Publications

The following journal articles were published using Core technology. Others relate to the lab and the processes utilized by the core.

 Viral qPCR assays (recent)

  1. Maribavir inhibits Epstein-Barr virus transcription through the EBV protein kinase.
    Whitehurst CB, Sanders MK, Law M, Wang FZ, Xiong J, Dittmer DP, Pagano JS.
    J Virol. 2013 May;87(9):5311-5. doi: 10.1128/JVI.03505-12. Epub 2013 Feb 28.
    PMID:23449792
    [PubMed - indexed for MEDLINE]
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  2. Tousled-like kinases modulate reactivation of gammaherpesviruses from latency.
    Dillon PJ, Gregory SM, Tamburro K, Sanders MK, Johnson GL, Raab-Traub N, Dittmer DP, Damania B.
    Cell Host Microbe. 2013 Feb 13;13(2):204-14. doi: 10.1016/j.chom.2012.12.005.
    PMID:23414760
    [PubMed - indexed for MEDLINE]
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  3. mTOR inhibitors block Kaposi sarcoma growth by inhibiting essential autocrine growth factors and tumor angiogenesis.
    Roy D, Sin SH, Lucas A, Venkataramanan R, Wang L, Eason A, Chavakula V, Hilton IB, Tamburro KM, Damania B, Dittmer DP.
    Cancer Res. 2013 Apr 1;73(7):2235-46. doi: 10.1158/0008-5472.CAN-12-1851. Epub 2013 Feb 4.
    PMID:23382046
    [PubMed - indexed for MEDLINE]
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  4. Latent Kaposi's sarcoma-associated herpesvirus infection of monocytes downregulates expression of adaptive immune response costimulatory receptors and proinflammatory cytokines.
    Gregory SM, Wang L, West JA, Dittmer DP, Damania B.
    J Virol. 2012 Apr;86(7):3916-23. doi: 10.1128/JVI.06437-11. Epub 2012 Jan 25.
    PMID:22278234
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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  5. Rapamycin with antiretroviral therapy in AIDS-associated Kaposi sarcoma: an AIDS Malignancy Consortium study.
    Krown SE, Roy D, Lee JY, Dezube BJ, Reid EG, Venkataramanan R, Han K, Cesarman E, Dittmer DP.
    J Acquir Immune Defic Syndr. 2012 Apr 15;59(5):447-54. doi: 10.1097/QAI.0b013e31823e7884.
    PMID:22067664
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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miRNA assays

  1.  Viral latency locus complements miR-155 deficiency in vivo.
    Sin SH, Kim YB, Dittmer DP.
    J Virol. 2013 Aug 21. [Epub ahead of print]
    PMID:23966392
    [PubMed - as supplied by publisher]
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  2. Systemically Circulating Viral and Tumor-Derived MicroRNAs in KSHV-Associated Malignancies.
    Chugh PE, Sin SH, Ozgur S, Henry DH, Menezes P, Griffith J, Eron JJ, Damania B, Dittmer DP.
    PLoS Pathog. 2013 Jul;9(7):e1003484. doi: 10.1371/journal.ppat.1003484. Epub 2013 Jul 18.
    PMID:23874201
    [PubMed - in process]
    Free PMC Article

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  3. Potential pitfalls in microRNA profiling.
    Chugh P, Dittmer DP.
    Wiley Interdiscip Rev RNA. 2012 Sep-Oct;3(5):601-16. doi: 10.1002/wrna.1120. Epub 2012 May 7. Review.
    PMID:22566380
    [PubMed - indexed for MEDLINE]
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  4. Interferon-γ production by neutrophils during bacterial pneumonia in mice.
    Yamada M, Gomez JC, Chugh PE, Lowell CA, Dinauer MC, Dittmer DP, Doerschuk CM.
    Am J Respir Crit Care Med. 2011 May 15;183(10):1391-401. doi: 10.1164/rccm.201004-0592OC. Epub 2010 Dec 17.
    PMID:21169470
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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  5. Profiling of pre-micro RNAs and microRNAs using quantitative real-time PCR (qPCR) arrays.
    Chugh P
    , Tamburro K, Dittmer DP.
    J Vis Exp. 2010 Dec 3;(46). doi:pii: 2210. 10.3791/2210.
    PMID:21178961
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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  6. [video] Profiling of Pre-micro RNAs and microRNAs using Quantitative Real-time PCR (qPCR) Arrays.
    Chugh P, Tamburro K, Dittmer DP.
    J Vis Exp. 46. 2010. http://www.jove.com/index/details.stp?id=2210, doi: 10.3791/2210
  7. Pre-micro RNA signatures delineate stages of endothelial cell transformation in Kaposi sarcoma.
    O'Hara AJ, Chugh P, Wang L, Netto EM, Luz E, Harrington WJ, Dezube BJ, Damania B, Dittmer DP.
    PLoS Pathog. 2009 Apr;5(4):e1000389. doi: 10.1371/journal.ppat.1000389. Epub 2009 Apr 17.
    PMID:19381257
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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  8. Tumor suppressor microRNAs are underrepresented in primary effusion lymphoma and Kaposi sarcoma.
    O'Hara AJ, Wang L, Dezube BJ, Harrington WJ Jr, Damania B, Dittmer DP.
    Blood. 2009 Jun 4;113(23):5938-41. doi: 10.1182/blood-2008-09-179168. Epub 2009 Feb 27.
    PMID:19252139
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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  9. EBV microRNAs in primary lymphomas and targeting of CXCL-11 by ebv-mir-BHRF1-3.
    Xia T, O'Hara A, Araujo I, Barreto J, Carvalho E, Sapucaia JB, Ramos JC, Luz E, Pedroso C, Manrique M, Toomey NL, Brites C, Dittmer DP, Harrington WJ Jr.
    Cancer Res. 2008 Mar 1;68(5):1436-42. doi: 10.1158/0008-5472.CAN-07-5126.
    PMID:18316607
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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  10. Gene alteration and precursor and mature microRNA transcription changes contribute to the miRNA signature of primary effusion lymphoma.
    O'Hara AJ, Vahrson W, Dittmer DP.
    Blood. 2008 Feb 15;111(4):2347-53. Epub 2007 Dec 13.
    PMID:18079361
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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Bioinformatics

