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Donald Ganem, MD

TitleEmeritus
InstitutionUniversity of California San Francisco
DepartmentMicrobiology and Immunology
Address513 Parnassus Ave
San Francisco CA 94143
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    Other Positions
    TitleHoward Hughes Investigator


    Collapse Biography 
    Collapse Education and Training
    University of California, San FranciscoResidency School of Medicine

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Freedman BI, Kistler AL, Skewes-Cox P, Ganem D, Spainhour M, Turner J, Divers J, Langefeld CD, Murea M, Hicks PJ, Hemal AK, Snipes JA, Zhao L, Abend JR, Lyles DS, Ma L, Skorecki KL. JC polyoma viruria associates with protection from chronic kidney disease independently from apolipoprotein L1 genotype in African Americans. Nephrol Dial Transplant. 2018 Feb 06. PMID: 29420808.
      View in: PubMed
    2. Tropberger P, Mercier A, Robinson M, Zhong W, Ganem D, Holdorf M. Mapping of histone modifications in episomal HBV cccDNA uncovers an unusual chromatin organization amenable to epigenetic manipulation. Proc Natl Acad Sci U S A. 2015 Oct 20; 112(42):E5715-24. PMID: 26438841; PMCID: PMC4620859.
    3. Bellare P, Dufresne A, Ganem D. Inefficient Codon Usage Impairs mRNA Accumulation: the Case of the v-FLIP Gene of Kaposi's Sarcoma-Associated Herpesvirus. J Virol. 2015 Jul; 89(14):7097-107. PMID: 25926644; PMCID: PMC4473549.
    4. Mercier A, Arias C, Madrid AS, Holdorf MM, Ganem D. Site-specific association with host and viral chromatin by Kaposi's sarcoma-associated herpesvirus LANA and its reversal during lytic reactivation. J Virol. 2014 Jun; 88(12):6762-77. PMID: 24696474; PMCID: PMC4054346.
    5. Arias C, Weisburd B, Stern-Ginossar N, Mercier A, Madrid AS, Bellare P, Holdorf M, Weissman JS, Ganem D. KSHV 2.0: a comprehensive annotation of the Kaposi's sarcoma-associated herpesvirus genome using next-generation sequencing reveals novel genomic and functional features. PLoS Pathog. 2014 Jan; 10(1):e1003847. PMID: 24453964; PMCID: PMC3894221.
    6. Chang HH, Ganem D. A unique herpesviral transcriptional program in KSHV-infected lymphatic endothelial cells leads to mTORC1 activation and rapamycin sensitivity. Cell Host Microbe. 2013 Apr 17; 13(4):429-40. PMID: 23601105; PMCID: PMC3774835.
    7. Chandriani S, Skewes-Cox P, Zhong W, Ganem D, Divers TJ, Van Blaricum AJ, Tennant BC, Kistler AL. Identification of a previously undescribed divergent virus from the Flaviviridae family in an outbreak of equine serum hepatitis. Proc Natl Acad Sci U S A. 2013 Apr 09; 110(15):E1407-15. PMID: 23509292; PMCID: PMC3625295.
    8. Stenglein MD, Velazquez E, Greenacre C, Wilkes RP, Ruby JG, Lankton JS, Ganem D, Kennedy MA, DeRisi JL. Complete genome sequence of an astrovirus identified in a domestic rabbit (Oryctolagus cuniculus) with gastroenteritis. Virol J. 2012 Sep 22; 9:216. PMID: 22998755; PMCID: PMC3502403.
    9. Madrid AS, Ganem D. Kaposi's sarcoma-associated herpesvirus ORF54/dUTPase downregulates a ligand for the NK activating receptor NKp44. J Virol. 2012 Aug; 86(16):8693-704. PMID: 22674989; PMCID: PMC3421743.
    10. Austgen K, Oakes SA, Ganem D. Multiple defects, including premature apoptosis, prevent Kaposi's sarcoma-associated herpesvirus replication in murine cells. J Virol. 2012 Feb; 86(3):1877-82. PMID: 22130538; PMCID: PMC3264352.
    11. Myoung J, Ganem D. Infection of lymphoblastoid cell lines by Kaposi's sarcoma-associated herpesvirus: critical role of cell-associated virus. J Virol. 2011 Oct; 85(19):9767-77. PMID: 21795352; PMCID: PMC3196463.
    12. Arron ST, Ruby JG, Dybbro E, Ganem D, Derisi JL. Transcriptome sequencing demonstrates that human papillomavirus is not active in cutaneous squamous cell carcinoma. J Invest Dermatol. 2011 Aug; 131(8):1745-53. PMID: 21490616; PMCID: PMC3136639.
