Vaccine and Infectious Disease Division

2013 VIDD Publications

December

Kerr KF, Wang Z, Janes H, McClelland RL, Psaty BM, Pepe MS. Net reclassification indices for evaluating risk prediction instruments: A critical review. Epidemiology. 2013 Nov 14.
Full-text article: http://scholars.fhcrc.org/2445/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24240655?otool=fhcrclib

Kissel HD, Paulson TG, Liu K, Li X, Swisher E, Garcia R, Sanchez CA, Reid BJ, Reed SD, Doherty JA. Feasibility of RNA and DNA extraction from fresh pipelle and archival endometrial tissues for use in gene expression and SNP arrays. Obstet Gynecol Int. 2013; 2013: 576842.
Full-text article: http://scholars.fhcrc.org/2475/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24282417?otool=fhcrclib

Laeyendecker O, Kulich M, Donnell D, Komarek A, Omelka M, Mullis CE, Szekeres G, Piwowar-Manning E, Fiamma A, Gray RH, Lutalo T, Morrison CS, Salata RA, Chipato T, Celum C, Kahle EM, Taha TE, Kumwenda NI, Karim QA, Naranbhai V, Lingappa JR, Sweat MD, Coates T, Eshleman SH. Development of methods for cross-sectional HIV incidence estimation in a large, community randomized trial. PLoS One. 2013 Nov 13; 8(11): e78818.
Full-text article: http://scholars.fhcrc.org/2376/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24236054?otool=fhcrclib

Li X, Galipeau PC, Paulson TG, Sanchez CA, Arnaudo J, Liu K, Sather CL, Kostadinov RL, Odze RD, Kuhner MK, Maley CC, Self SG, Vaughan TL, Blount PL, Reid BJ. Temporal and spatial evolution of somatic chromosomal alterations: A case-cohort study of barrett's esophagus. Cancer Prev Res (Phila). 2013 Nov 19.
Full-text article: http://scholars.fhcrc.org/2442/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24253313?otool=fhcrclib

Liu Y, Li F, Qi Z, Hao Y, Hong K, Liu Y, Cong Y, Shao Y. The effects of HIV tat DNA on regulating the immune response of HIV DNA vaccine in mice. Virol J. 2013 Sep 30; 10(1): 297-422X-10-297.
Full-text article: http://scholars.fhcrc.org/2362/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24073803?otool=fhcrclib

Manhart LE, Khosropour CM, Liu C, Gillespie CW, Depner K, Fiedler T, Marrazzo JM, Fredricks DN. Bacterial vaginosis-associated bacteria in men: Association of Leptotrichia/Sneathia spp. with nongonococcal urethritis. Sex Transm Dis. 2013 Dec; 40(12): 944-949.
Full-text article: http://scholars.fhcrc.org/2377/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24220356?otool=fhcrclib

Masese L, Baeten JM, Richardson BA, Bukusi E, John-Stewart G, Jaoko W, Shafi J, Kiarie J, McClelland RS. Incident herpes simplex virus type 2 infection increases the risk of subsequent episodes of bacterial vaginosis. J Infect Dis. 2013 Nov 22.
Full-text article: http://scholars.fhcrc.org/2463/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24273042?otool=fhcrclib

Oshansky CM, Gartland AJ, Wong SS, Jeevan T, Wang D, Roddam PL, Caniza MA, Hertz T, Devincenzo JP, Webby RJ, Thomas PG. Mucosal immune responses predict clinical outcomes during influenza infection independently of age and viral load. Am J Respir Crit Care Med. 2013 Dec 5.
Full-text article: http://scholars.fhcrc.org/2497/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24308446?otool=fhcrclib

Peterson C, Younan P, Wang J, Williams N, O'Connor I, Beard B, Holmes M, Gregory P, Maurice N, DeRosa S, Fox R, Mullins J, Firpo P, Hu S, Kiem H. Establishment of a pigtailed macaque model to test the effects of chemoradiation and Ccr5 gene therapy on the shiv latent viral reservoir. J Med Primatol. 2013 Oct; 42(5): 267-267.
Full-text article: http://scholars.fhcrc.org/2371/
PubMed Record: No PubMed record available.

