Publications

Original Publications In Peer-Reviewed Journals

  1. Ramratnam B, Gollerkeri A, Schiffman FJ, Rintels P, Flanigan TP.  Management of persistent B19 parvovirus infection in AIDS.  Br J Haematol 91: 90-2, 1995.
  2. Ramratnam B, Gollerkeri A, Martens P, Schiffman FJ, Parameswaran J.  A study of cross coverage calls. J Gen Intern Med 11: 89, 1996.
  3. Flanigan, TP, Ramratnam B, Graeber C, Hellinger J, Smith D, Wheeler D, Hawley, P, Heath-Chiozzi M, Ward D, Brummitt C, Turner J. Prospective trial of paramomycin for cryptosporidiosis in AIDS.  Amer J Med 100: 370-2, 1996.
  4. Ramratnam B, Parameswaran J, Elliot B, Newstein M, Schiffman FJ, Rich JD, Flanigan TP.  Short course dexamethasone for thrombocytopenia in AIDS.  Amer J Med 100: 117-8, 1996.
  5. Ramratnam B, Kelly G, Mega A, Schiffman FJ. Determinants of case selection at morning report.  J Gen Intern Med 12: 263-6, 1996.
  6. Rich JD, Ramratnam B, Flanigan TP.  Triple combination antiretroviral prophylaxis of needle stick exposure to HIV.  Infect Control Hosp Epidemiol 18: 161, 1997.
  7. Grube H, Ramratnam B, Flanigan TP.   Resolution of AIDS associated cryptosporidiosis after treatment with indinavir.  Amer J Gastroen 92: 726, 1997.
  8. Rich JD, Ramratnam B, Chiang B, Tashima K. Management of indinavir associated nephrolithiasis.  J Urology 158: 2228, 1997.
  9. Ramratnam B, Tsoulfas G, Parikh A, Vigilante K, Flanigan TP.   Former prisoners’ views on mandatory HIV testing in prison.  J Correctional Health Care 4: 155-64, 1997.
  10. Ahmed A, Aggarwal M, Chiu R, Ramratnam B, Rinaldi M, Flanigan TP.  A fatal case of Rhodotorula meningitis in AIDS.  Med Health RI 81: 22-3, 1998.
  11. Larsson M, Jin X, Ramratnam B, Ogg GS, Engelmayer J, Demoitie MA, McMichael AJ, Cox WI, Steinman RM, Nixon D, Bhardwaj N.  A recombinant vaccinia virus based ELISPOT assay detects high frequencies of pol-specific CD8+ cells in HIV-1 positive individuals.  AIDS 13: 767-7, 1999.
  12. Zhang L, Ramratnam B, Tenner-Racz K, He Y, Vesanen M, Lewin S, Talal A, Racz P, Perelson AS, Korber BT, Markowitz M, Ho DD. Quantifying residual HIV-1 replication in patients receiving combination antiretroviral therapy.  N Engl J Med 340: 1605-13, 1999.
  13. Ramratnam B, Bonhoeffer S, Binley J, Hurley A, Zhang L, Mittler JE, Markowitz M, Moore JP, Perelson AS, Ho DD.  Rapid production and clearance of HIV-1 and hepatitis C virus particles in infected individuals as defined by large volume plasma aphaeresis.  Lancet 354: 1782-5, 1999.
  14. Ramratnam B, Mittler JE, Zhang L, Boden D, Hurley A, Fang F, Macken CA, Perelson AS, Markowitz M, Ho DD.  The decay of the latent reservoir of replication-competent HIV-1 is inversely correlated with the extent of residual viral replication during prolonged antiretroviral therapy.  Nat Med 6: 82-85, 2000.
  15. Zhang L, Chung C, Hu BS, He T, Guo Y, Kim AJ, Skulsky E, Jin X, Hurley A, Ramratnam B, Markowitz M, Ho DD.  Genetic characterization of rebounding HIV-1 after cessation of highly active antiretroviral therapy. J Clin Invest 106: 839-45, 2000.
  16. Mohri H, Perelson AS, Tung K, Ribeiro R, Ramratnam B, Markowitz M, Kost R, Hurley A, Weinburger L, Cesar D, Hellerstein MK, Ho DD. Increased turnover of T lymphocytes in HIV-1 infection and its reduction by antiretroviral therapy. J Exp Med194:1277-87, 2001.
  17. Ortiz GM, Hu J, Goldwitz JA, Chandwani R, Larsson M, Bonhoeffer S, Ramratnam, B,  Zhang L, Markowitz M, Nixon DF. Residual viral replication during antiretroviral therapy boosts human immunodeficiency virus type 1-specific CD8+ T-cell responses in subjects treated early after infection. J Virol 76: 411-5, 2002.