    13. Myoung J, Ganem D. Generation of a doxycycline-inducible KSHV producer cell line of endothelial origin: maintenance of tight latency with efficient reactivation upon induction. J Virol Methods. 2011 Jun; 174(1-2):12-21. PMID: 21419799; PMCID: PMC3095772.
    14. Lin HR, Ganem D. Viral microRNA target allows insight into the role of translation in governing microRNA target accessibility. Proc Natl Acad Sci U S A. 2011 Mar 29; 108(13):5148-53. PMID: 21402938; PMCID: PMC3069182.
    15. Myoung J, Ganem D. Infection of primary human tonsillar lymphoid cells by KSHV reveals frequent but abortive infection of T cells. Virology. 2011 Apr 25; 413(1):1-11. PMID: 21353276; PMCID: PMC3070441.
    16. Myoung J, Ganem D. Active lytic infection of human primary tonsillar B cells by KSHV and its noncytolytic control by activated CD4+ T cells. J Clin Invest. 2011 Mar; 121(3):1130-40. PMID: 21339648; PMCID: PMC3049404.
    17. Greninger AL, Holtz L, Kang G, Ganem D, Wang D, DeRisi JL. Serological evidence of human klassevirus infection. Clin Vaccine Immunol. 2010 Oct; 17(10):1584-8. PMID: 20739504; PMCID: PMC2952992.
    18. Speck SH, Ganem D. Viral latency and its regulation: lessons from the gamma-herpesviruses. Cell Host Microbe. 2010 Jul 22; 8(1):100-15. PMID: 20638646; PMCID: PMC2914632.
    19. Raghav R, Taylor M, Delay J, Ojkic D, Pearl DL, Kistler AL, Derisi JL, Ganem D, Smith DA. Avian bornavirus is present in many tissues of psittacine birds with histopathologic evidence of proventricular dilatation disease. J Vet Diagn Invest. 2010 Jul; 22(4):495-508. PMID: 20622218.
      View in: PubMed
    20. Yozwiak NL, Skewes-Cox P, Gordon A, Saborio S, Kuan G, Balmaseda A, Ganem D, Harris E, DeRisi JL. Human enterovirus 109: a novel interspecies recombinant enterovirus isolated from a case of acute pediatric respiratory illness in Nicaragua. J Virol. 2010 Sep; 84(18):9047-58. PMID: 20592079; PMCID: PMC2937614.
    21. Chandriani S, Xu Y, Ganem D. The lytic transcriptome of Kaposi's sarcoma-associated herpesvirus reveals extensive transcription of noncoding regions, including regions antisense to important genes. J Virol. 2010 Aug; 84(16):7934-42. PMID: 20534856; PMCID: PMC2916530.
    22. Ganem D, Kistler A, DeRisi J. Achalasia and viral infection: new insights from veterinary medicine. Sci Transl Med. 2010 May 26; 2(33):33ps24. PMID: 20505212.
      View in: PubMed
    23. Ganem D. KSHV and the pathogenesis of Kaposi sarcoma: listening to human biology and medicine. J Clin Invest. 2010 Apr; 120(4):939-49. PMID: 20364091; PMCID: PMC2847423.
    24. Xu Y, Ganem D. Making sense of antisense: seemingly noncoding RNAs antisense to the master regulator of Kaposi's sarcoma-associated herpesvirus lytic replication do not regulate that transcript but serve as mRNAs encoding small peptides. J Virol. 2010 Jun; 84(11):5465-75. PMID: 20357088; PMCID: PMC2876621.
    25. Chandriani S, Ganem D. Array-based transcript profiling and limiting-dilution reverse transcription-PCR analysis identify additional latent genes in Kaposi's sarcoma-associated herpesvirus. J Virol. 2010 Jun; 84(11):5565-73. PMID: 20219929; PMCID: PMC2876603.
    26. Bellare P, Ganem D. Regulation of KSHV lytic switch protein expression by a virus-encoded microRNA: an evolutionary adaptation that fine-tunes lytic reactivation. Cell Host Microbe. 2009 Dec 17; 6(6):570-5. PMID: 20006845; PMCID: PMC2822622.
    27. Kistler AL, Smith JM, Greninger AL, Derisi JL, Ganem D. Analysis of naturally occurring avian bornavirus infection and transmission during an outbreak of proventricular dilatation disease among captive psittacine birds. J Virol. 2010 Feb; 84(4):2176-9. PMID: 19955301; PMCID: PMC2812378.