Rosas SR, Cope MT, Villa C, Motevalli M, Utech J, Schouten JT. Assessing the challenges of multi-scope clinical research sites: An example from NIH HIV/AIDS clinical trials networks. J Eval Clin Pract. 2013. Nov 13.
Full-text article: http://scholars.fhcrc.org/2403/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24219425?otool=fhcrclib

Sunshine J, Kim M, Carlson JM, Heckerman D, Czartoski J, Migueles SA, Maenza J, McElrath MJ, Mullins JI, Frahm N. Increased sequence coverage through combined targeting of variant and conserved epitopes correlates with control of HIV replication. J Virol. 2013 Nov 13.
Full-text article: http://scholars.fhcrc.org/2397/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24227851?otool=fhcrclib

November

Afanasiev OK, Yelistratova L, Miller N, Nagase K, Paulson K, Iyer JG, Ibrani D, Koelle DM, Nghiem P. Merkel polyomavirus-specific T cells fluctuate with merkel cell carcinoma burden and express therapeutically targetable PD-1 and tim-3 exhaustion markers. Clin Cancer Res. 2013 Oct 1; 19(19): 5351-5360.
Full-text article: http://scholars.fhcrc.org/2249/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23922299?otool=fhcrclib

Basta NE, Stuart JM, Nascimento MC, Manigart O, Trotter C, Hassan-King M, Chandramohan D, Sow SO, Berthe A, Bedru A, Tekletsion YK, Collard JM, Jusot JF, Diallo A, Bassene H, Daugla DM, Gamougam K, Hodgson A, Forgor AA, Omotara BA, Gadzama GB, Watkins ER, Rebbetts LS, Diallo K, Weiss NS, Halloran ME, Maiden MC, Greenwood B. Methods for identifying neisseria meningitidis carriers: A multi-center study in the african meningitis belt. PLoS One. 2013 Oct 23; 8(10): e78336.
Full-text article: http://scholars.fhcrc.org/2306/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24194921?otool=fhcrclib

Bicego GT, Nkambule R, Peterson I, Reed J, Donnell D, Ginindza H, Duong YT, Patel H, Bock N, Philip N, Mao C, Justman J. Recent patterns in population-based HIV prevalence in swaziland. PLoS One. 2013 Oct 15; 8(10): e77101.
Full-text article: http://scholars.fhcrc.org/2230/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24143205?otool=fhcrclib

Chao DL, Longini IM,Jr, Halloran ME. The effects of vector movement and distribution in a mathematical model of dengue transmission. PLoS One. 2013 Oct 21; 8(10): e76044.
Full-text article: http://scholars.fhcrc.org/2317/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24204590?otool=fhcrclib

Chemaitelly H, Abu-Raddad LJ, Miller FD. An apparent lack of epidemiologic association between hepatitis C virus knowledge and the prevalence of hepatitis C infection in a national survey in Egypt. PLoS One. 2013 Jul 29; 8(7): e69803.
Full-text article: http://scholars.fhcrc.org/2252/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23922806?otool=fhcrclib

Day TA, Morgan CA, Kublin JG. Will mosaic vaccine immunogens expand immune response breadth to rival HIV-1 strain diversity? Clin Investig (Lond). 2013 May; 3(5): 413-415.
Full-text article: http://scholars.fhcrc.org/2337/
PubMed Record: No PubMed record available.