  18. Simon V, Vanderhoeven J, Hurley A, Ramratnam B, Louie M, Dawson K, Parkin N, Boden D, Markowitz M. Evolving patterns of HIV-1 resistance to antiretroviral agents in newly infected individuals. AIDS 11: 1511-9, 2002.
  19. Boden D, Pusch O, Lee F, Tucker L, Shank PR, Ramratnam B.  Promoter choice affects the potency of HIV-1 specific RNA interference. Nucleic Acids Research 31: 5033-8, 2003.
  20. Boden D, Pusch O, Lee F, Tucker L, Shank P, Ramratnam B.  Nucleotide sequence homology requirements of HIV-1 specific shRNA. Nucleic Acids Research 31: 6444-9, 2003.
  21. Boden D, Pusch O, Lee F, Tucker L, Ramratnam B.  HIV-1 escape from RNA interference.  Journal of Virology 77: 11531-11535, 2003.
  22. Pusch O, Boden D, Silbermann R, Lee F, Tucker L, Ramratnam B.  Efficient gene transfer of HIV-1specific short hairpin RNA into human lymphocytic cells using recombinant adeno-associated virus (rAAV) vectors. Molecular Therapy 9: 396-402, 2004.
  23. Ramratnam B, Ribeoro R, He T, Chung C, Simon V, Vanderhoeven J, Hurley A, Zhang L, Perelson AS, Ho DD, Markowitz M. Intensification of antiretroviral therapy accelerates the decay of the HIV-1 latent reservoir and decreases but does not eliminate ongoing virus replication. JAIDS 35: 33-7, 2004.
  24. Pusch O, Boden D, Silbermann R, Lee F, Tucker L, Ramratnam B. Enhanced gene silencing of HIV-1 specific siRNA using microRNA designed hairpins. Nucleic Acids Research 32: 1154-58, 2004.
  25. Newstein M, Losikoff P, Caliendo A, Ingersoll J, Kurpewski J, Hanley D, Cerezo J, Ramratnam B, Cu-Uvin S. Prevalence and persistence of nonnucleoside reverse transcriptase inhibitor mutations in the female genital tract. J Acquir Immune Defic Syndr 38: 364-6, 2005.
  26. Balakrishnan P, Kumarasamy N, Solomon S, Vidya S, Kantor R, Mayer K, Newstein M, Thyagarajan SP, Katzenstein D, Ramratnam B. HIV-1 genotypic variation in an antiretroviral treatment naïve population in South India.AIDS Res Hum Retroviruses 21: 301-5, 2005.
  27. Pusch O, Boden D, Hannify S, Lee F, Tucker L, Wells JM, Boyd MR, Ramratnam B, Engineering Lactic Acid Bacteria to secrete the virucide cyanovirin. J Acquir Immune Defic Syndr. 40: 512-20, 2005.
  28. Zhang Y, Cristafaro P, Silbermann R, Pusch O, Monfils P, Hovanesian V, Boden D, Resnick M, Moss SF, Ramratnam B. Engineering mucosal RNAi in vivo. Molecular Therapy. 14(3):336-42, 2006.
  29. Pusch O., Kalyanaraman R., Tucker L.D., Wells J.M., Ramratnam B, Boden D. An anti-HIV microbicide engineered in commensal bacteria:secretion of HIV-1 fusion inhibitors by lactobacilli. AIDS 20: 1917-1922, 2006.
  30. Galen B., Cheshenko N., Tuyama A., Ramratnam B , Herold B.C. Access to nectin favors HSV infection at the apical surface of polarized human epithelial cells. J of Virology 80: 12209-18, 2006.
  31. Boden D., Pusch O., Ramratnam B, Overcoming HIV-1 resistance to RNA interference. In press Frontiers in Bioscience. [Invited review] 12: 3104-16, 2007
  32. Tang X., Gao J.S., Guan Y.J., McLane K.E., Yuan Z,L., Ramratnam B, Chin Y.E. Acetylation- Dependent Signal Transduction for Type I Interferon Receptor. Cell 13: 93-105, 2007.
  33. Pellish RS, Nasir A, Ramratnam B, Moss SF.  Review article: RNA interference-potential therapeutic applications for the gastroentelogist. Aliment Pharmacol Ther 27(9): 715-23, 2008.
  34. Vidya M, Saravanan S, Uma S, Kumarasamy N, Sunil SS, Kantor R, Katzenstein D, Ramratnam B, Mayer KH, Sunini S, Balakrishnan P.  Genotypic HIV type-1 drug resistance among patients with immunological failure to first-line antiretroviral therapy in south India.  Antivir Ther 14(7): 1005-9, 2009.
  35. Zhang Y, Gao JS, Tang X, Tucker LD, Quesenberry P, Rigoutsos I, Ramratnam B. MicroRNA 125a and its regulation of the p53 tumor suppressor gene.  FEBS Lett 583(22): 3725-30, 2009.