    28. Gancz AY, Kistler AL, Greninger AL, Farnoushi Y, Mechani S, Perl S, Berkowitz A, Perez N, Clubb S, DeRisi JL, Ganem D, Lublin A. Experimental induction of proventricular dilatation disease in cockatiels (Nymphicus hollandicus) inoculated with brain homogenates containing avian bornavirus 4. Virol J. 2009 Jul 09; 6:100. PMID: 19589169; PMCID: PMC2717941.
    29. Greninger AL, Runckel C, Chiu CY, Haggerty T, Parsonnet J, Ganem D, DeRisi JL. The complete genome of klassevirus - a novel picornavirus in pediatric stool. Virol J. 2009 Jun 18; 6:82. PMID: 19538752; PMCID: PMC2709156.
    30. Bisson SA, Page AL, Ganem D. A Kaposi's sarcoma-associated herpesvirus protein that forms inhibitory complexes with type I interferon receptor subunits, Jak and STAT proteins, and blocks interferon-mediated signal transduction. J Virol. 2009 May; 83(10):5056-66. PMID: 19279093; PMCID: PMC2682077.
    31. Sullivan CS, Sung CK, Pack CD, Grundhoff A, Lukacher AE, Benjamin TL, Ganem D. Murine Polyomavirus encodes a microRNA that cleaves early RNA transcripts but is not essential for experimental infection. Virology. 2009 Apr 25; 387(1):157-67. PMID: 19272626; PMCID: PMC2722155.
    32. Ziegelbauer JM, Sullivan CS, Ganem D. Tandem array-based expression screens identify host mRNA targets of virus-encoded microRNAs. Nat Genet. 2009 Jan; 41(1):130-4. PMID: 19098914; PMCID: PMC2749995.
    33. Ganem D, Ziegelbauer J. MicroRNAs of Kaposi's sarcoma-associated herpes virus. Semin Cancer Biol. 2008 Dec; 18(6):437-40. PMID: 19013245.
      View in: PubMed
    34. Chiu CY, Greninger AL, Kanada K, Kwok T, Fischer KF, Runckel C, Louie JK, Glaser CA, Yagi S, Schnurr DP, Haggerty TD, Parsonnet J, Ganem D, DeRisi JL. Identification of cardioviruses related to Theiler's murine encephalomyelitis virus in human infections. Proc Natl Acad Sci U S A. 2008 Sep 16; 105(37):14124-9. PMID: 18768820; PMCID: PMC2528868.
    35. Kistler AL, Gancz A, Clubb S, Skewes-Cox P, Fischer K, Sorber K, Chiu CY, Lublin A, Mechani S, Farnoushi Y, Greninger A, Wen CC, Karlene SB, Ganem D, DeRisi JL. Recovery of divergent avian bornaviruses from cases of proventricular dilatation disease: identification of a candidate etiologic agent. Virol J. 2008 Jul 31; 5:88. PMID: 18671869; PMCID: PMC2546392.
    36. Chiu CY, Urisman A, Greenhow TL, Rouskin S, Yagi S, Schnurr D, Wright C, Drew WL, Wang D, Weintrub PS, Derisi JL, Ganem D. Utility of DNA microarrays for detection of viruses in acute respiratory tract infections in children. J Pediatr. 2008 Jul; 153(1):76-83. PMID: 18571541; PMCID: PMC3174048.
    37. Grossmann C, Ganem D. Effects of NFkappaB activation on KSHV latency and lytic reactivation are complex and context-dependent. Virology. 2008 May 25; 375(1):94-102. PMID: 18321555; PMCID: PMC2822626.
    38. Chandriani S, Ganem D. Host transcript accumulation during lytic KSHV infection reveals several classes of host responses. PLoS One. 2007 Aug 29; 2(8):e811. PMID: 17726541; PMCID: PMC1950738.
    39. Kistler A, Avila PC, Rouskin S, Wang D, Ward T, Yagi S, Schnurr D, Ganem D, DeRisi JL, Boushey HA. Pan-viral screening of respiratory tract infections in adults with and without asthma reveals unexpected human coronavirus and human rhinovirus diversity. J Infect Dis. 2007 Sep 15; 196(6):817-25. PMID: 17703411.
      View in: PubMed
    40. Chiu CY, Alizadeh AA, Rouskin S, Merker JD, Yeh E, Yagi S, Schnurr D, Patterson BK, Ganem D, DeRisi JL. Diagnosis of a critical respiratory illness caused by human metapneumovirus by use of a pan-virus microarray. J Clin Microbiol. 2007 Jul; 45(7):2340-3. PMID: 17494722; PMCID: PMC1933008.