  1. Recent cancer incidence trends in an observational clinical cohort of HIV-infected patients in the US, 2000 to 2011.
    Yanik EL, Tamburro K, Eron JJ, Damania B, Napravnik S, Dittmer DP.
    Infect Agent Cancer. 2013 May 24;8(1):18. doi: 10.1186/1750-9378-8-18.
    PMID:23705808
    [PubMed]
    Free PMC Article

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  2. Complete genome sequence of pathogenic Guinea pig cytomegalovirus from salivary gland homogenates of infected animals.
    Yang D, Tamburro K, Dittmer D, Cui X, McVoy MA, Hernandez-Alvarado N, Schleiss MR.
    Genome Announc. 2013 Mar 14;1(2):e0005413. doi: 10.1128/genomeA.00054-13.
    PMID:23516193
    [PubMed]
    Free PMC Article

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  3. Poisson factor models with applications to non-normalized microRNA profiling.
    Lee S, Chugh PE, Shen H, Eberle R, Dittmer DP.
    Bioinformatics. 2013 May 1;29(9):1105-11. doi: 10.1093/bioinformatics/btt091. Epub 2013 Feb 21.
    PMID:23428639
    [PubMed - in process]
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  4. Vironome of Kaposi sarcoma associated herpesvirus-inflammatory cytokine syndrome in an AIDS patient reveals co-infection of human herpesvirus 8 and human herpesvirus 6A.
    Tamburro KM, Yang D, Poisson J, Fedoriw Y, Roy D, Lucas A, Sin SH, Malouf N, Moylan V, Damania B, Moll S, van der Horst C, Dittmer DP.
    Virology. 2012 Nov 10;433(1):220-5. doi: 10.1016/j.virol.2012.08.014. Epub 2012 Aug 24.
    PMID:22925337
    [PubMed - indexed for MEDLINE]
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(2010 and older):