  36. Saravanan S, Vinya M, Balakrishnan P, Kumarasamy N, Solomon SS, Solomon S, Kantor R, Katzenstein D, Ramratnam B, Mayer KH.  Evaluation of two human immunodeficiency virus-1 genotypic systems: ViroSeq 2.0 and an in-house method. J Virol Methods 159(2): 211-6, 2009.
  37. Tang X, Zhang Y, Tucker L, Ramratnam B. Phosphorylation of the RNase III enzyme Drosha at Serine300 or Serine302 is required for its nuclear localization. Nucleic Acids Res 38(19):6610-9, 2010.
  38. Song GJ, Zhang Y, Li M, Tucker LD, Machan JT, Quesenberry P, Rigoutsos I, Ramratnam B. Atypical transcription of microRNA gene fragments. Nucleic Acids Res 38(9): 2775-87, 2010.
  39. Aliotta JM, Pereira M, Johnson KW, de Paz N, Dooner MS, Puente N, Ayala C, Brilliant K. Berz D, Lee D, Ramratnam B, McMillan PN, Hixson DC, Josic D, Quesenberry PJ. Microvesicle entry into marrow cells mediates tissue-specific changes in mRNA by direct delivery of mRNA and induction of transcription. Exp Hematol 38(3): 233-45, 2010.
  40. Li M, Aliotta JM, Asara JM, Wu Q, Dooner MS, Tucker LD, Wells A, Quesenberry PJ, Ramratnam B.  Intercellular transfer of proteins as identified by stable isotope labeling of amino acids in cell culture. J Biol Chem 285(9): 6285-97, 2010.
  41. Gao JS, Zhang Y, Tang X, Tucker LD, Tarwater PM, Quesenberry P, Rigoutsos I, Ramratnam B. The Evi1,microRNA-143,K-Ras axis in colon cancer.  FEBS Lett 585(4):693-9, 2011.
  42. Tang X, Li M, Tucker L, Ramratnam B.  Glycogen Synthase Kinase 3 Beta (GSK3β) Phosphorylates the RNAase III Enzyme Drosha at S300 and S302. Plos ONE 6(6):e20391, 2011.
  43. Gupta P, Ratner D, Ding M, Patterson B, Rohan L, Reinhart T, Ayyavoo V,  Huang X, Patton D, Ramratnam B, Cole A.  Retrocyclin RC-101 blocks HIV-1 transmission across cervical mucosa in an Organ Culture. J AIDS – Basic Science. 60(5):455-61, 2012.
  44. Li M, Aliotta JM, Asara JM, Tucker L, Quesenberry PJ, Lally M, Ramratnam B. Quantitative proteomic analysis of exosomes from HIV-1 infected lymphocytic cells. Proteomics. 12(13):2203-11, 2012.
  45. Aliotta JM, Pereira M, Amaral A, Dooner MS, Sears EH, Brilliant K, Ramratnam B, Hixson DC, Quesenberry PJ.  Stable Cell Fate Changes in Marrow Cells Induced by Lung-Derived Microvesicles. Journal of Extracellular Vesicles. 1:18163, 2012.
  46. Campbell TB, Smeaton LM, Kumarasamy N, Flanigan T, Klingman KL, Firnhaber C, Grinsztejn B, Hosseinipour MC, Kumwenda J, Lalloo U, Riviere C, Sanchez J, Melo M, Supparatpinyo K, Tripathy S, Martinez AI, Nair A, Walawander A, Moran L, Chen Y, Snowden W, Rooney JF, Uy J, Schooley RT, De Gruttola V, Hakim JG, PEARLS study team of the ACTG, Swann E, Barnett RL, Brizz B, Delph Y, Gettinger N, Mitsuyasu RT, Eshleman S, Safren S, Fiscus SA, Andrade A, Haas DW, Amod F, Berthaud V, Bollinger RC, Bryson Y, Celentano D, Chilongozi D, Cohen M, Collier AC, Currier JS, Cu-Uvin S, Eron J, Flexner C, Gallant JE, Gulick RM, Hammer SM, Hoffman I, Kazembe P, Kumwenda N, Lama JR, Lawrence J, Maponga C, Martinson F, Mayer K, Nielsen K, Pendame RB, Ramratnam B, Sanne I, Severe P, Sirisanthana T, Solomon S, Tabet S, Taha T, van der Horst C, Wanke C, Gormley J, Marcus CJ, Putnam B, Ntshele S, Loeliger E, Pappa KA, Webb N, Shugarts DL, Winters MA, Descallar RS, Steele J, Wulfsohn M, Said F, Chen Y, Martin JC, Bischofberger N, Cheng A, Jaffe H, Sharma J, Poongulali S, Cardoso SW, Faria DL, Berendes S, Burke K, Mngqibisa R, Kanyama C, Kayoyo V, Samaneka WP, Chisada A, Faesen S, Chariyalertsak S, Santos B, Lira RA, Joglekar AA, La Rosa A, Infante R, Jain M, Petersen T, Godbole S, Dhayarkar S, Feinberg J, Baer J, Pollard RB, Asmuth D, Gangakhedkar RR, Gaikwad A, Ray