    41. Rowe M, Glaunsinger B, van Leeuwen D, Zuo J, Sweetman D, Ganem D, Middeldorp J, Wiertz EJ, Ressing ME. Host shutoff during productive Epstein-Barr virus infection is mediated by BGLF5 and may contribute to immune evasion. Proc Natl Acad Sci U S A. 2007 Feb 27; 104(9):3366-71. PMID: 17360652; PMCID: PMC1805610.
    42. Xu Y, Ganem D. Induction of chemokine production by latent Kaposi's sarcoma-associated herpesvirus infection of endothelial cells. J Gen Virol. 2007 Jan; 88(Pt 1):46-50. PMID: 17170435.
      View in: PubMed
    43. Chiu CY, Rouskin S, Koshy A, Urisman A, Fischer K, Yagi S, Schnurr D, Eckburg PB, Tompkins LS, Blackburn BG, Merker JD, Patterson BK, Ganem D, DeRisi JL. Microarray detection of human parainfluenzavirus 4 infection associated with respiratory failure in an immunocompetent adult. Clin Infect Dis. 2006 Oct 15; 43(8):e71-6. PMID: 16983602.
      View in: PubMed
    44. Grossmann C, Podgrabinska S, Skobe M, Ganem D. Activation of NF-kappaB by the latent vFLIP gene of Kaposi's sarcoma-associated herpesvirus is required for the spindle shape of virus-infected endothelial cells and contributes to their proinflammatory phenotype. J Virol. 2006 Jul; 80(14):7179-85. PMID: 16809323; PMCID: PMC1489050.
    45. McCormick C, Ganem D. Phosphorylation and function of the kaposin B direct repeats of Kaposi's sarcoma-associated herpesvirus. J Virol. 2006 Jun; 80(12):6165-70. PMID: 16731955; PMCID: PMC1472581.
    46. Ganem D. KSHV infection and the pathogenesis of Kaposi's sarcoma. Annu Rev Pathol. 2006; 1:273-96. PMID: 18039116.
      View in: PubMed
    47. Glaunsinger BA, Ganem D. Messenger RNA turnover and its regulation in herpesviral infection. Adv Virus Res. 2006; 66:337-94. PMID: 16877064.
      View in: PubMed
    48. Sullivan CS, Ganem D. MicroRNAs and viral infection. Mol Cell. 2005 Oct 07; 20(1):3-7. PMID: 16209940.
      View in: PubMed
    49. Bechtel J, Grundhoff A, Ganem D. RNAs in the virion of Kaposi's sarcoma-associated herpesvirus. J Virol. 2005 Aug; 79(16):10138-46. PMID: 16051806; PMCID: PMC1182685.
    50. Sullivan CS, Grundhoff AT, Tevethia S, Pipas JM, Ganem D. SV40-encoded microRNAs regulate viral gene expression and reduce susceptibility to cytotoxic T cells. Nature. 2005 Jun 02; 435(7042):682-6. PMID: 15931223.
      View in: PubMed
    51. Sullivan CS, Ganem D. A virus-encoded inhibitor that blocks RNA interference in mammalian cells. J Virol. 2005 Jun; 79(12):7371-9. PMID: 15919892; PMCID: PMC1143619.
    52. Glaunsinger B, Chavez L, Ganem D. The exonuclease and host shutoff functions of the SOX protein of Kaposi's sarcoma-associated herpesvirus are genetically separable. J Virol. 2005 Jun; 79(12):7396-401. PMID: 15919895; PMCID: PMC1143623.
    53. Sanchez DJ, Gumperz JE, Ganem D. Regulation of CD1d expression and function by a herpesvirus infection. J Clin Invest. 2005 May; 115(5):1369-78. PMID: 15864354; PMCID: PMC1087176.
    54. Bechtel JT, Winant RC, Ganem D. Host and viral proteins in the virion of Kaposi's sarcoma-associated herpesvirus. J Virol. 2005 Apr; 79(8):4952-64. PMID: 15795281; PMCID: PMC1069574.
    55. McCormick C, Ganem D. The kaposin B protein of KSHV activates the p38/MK2 pathway and stabilizes cytokine mRNAs. Science. 2005 Feb 04; 307(5710):739-41. PMID: 15692053.