1. Efficiency clustering for low-density microarrays and its application to QPCR.
Lock EF, Ziemiecke R, Marron J, Dittmer DP.
BMC Bioinformatics. 2010 Jul 20;11:386.
PMID: 20646303 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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2. Genome-wide real-time PCR for West Nile virus reduces the false-negative rate and facilitates new strain discovery.
Papin JF, Vahrson W, Larson L, Dittmer DP.
J Virol Methods. 2010 Oct;169(1):103-11. Epub 2010 Jul 14.
PMID: 20637239 [PubMed - in process]
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3. Molecular and clinical assessment in the treatment of AIDS Kaposi sarcoma with valproic Acid.
Lechowicz M, Dittmer DP, Lee JY, Krown SE, Wachsman W, Aboulafia D, Dezube BJ, Ratner L, Said J, Ambinder RF.
Clin Infect Dis. 2009 Dec 15;49(12):1946-9.
PMID: 19911999 [PubMed - indexed for MEDLINE]
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4. Maribavir inhibits epstein-barr virus transcription in addition to viral DNA replication.
Wang FZ, Roy D, Gershburg E, Whitehurst CB, Dittmer DP, Pagano JS.
J Virol. 2009 Dec;83(23):12108-17. Epub 2009 Sep 16.
PMID: 19759127 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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5. General and target-specific RNA binding properties of Epstein-Barr virus SM posttranscriptional regulatory protein.
Han Z, Verma D, Hilscher C, Dittmer DP, Swaminathan S.
J Virol. 2009 Nov;83(22):11635-44. Epub 2009 Sep 2.
PMID: 19726500 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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6. Disruption of LANA in rhesus rhadinovirus generates a highly lytic recombinant virus.
Wen KW, Dittmer DP, Damania B.
J Virol. 2009 Oct;83(19):9786-802. Epub 2009 Jul 8.
PMID: 19587030 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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7. Multiple pathways for Epstein-Barr virus episome loss from nasopharyngeal carcinoma.
Dittmer DP, Hilscher CJ, Gulley ML, Yang EV, Chen M, Glaser R.
Int J Cancer. 2008 Nov 1;123(9):2105-12.
PMID: 18688856 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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8. EBV microRNAs in primary lymphomas and targeting of CXCL-11 by ebv-mir-BHRF1-3.
Xia T, O'Hara A, Araujo I, Barreto J, Carvalho E, Sapucaia JB, Ramos JC, Luz E, Pedroso C, Manrique M, Toomey NL, Brites C, Dittmer DP, Harrington WJ Jr.
Cancer Res. 2008 Mar 1;68(5):1436-42.
PMID: 18316607 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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9. Development of a fluorescence-based assay to screen antiviral drugs against Kaposi's sarcoma associated herpesvirus.
Nun TK, Kroll DJ, Oberlies NH, Soejarto DD, Case RJ, Piskaut P, Matainaho T, Hilscher C, Wang L, Dittmer DP, Gao SJ, Damania B.
Mol Cancer Ther. 2007 Aug;6(8):2360-70.
PMID: 17699731 [PubMed - indexed for MEDLINE] Free Article
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10. In vivo-restricted and reversible malignancy induced by human herpesvirus-8 KSHV: a cell and animal model of virally induced Kaposi's sarcoma.
Mutlu AD, Cavallin LE, Vincent L, Chiozzini C, Eroles P, Duran EM, Asgari Z, Hooper AT, La Perle KM, Hilsher C, Gao SJ, Dittmer DP, Rafii S, Mesri EA.
Cancer Cell. 2007 Mar;11(3):245-58. Erratum in: Cancer Cell. 2007 May;11(5):471.
PMID: 17349582 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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11. Functional p53 signaling in Kaposi's sarcoma-associated herpesvirus lymphomas: implications for therapy.
Petre CE, Sin SH, Dittmer DP.
J Virol. 2007 Feb;81(4):1912-22. Epub 2006 Nov 22.
PMID: 17121789 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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12. Reactivation of Kaposi's sarcoma-associated herpesvirus by natural products from Kaposi's sarcoma endemic regions.
Whitby D, Marshall VA, Bagni RK, Miley WJ, McCloud TG, Hines-Boykin R, Goedert JJ, Conde BA, Nagashima K, Mikovits J, Dittmer DP, Newman DJ.
Int J Cancer. 2007 Jan 15;120(2):321-8.
PMID: 17066452 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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13. Faster quantitative real-time PCR protocols may lose sensitivity and show increased variability.
Hilscher C, Vahrson W, Dittmer DP.
Nucleic Acids Res. 2005 Nov 27;33(21):e182.
PMID: 16314296 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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14. Role of Notch signal transduction in Kaposi's sarcoma-associated herpesvirus gene expression.
Chang H, Dittmer DP, Shin YC, Hong Y, Jung JU.
J Virol. 2005 Nov;79(22):14371-82. Erratum in: J Virol. 2006 Apr;80(8):4203. Chul, Shin-Young [corrected to Shin, Young C].
PMID: 16254371 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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15. Whole-genome transcription profiling of rhesus monkey rhadinovirus.
Dittmer DP, Gonzalez CM, Vahrson W, DeWire SM, Hines-Boykin R, Damania B.
J Virol. 2005 Jul;79(13):8637-50.
PMID: 15956606 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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16. Real-time quantitative PCR analysis of viral transcription.
Papin J, Vahrson W, Hines-Boykin R, Dittmer DP.
Methods Mol Biol. 2005;292:449-80.
PMID: 15507725 [PubMed - indexed for MEDLINE]
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17. SYBR green-based real-time quantitative PCR assay for detection of West Nile Virus circumvents false-negative results due to strain variability.
Papin JF, Vahrson W, Dittmer DP.
J Clin Microbiol. 2004 Apr;42(4):1511-8.
PMID: 15070997 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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18. Transcription profile of Kaposi's sarcoma-associated herpesvirus in primary Kaposi's sarcoma lesions as determined by real-time PCR arrays.
Dittmer DP.
Cancer Res. 2003 May 1;63(9):2010-5.
PMID: 12727810 [PubMed - indexed for MEDLINE] Free Article
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19. Charting latency transcripts in Kaposi's sarcoma-associated herpesvirus by whole-genome real-time quantitative PCR.
Fakhari FD, Dittmer DP.
J Virol. 2002 Jun;76(12):6213-23.
PMID: 12021355 [PubMed - indexed for MEDLINE] Free PMC Article Free text
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