MG, Basler C, Para MF, Watson KJ, Taiwo B, McGregor D, Balfour HH, Mullan B, Kim GY, Klebert MK, Cox GM, Silberman M, Mildvan D, Revuelta M, Tashima KT, Patterson H, Geiseler PJ, Santos B, Daar ES, Lopez R, Frarey L, Currin D, Haas DH, Bailey VL, Tebas P, Zifchak L, Noel-Connor J, Torres M, Sha BE, Fritsche JM, Cespedes M, Forcht J, O'Brien WA, Mogridge C, Hurley C, Corales R, Palmer M, Adams M, Luque A, Lopez-Detres L, Stroberg T. Efficacy and safety of three antiretroviral regimens for initial treatment of HIV-1: a randomized clinical trial in diverse multinational settings. PLoS Med. 9(8):e1001290, 2012.
  47. Quesenberry PJ, Dooner MS, Goldberg LR, Aliotta JM, Pereira M, Amaral A, Del Tatto MM, Hixson DC, Ramratnam B. A new stem cell biology: the continuum and microvesicles. Trans Am Clin Climatol Assoc. 123:152-66, 2012.
  48. Gupta P, Lacksmith-Smith C, Snyder B, Ratner D, Rohan L, Patton D, Ramratnam B, Cole A. Antiviral Activity of Retrocyclin RC-101, a Candidate Microbicide Against Cell-Associated HIV-1. AIDS Research & Human Retrovirus. 29(2):391-6, 2013.
  49. Fiscus SA, Cu-Uvin S, Eshete AT, Hughes MD, Bao Y, Hosseinipour M, Grinsztejn B, Badal-Faesen S, Dragavon J, Coombs RW, Braun K, Moran L, Hakim J, Flanigan T, Kumarasamy N, Campbell TB, A5185s Team, Klingman KL, Nair A, Walawander A, Smeaton LM, De Gruttola V, Martinez AI, Swann E, Barnett RL, Brizz B, Delph Y, Gettinger N, Mitsuyasu RT, Eshleman S, Safren S, Andrade A, Haas DW, Amod F, Berthaud V, Bollinger RC, Bryson Y, Celentano D, Chilongozi D, Cohen M, Collier AC, Currier JS, Eron J, Firnhaber C, Flexner C, Gallant JE, Gulick RM, Hammer SM, Hoffman I, Kazembe P, Kumwenda J, Kumwenda N, Lama JR, Lawrence J, Maponga C, Martinson F, Mayer K, Nielsen K, Pendame RB, Ramratnam B, Rooney JF, Sanchez J, Sanne I, Schooley RT, Snowden W, Solomon S, Tabet S, Taha T, Uy J, van der Horst C, Wanke C, Gormley J, Marcus CJ, Putnam B, Ntshele S, Loeliger E, Pappa KA, Webb N, Shugarts DL, Winters MA, Descallar RS, Sharma J, Poongulali S, Cardoso SW, Faria DL, Berendes S, Burke K, Kanyama C, Kayoyo V, Samaneka WP, Chisada A, Santos B, La Rosa A, Infante R, Balfour HH, Mullan B, Kim GY, Klebert MK, Mildvan D, Revuelta M, Jan Geiseler P, Santos B, Daar ES, Lopez R, Frarey L, Currin D, Haas DH, Bailey VL, Tebas P, Zifchak L, Sha BE, Fritsche JM. Changes in HIV-1 subtypes B and C genital tract RNA in women and men after initiation of antiretroviral therapy. Clin Infect Dis. 57(2):290-7, 2013.
  50. Tang X, Wen S, Zheng D, Tucker L, Cao L, Pantazatos D, Moss S, Ramratnam B. Acetylation of Drosha on the N-terminus Inhibits its Degradation by Ubiquitination. PLoS ONE. 29;8(8):e72503, 2013.
  51. Tang X, Zheng D, Hu P, Zeng Z, Li M, Tucker L, Monahan R, Resnick M, Liu M, Ramratnam B.  Glycogen Synthase Kinase 3 beta inhibits microRNA-183-96-182 cluster via the beta-Catenin/TCF/LEF1 pathway in gastric cancer cells. Nucleic Acids Research. 2014 Mar;42(5):2988-98.
  52. Li M, Ramratnam B. Characterizing the HIV-1 secrotome. Li M, Ramratnam B. in press HIV Protocols, 3rd Edition
  53. Londin E, Loher P, Telonis AG, Quann K, Clark P, Jing Y, Hatzimichael E, Kirino Y, Honda S, Lally M, Ramratnam B, Comstock CES, Knudsen KE, Gomella L, Spaeth GL, Hark L, Katz LJ, Witkiewicz A, Rostami A, Jimenez SA, Hollingsworth MA, Yeh JJ, Shaw CA, McKenzie SE, Bray P, Nelson PT, Zupo S, Roosbroeck KV, Keating MJ, Calin GA, Yeo C, Jimbo M, Cozzitorto J, Brody JR, Delgrosso K, Mattick JS, Fortina P, Rigoutsos I. Analysis of 13 cell types reveals evidence for the expression of numerous novel primate- and tissue-specific microRNAs. PNAS 2015 ; published ahead of print February 23, 2015, doi:10.1073/pnas.1420955112