      View in: PubMed
    56. Glaunsinger B, Ganem D. Highly selective escape from KSHV-mediated host mRNA shutoff and its implications for viral pathogenesis. J Exp Med. 2004 Aug 02; 200(3):391-8. PMID: 15289507; PMCID: PMC2211977.
    57. Liang Y, Ganem D. RBP-J (CSL) is essential for activation of the K14/vGPCR promoter of Kaposi's sarcoma-associated herpesvirus by the lytic switch protein RTA. J Virol. 2004 Jul; 78(13):6818-26. PMID: 15194757; PMCID: PMC421686.
    58. Glaunsinger B, Ganem D. Lytic KSHV infection inhibits host gene expression by accelerating global mRNA turnover. Mol Cell. 2004 Mar 12; 13(5):713-23. PMID: 15023341.
      View in: PubMed
    59. Ganem D, Prince AM. Hepatitis B virus infection--natural history and clinical consequences. N Engl J Med. 2004 Mar 11; 350(11):1118-29. PMID: 15014185.
      View in: PubMed
    60. Grundhoff A, Ganem D. Inefficient establishment of KSHV latency suggests an additional role for continued lytic replication in Kaposi sarcoma pathogenesis. J Clin Invest. 2004 Jan; 113(1):124-36. PMID: 14702116; PMCID: PMC300762.
    61. Wang D, Urisman A, Liu YT, Springer M, Ksiazek TG, Erdman DD, Mardis ER, Hickenbotham M, Magrini V, Eldred J, Latreille JP, Wilson RK, Ganem D, DeRisi JL. Viral discovery and sequence recovery using DNA microarrays. PLoS Biol. 2003 Nov; 1(2):E2. PMID: 14624234; PMCID: PMC261870.
    62. Liang Y, Ganem D. Lytic but not latent infection by Kaposi's sarcoma-associated herpesvirus requires host CSL protein, the mediator of Notch signaling. Proc Natl Acad Sci U S A. 2003 Jul 08; 100(14):8490-5. PMID: 12832621; PMCID: PMC166256.
    63. Bechtel JT, Liang Y, Hvidding J, Ganem D. Host range of Kaposi's sarcoma-associated herpesvirus in cultured cells. J Virol. 2003 Jun; 77(11):6474-81. PMID: 12743304; PMCID: PMC155009.
    64. Grundhoff A, Ganem D. The latency-associated nuclear antigen of Kaposi's sarcoma-associated herpesvirus permits replication of terminal repeat-containing plasmids. J Virol. 2003 Feb; 77(4):2779-83. PMID: 12552022; PMCID: PMC141125.
    65. Coscoy L, Ganem D. PHD domains and E3 ubiquitin ligases: viruses make the connection. Trends Cell Biol. 2003 Jan; 13(1):7-12. PMID: 12480335.
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    66. Wang D, Coscoy L, Zylberberg M, Avila PC, Boushey HA, Ganem D, DeRisi JL. Microarray-based detection and genotyping of viral pathogens. Proc Natl Acad Sci U S A. 2002 Nov 26; 99(24):15687-92. PMID: 12429852; PMCID: PMC137777.
    67. Polson AG, Wang D, DeRisi J, Ganem D. Modulation of host gene expression by the constitutively active G protein-coupled receptor of Kaposi's sarcoma-associated herpesvirus. Cancer Res. 2002 Aug 01; 62(15):4525-30. PMID: 12154065.
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    68. Liang Y, Chang J, Lynch SJ, Lukac DM, Ganem D. The lytic switch protein of KSHV activates gene expression via functional interaction with RBP-Jkappa (CSL), the target of the Notch signaling pathway. Genes Dev. 2002 Aug 01; 16(15):1977-89. PMID: 12154127; PMCID: PMC186409.
    69. Baron JL, Gardiner L, Nishimura S, Shinkai K, Locksley R, Ganem D. Activation of a nonclassical NKT cell subset in a transgenic mouse model of hepatitis B virus infection. Immunity. 2002 Apr; 16(4):583-94. PMID: 11970881.
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    70. Lagunoff M, Bechtel J, Venetsanakos E, Roy AM, Abbey N, Herndier B, McMahon M, Ganem D. De novo infection and serial transmission of Kaposi's sarcoma-associated herpesvirus in cultured endothelial cells. J Virol. 2002 Mar; 76(5):2440-8. PMID: 11836422; PMCID: PMC153827.
    71. Sanchez DJ, Coscoy L, Ganem D. Functional organization of MIR2, a novel viral regulator of selective endocytosis. J Biol Chem. 2002 Feb 22; 277(8):6124-30. PMID: 11751860.
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