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Elena Edi Giorgi

Postdoctoral Research Associate
T-6/CNLS

Bioinformatics and Computational Biology

Elena Edi Giorgi

Office: TA-3, Bldg 1690, Room 142
Mail Stop: K710
Phone: (505) 667-8715
Fax: (505) 665-3493

egiorgi@lanl.gov
home page

Research highlight
    Poisson Fitter: A tool to estimate the most recent common ancestor in early homogeneous HIV-1 infections.
 Educational Background/Employment:
  • Ph.D. in Applied Mathematics, University of Massachusetts, Amherst, MA.
  • M.S. in Biostatistics, University of Southern California, Los Angeles, CA.
  • M.S. in Theoretical Mathematics, University of Massachusetts, Amherst, MA.
  • Laurea in Theoretical Mathematics, Universita' di Pisa, Italy.
  • Employment:
    • Postdoctoral Research Associate (T-6/CNLS), Los Alamos National Laboratory. Current Position.
    • Graduate Research Assistant (T-6), Los Alamos National Laboratory, 2006-2011.
    • Biostatistician I, City of Hope Medical Center, Duarte, CA, 2006.
    • Graduate Research Assistant, University of Southern California, Los Angeles, CA, 2004-2005.

Research Interests:

    Population genetics, viral evolution (HIV), genetics, science communication.

Selected Recent Publications:

    * Denotes shared first authorship.

    Modeling sequence evolution in HIV-1 infection with recombination. Giorgi EE, Korber BT, Perelson AS, and Bhattacharya T. To appear in J. Theol. Biology.

    Phenotypic properties of transmitted founder HIV-1. Parrish NF, Gao F, Li H, Giorgi EE, Barbian HJ, Parrish EH, Zajic L, Iyer SS, Decker JM, Kumar A, Hora B, Berg A, Cai F, Hopper J, Denny TN, Ding H, Ochsenbauer C, Kappes JC, Galimidi RP, West AP Jr, Bjorkman PJ, Wilen CB, Doms RW, O'Brien M, Bhardwaj N, Borrow P, Haynes BF, Muldoon M, Theiler JP, Korber B, Shaw GM, Hahn BH. Proc Natl Acad Sci U S A. 2013 Mar 29. PMID: 23542380

    Hepatitis C genotype 1 mosaic vaccines are immunogenic in mice and induce stronger T-cell responses than natural strains. Yusim K, Dilan R, Borducchi E, Stanley K, Giorgi EE, Fischer W, Theiler J, Marcotrgiano J, Korber B, Barouch DH. Clin Vaccine Immunol. 2013 Feb 20(2) PMID: 23221002

    Elucidation of Hepatitis C Virus Transmission and Early Diversification by Single Genome Sequencing. Hui Li, Mark B. Stoddard, Shuyi Wang, Lily M. Blair, Elena E. Giorgi, Erica H. Parrish, Gerald H. Learn, Peter Hraber, Paul A. Goepfert, Michael S. Saag, Thomas N. Denny, Barton F. Haynes, Beatrice H. Hahn, Ruy M. Ribeiro, Alan S. Perelson, Bette T. Korber, Tanmoy Bhattacharya, and George M. Shaw. PLoS Pathog. 2012; 8(8):e1002880. PMID: 22927816

    A note on two-sample tests for comparing intra-individual genetic sequence diversity between populations. Giorgi EE and Bhattacharya T. Biometrics 2012 Dec 68(4). PMID: 23004569

    Role of donor genital tract HIV-1 diversity in the transmission bottleneck. Boeras DI, Hraber PT, Hurlston M, Evans-Strickfaden T, Bhattacharya T, Giorgi EE, Mulenga J, Karita E, Korber BT, Allen S, Hart CE, Derdeyn CA, Hunter E. Proc Natl Acad Sci U S A. 2011 Nov 15;108(46):E1156-63. Epub 2011 Nov 7. PMID: 22065783