Other Peer-Reviewed Publications

  1. Ramratnam B, T.P. Flanigan T.P. Cryptosporidiosis in persons with HIV infectionPostgrad Med J 73: 713 – 716, 1997
  2. Ramratnam B, Parameswaran J, Flynn M, Flanigan TP.  A practical approach to managing diarrhea in the HIV-infected person.  Gastrointestinal manifestations of HIV infection.  AIDS Reader 7-14, 1997.
  3. Boden D, Pusch O, Ramratnam B. HIV-1 specific RNA interference. Curr Opinion Mol Therapeutics 6: 373-80, 2004.
  4. Cristafaro P, Ramratnam B. RNAi tackles a sexually transmitted disease. Nature Biotechnology 24(1): 48-9, 2006.

Books And Book Chapters

  1. Ramratnam B, Flanigan TP, Hoxie JA. Hematologic Manifestations of AIDS (Chapter)  Hematologic pathophysiology. F.J. Schiffman, Ed. J.B. Lippincott Co., Philadelphia, PA, 1996.
  2. Ramratnam B, Markowitz M. Antiretroviral treatment in HIV infected individuals. (Chapter) Infection Highlights, MH Wilcox, Ed. Health Press,Oxford UK,1997. 
  3. Valdez, H, Ramratnam B, Flanigan TP, Lederman MM.  Host-directed and Immune-based Therapies for Human Immunodeficiency Virus Infection. (Chapter).  Immune Modulating Agents. Kresina TF, Ed. Marcel Dekker, Inc. New York, NY,1998.
  4. Ramratnam B, Markowitz M. Kinetics of Human Immunodeficiency Virus Type 1Replication and Therapy. (Chapter) Antiretroviral Therapy. De Clerq E, Ed. ASM Press, Washington, D.C., 2001.
  5. Ramratnam B, Wing E.J.  Host Defenses Against Infection in Andreoli and Carpenter’s Cecil Essentials of Medicine. 9th Edition, 2014,  in press

 

Bharat Ramratnam, MD

Associate Professor of Retrovirology

 

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  • :401-444-2939
  • DEPARTMENTLab Rhode Island Hospital
  • COUNTRYUSA