Epub 2019/08/12. doi: 10.1007/s11481-019-09869-8. PubMed PMID: 31401755; PMCID: PMC7008083.
• Hanna KF, Sayles HR, O'Neill J, White ML, Wilson TW, Swindells S. Incidental Findings on Brain MRI in People with HIV Infection. Sci Rep. 2020;10(1):9474. Epub 2020/06/13. doi: 10.1038/s41598-020-66443-6. PubMed PMID: 32528044; PMCID: PMC7289834.
• Guijas C, Montenegro-Burke JR, Cintron-Colon R, Domingo-Almenara X, Sanchez-Alavez M, Aguirre CA, Shankar K, Majumder EL, Billings E, Conti B, Siuzdak G. Metabolic adaptation to calorie restriction. Sci Signal. 2020;13(648). Epub 2020/09/10. doi: 10.1126/scisignal.abb2490. PubMed PMID: 32900879; PMCID: PMC7580877.
• Groff BR, Wiesman AI, Rezich MT, O'Neill J, Robertson KR, Fox HS, Swindells S, Wilson TW. Age-related visual dynamics in HIV-infected adults with cognitive impairment. Neurol Neuroimmunol Neuroinflamm. 2020;7(3). Epub 2020/02/28. doi: 10.1212/nxi.0000000000000690. PubMed PMID: 32102916; PMCID: PMC7051212.
• Gao G, Li C, Zhu J, Wang Y, Huang Y, Zhao S, Sheng S, Song Y, Ji C, Li C, Yang X, Ye L, Qi X, Zhang Y, Xia X, Zheng JC. Glutaminase 1 Regulates Neuroinflammation After Cerebral Ischemia Through Enhancing Microglial Activation and Pro-Inflammatory Exosome Release. Front Immunol. 2020;11:161. Epub 2020/03/03. doi: 10.3389/fimmu.2020.00161. PubMed PMID: 32117296; PMCID: PMC7020613.
• Fan W, Wan Y, Li Q. Interleukin-21 enhances the antibody avidity elicited by DNA prime and MVA boost vaccine. Cytokine. 2020;125:154814. Epub 2019/08/27. doi: 10.1016/j.cyto.2019.154814. PubMed PMID: 31450102.
• Dyavar SR, Potts LF, Beck G, Dyavar Shetty BL, Lawson B, Podany AT, Fletcher CV, Amara RR, Papa SM. Transcriptomic approach predicts a major role for transforming growth factor beta type 1 pathway in L-Dopa-induced dyskinesia in parkinsonian rats. Genes Brain Behav. 2020;19(8):e12690. Epub 2020/08/03. doi: 10.1111/gbb.12690. PubMed PMID: 32741046; PMCID: PMC8006569.
• Dyavar SR, Mykris TM, Winchester LC, Scarsi KK, Fletcher CV, Podany AT. Hepatocytic transcriptional signatures predict comparative drug interaction potential of rifamycin antibiotics. Sci Rep. 2020;10(1):12565. Epub 2020/07/30. doi: 10.1038/s41598-020-69228-z. PubMed PMID: 32724080; PMCID: PMC7387492.
• Dash PK, Kevadiya BD, Su H, Banoub MG, Gendelman HE. Pathways towards human immunodeficiency virus elimination. EBioMedicine. 2020;53:102667. Epub 2020/03/03. doi: 10.1016/j.ebiom.2020.102667. PubMed PMID: 32114397; PMCID: PMC7047153.
• Dash PK, Alomar FA, Hackfort BT, Su H, Conaway A, Poluektova LY, Gendelman HE, Gorantla S, Bidasee KR. HIV-1-Associated Left Ventricular Cardiac Dysfunction in Humanized Mice. Sci Rep. 2020;10(1):9746. Epub 2020/06/18. doi: 10.1038/s41598-020-65943-9. PubMed PMID: 32546795; PMCID: PMC7297773.