    Genital tract sequestration of SIV following acute infection. Whitney JB, Hraber PT, Luedemann C, Giorgi EE, Daniels MG, Bhattacharya T, Rao SS, Mascola JR, Nabel GJ, Korber BT, Letvin NL. PLoS Pathog. 2011 Feb;7(2):e1001293. Epub 2011 Feb 17. PMID: 21379569

    Epitope-specific CD8+ T lymphocytes cross-recognize mutant simian immunodeficiency virus (SIV) sequences but fail to contain very early evolution and eventual fixation of epitope escape mutations during SIV infection. Cale EM, Hraber P, Giorgi EE, Fischer W, Bhattacharya T, Leitner T, Yeh WW, Gleasner C, Green LD, Han CS, Korber B, Letvin NL. J Virol. 2011 Apr;85(8):3746-57. Epub 2011 Feb 9. PMID: 21307185

    Estimating time since infection in early homogeneous HIV-1 samples using a poisson model. Giorgi EE, Funkhouser B, Athreya G, Perelson AS, Korber BT, Bhattacharya T. BMC Bioinformatics. 2010 Oct 25;11:532. PMID: 20973976

    Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing. Fischer W, Ganusov VV, Giorgi EE, Hraber PT, Keele BF, Leitner T, Han CS, Gleasner CD, Green L, Lo CC, Nag A, Wallstrom TC, Wang S, McMichael AJ, Haynes BF, Hahn BH, Perelson AS, Borrow P, Shaw GM, Bhattacharya T, Korber BT. PLoS One. 2010 Aug 20;5(8):e12303. PMID: 20808830

    High Multiplicity Infection by HIV-1 in Men Who Have Sex with Men. P H, Bar KJ, Wang S, Decker JM, Chen Y, Sun C, Salazar-Gonzalez JF, Salazar MG, Learn GH, Morgan CJ, Schumacher JE, Hraber P, Giorgi EE, Bhattacharya T, Korber BT, Perelson AS, Eron JJ, Cohen MS, Hicks CB, Haynes BF, Markowitz M, Keele BF, Hahn BH, Shaw GM. PLoS Pathog. 2010 May 13;6(5):e1000890. PMID: 20485520

    Modeling sequence evolution in acute HIV-1 infection. Lee HY*, Giorgi EE*, Keele BF, Gaschen B, Athreya GS, Salazar-Gonzalez JF, Pham KT, Goepfert PA, Kilby JM, Saag MS, Delwart EL, Busch MP, Hahn BH, Shaw GM, Korber BT, Bhattacharya T, Perelson AS. J Theor Biol. 2009 Nov 21;261(2):341-60. Epub 2009 Aug 4. Review. PMID: 19660475

    Nef gene evolution from a single transmitted strain in acute SIV infection. Bimber BN, Chugh P, Giorgi EE, Kim B, Almudevar AL, Dewhurst S, O'Connor DH, Lee HY. Retrovirology. 2009 Jun 8;6:57. PMID: 19505314

    Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection. Salazar-Gonzalez JF, Salazar MG, Keele BF, Learn GH, Giorgi EE, P H, Decker JM, Wang S, Baalwa J, Kraus MH, Parrish NF, Shaw KS, Guffey MB, Bar KJ, Davis KL, Ochsenbauer-Jambor C, Kappes JC, Saag MS, Cohen MS, Mulenga J, Derdeyn CA, Allen S, Hunter E, Markowitz M, Hraber P, Perelson AS, Bhattacharya T, Haynes BF, Korber BT, Hahn BH, Shaw GM. J Exp Med. 2009 Jun 8;206(6):1273-89. Epub 2009 Jun 1. PMID: 19487424

    Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1. Keele BF, P H, Learn GH, Hraber P, Giorgi EE, Grayson T, Sun C, Chen Y, Yeh WW, Letvin NL, Mascola JR, Nabel GJ, Haynes BF, Bhattacharya T, Perelson AS, Korber BT, Hahn BH, Shaw GM. J Exp Med. 2009 May 11;206(5):1117-34. Epub 2009 May 4. PMID: 19414559