• Dagur RS, Liao K, Sil S, Niu F, Sun Z, Lyubchenko YL, Peeples ES, Hu G, Buch S. Neuronal-derived extracellular vesicles are enriched in the brain and serum of HIV-1 transgenic rats. J Extracell Vesicles. 2020;9(1):1703249. Epub 2020/02/01. doi: 10.1080/20013078.2019.1703249. PubMed PMID: 32002168; PMCID: PMC6968593.
• Cornish A, Roychoudhury S, Sarma K, Pramanik S, Bhakat K, Dudley A, Mishra NK, Guda C. Red panda: a novel method for detecting variants in single-cell RNA sequencing. BMC Genomics. 2020;21(Suppl 11):830. Epub 2020/12/30. doi: 10.1186/s12864-020-07224-3. PubMed PMID: 33372593; PMCID: PMC7771073.
• Chand S, Jo A, Vellichirammal NN, Gowen A, Guda C, Schaal V, Odegaard K, Lee H, Pendyala G, Yelamanchili SV. Comprehensive Characterization of Nanosized Extracellular Vesicles from Central and Peripheral Organs : Implications for Preclinical and Clinical Applications. ACS Appl Nano Mater. 2020;3(9):8906-19. Epub 2021/01/02. doi: 10.1021/acsanm.0c01654. PubMed PMID: 33385108; PMCID: PMC7771629.
• Buch S, Periyasamy P, Thangaraj A, Sil S, Chivero ET, Tripathi A. Opioid-Mediated HIV-1 Immunopathogenesis. J Neuroimmune Pharmacol. 2020;15(4):628-42. Epub 2020/10/09. doi: 10.1007/s11481-020-09960-5. PubMed PMID: 33029670; PMCID: PMC7872067.
• Banoub MG, Bade AN, Lin Z, Cobb D, Gautam N, Dyavar Shetty BL, Wojtkiewicz M, Alnouti Y, McMillan J, Gendelman HE, Edagwa B. Synthesis and Characterization of Long-Acting Darunavir Prodrugs. Mol Pharm. 2020;17(1):155-66. Epub 2019/11/20. doi: 10.1021/acs.molpharmaceut.9b00871. PubMed PMID: 31742407; PMCID: PMC7295016.
• Avedissian SN, Dyavar SR, Fox HS, Fletcher CV. Pharmacologic approaches to HIV-associated neurocognitive disorders. Curr Opin Pharmacol. 2020;54:102-8. Epub 2020/10/14. doi: 10.1016/j.coph.2020.09.003. PubMed PMID: 33049585; PMCID: PMC7770011.
• Arif Y, Wiesman AI, O'Neill J, Embury C, May PE, Lew BJ, Schantell MD, Fox HS, Swindells S, Wilson TW. The age-related trajectory of visual attention neural function is altered in adults living with HIV: A cross-sectional MEG study. EBioMedicine. 2020;61:103065. Epub 2020/10/26. doi: 10.1016/j.ebiom.2020.103065. PubMed PMID: 33099087; PMCID: PMC7585051.
• Almikhlafi MA, Stauch KL, Villeneuve LM, Purnell PR, Lamberty BG, Fox HS. Deletion of DJ-1 in rats affects protein abundance and mitochondrial function at the synapse. Sci Rep. 2020;10(1):13719. Epub 2020/08/15. doi: 10.1038/s41598-020-70486-0. PubMed PMID: 32792613; PMCID: PMC7426919.
• Acharya A, Olwenyi OA, Thurman M, Pandey K, Morsey BM, Lamberty B, Ferguson N, Callen S, Fang Q, Buch SJ, Fox HS, Byrareddy SN. Chronic morphine administration differentially modulates viral reservoirs in SIVmac251 infected rhesus macaque model. J Virol. 2020;95(5). Epub 2020/12/18. doi: 10.1128/jvi.01657-20. PubMed PMID: 33328304; PMCID: PMC8092838.
• Acharya A, Kevadiya BD, Gendelman HE, Byrareddy SN. SARS-CoV-2 Infection Leads to Neurological Dysfunction. J Neuroimmune Pharmacol. 2020;15(2):167-73. Epub 2020/05/25. doi: 10.1007/s11481-020-09924-9. PubMed PMID: 32447746; PMCID: PMC7244399.