    Quantitating the multippcity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants. Abrahams MR, Anderson JA, Giorgi EE, Seoighe C, Mpsana K, Ping LH, Athreya GS, Treurnicht FK, Keele BF, Wood N, Salazar-Gonzalez JF, Bhattacharya T, Chu H, Hoffman I, Galvin S, Mapanje C, Kazembe P, Thebus R, Fiscus S, Hide W, Cohen MS, Karim SA, Haynes BF, Shaw GM, Hahn BH, Korber BT, Swanstrom R, Wilpamson C; CAPRISA Acute Infection Study Team; Center for HIV-AIDS Vaccine Immunology Consortium. J Virol. 2009 Apr;83(8):3556-67. Epub 2009 Feb 4. Erratum in: J Virol. 2009 Jul;83(13):6974. PMID: 19193811

    Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection. Keele BF*, Giorgi EE*, Salazar-Gonzalez JF, Decker JM, Pham KT, Salazar MG, Sun C, Grayson T, Wang S, P H, Wei X, Jiang C, Kirchherr JL, Gao F, Anderson JA, Ping LH, Swanstrom R, Tomaras GD, Blattner WA, Goepfert PA, Kilby JM, Saag MS, Delwart EL, Busch MP, Cohen MS, Montefiori DC, Haynes BF, Gaschen B, Athreya GS, Lee HY, Wood N, Seoighe C, Perelson AS, Bhattacharya T, Korber BT, Hahn BH, Shaw GM. Proc Natl Acad Sci U S A. 2008 May 27;105(21):7552-7. Epub 2008 May 19. PMID: 18490657

    Common genetic variation at PTEN and risk of sporadic breast and prostate cancer. Haiman CA, Stram DO, Cheng I, Giorgi EE, Pooler L, Penney K, Le Marchand L, Henderson BE, Freedman ML. Cancer Epidemiol Biomarkers Prev. 2006 May;15(5):1021-5. PMID: 16702386

    The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection. Goonetilleke N, Pu MK, Salazar-Gonzalez JF, Ferrari G, Giorgi EE, Ganusov VV, Keele BF, Learn GH, Turnbull EL, Salazar MG, Weinhold KJ, Moore S; CHAVI Cpnical Core B, Letvin N, Haynes BF, Cohen MS, Hraber P, Bhattacharya T, Borrow P, Perelson AS, Hahn BH, Shaw GM, Korber BT, McMichael AJ. J Exp Med. 2009 Jun 8;206(6):1253-72. Epub 2009 Jun 1. PMID: 19487423

    HIV evolution in early infection: selection pressures, patterns of insertion and deletion, and the impact of APOBEC. Wood N, Bhattacharya T, Keele BF, Giorgi EE, Pu M, Gaschen B, Daniels M, Ferrari G, Haynes BF, McMichael A, Shaw GM, Hahn BH, Korber B, Seoighe C. PLoS Pathog. 2009 May;5(5):e1000414. Epub 2009 May 8. PMID: 19424423

    Variations in adiponectin receptor genes and susceptibipty to type 2 diabetes in women: a tagging-single nucleotide polymorphism haplotype analysis. Qi L, Doria A, Giorgi EE, Hu FB. Diabetes. 2007 Jun;56(6):1586-91. Epub 2007 Apr 6. PMID: 17416799

    A systematic assessment of common genetic variation in CYP11A and risk of breast cancer. Setiawan VW, Cheng I, Stram DO, Giorgi EE, Pike MC, Van Den Berg D, Pooler L, Burtt NP, Le Marchand L, Altshuler D, Hirschhorn J, Henderson BE, Haiman CA. Cancer Res. 2006 Dec 15;66(24):12019-25. PMID: 17178901

    Haplotype-based association studies of IGFBP1 and IGFBP3 with prostate and breast cancer risk: the multiethnic cohort. Cheng I, Penney KL, Stram DO, Le Marchand L, Giorgi EE, Haiman CA, Kolonel LN, Pike M, Hirschhorn J, Henderson BE, Freedman ML. Cancer Epidemiol Biomarkers Prev. 2006 Oct;15(10):1993-7. PMID: 17035411

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