Fowler MG, Coovadia H, Herron CM, Maldonado Y, Chipato T, Moodley D, Musoke P, Aizire J, Manji K, Stranix-Chibanda L, Fawzi W, Chetty V, Msweli L, Kisenge R, Brown E, Mwatha A, Eshleman SH, Richardson P, Allen M, George K, Andrew P, Zwerski S, Mofenson LM, Jackson JB, for the HPTN 046 Protocol Team. Efficacy and safety of an extended nevirapine regimen in infants of breastfeeding mothers with HIV-1 infection for prevention of HIV-1 transmission (HPTN 046): 18-month results of a randomized, double-blind, placebo-controlled trial. J Acquir Immune Defic Syndr. 2013 Nov 1.
Full-text article: http://scholars.fhcrc.org/2325/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24189151?otool=fhcrclib

Gantt S, Yao L, Kollmann TR, Casper C, Zhang J, Self SG. Implications of age-dependent immune responses to enterovirus 71 infection for disease pathogenesis and vaccine design. J Ped Infect Dis. 2013; 2(2): 162-170.
Full-text article: http://scholars.fhcrc.org/2220/
PubMed Record: No PubMed record available.

Gerns Storey HL, Richardson BA, Singa B, Naulikha J, Prindle VC, Diaz-Ochoa VE, Felgner PL, Camerini D, Horton H, John-Stewart G, Walson JL. Use of principal components analysis and protein microarray to explore the association of HIV-1-specific IgG responses with disease progression. AIDS Res Hum Retroviruses. 2013 Oct 17.
Full-text article: http://scholars.fhcrc.org/2208/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24134221?otool=fhcrclib

Gilbert PB, Shepherd BE, Hudgens MG. Sensitivity analysis of per-protocol time-to-event treatment efficacy in randomized clinical trials. J Am Stat Assoc. 2013 Jan 1; 108(503): 789.
Full-text article: http://scholars.fhcrc.org/2357/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24187408?otool=fhcrclib

Gilbert PB, Yu X, Rotnitzky A. Optimal auxiliary-covariate-based two-phase sampling design for semiparametric efficient estimation of a mean or mean difference, with application to clinical trials. Stat Med. 2013 Oct 9.
Full-text article: http://scholars.fhcrc.org/2219/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24123289?otool=fhcrclib

Hayden RT, Shahbazian MD, Valsamakis A, Boonyaratanakornkit J, Cook L, Pang XL, Preiksaitis JK, Schonbrunner ER, Caliendo AM. Multicenter evaluation of a commercial cytomegalovirus quantitative standard: Effects of commutability on interlaboratory concordance. J Clin Microbiol. 2013 Nov; 51(11): 3811-3817.
Full-text article: http://scholars.fhcrc.org/2338/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24025907?otool=fhcrclib

Jonnalagadda SR, Brown E, Lohman-Payne B, Wamalwa D, Farquhar C, John-Stewart GC. Predictive value of interferon-gamma release assays for postpartum active tuberculosis in HIV-1-infected women. Int J Tuberc Lung Dis. 2013 Dec; 17(12): 1552-1557.
Full-text article: http://scholars.fhcrc.org/2343/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24200267?otool=fhcrclib

Keating R, Hertz T, Wehenkel M, Harris TL, Edwards BA, McClaren JL, Brown SA, Surman S, Wilson ZS, Bradley P, Hurwitz J, Chi H, Doherty PC, Thomas PG, McGargill MA. The kinase mTOR modulates the antibody response to provide cross-protective immunity to lethal infection with influenza virus. Nat Immunol. 2013 Oct 20.
Full-text article: http://scholars.fhcrc.org/2243/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24141387?otool=fhcrclib

Mugwanya KK, Donnell D, Celum C, Thomas KK, Ndase P, Mugo N, Katabira E, Ngure K, Baeten JM, for the Partners PrEP Study Team. Sexual behaviour of heterosexual men and women receiving antiretroviral pre-exposure prophylaxis for HIV prevention: A longitudinal analysis. Lancet Infect Dis. 2013 Oct 16.
Full-text article: http://scholars.fhcrc.org/2242/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24139639?otool=fhcrclib

Odem-Davis K, Fleming TR. Adjusting for unknown bias in noninferiority clinical trials. Stat Biopharm Res. 2013 AUG; 5(3): 248-258.
Full-text article: http://scholars.fhcrc.org/2239/
PubMed Record: No PubMed record available.

Owor M, Mwatha A, Donnell D, Musoke P, Mmiro F, Allen M, Jackson JB, Fowler MG, Guay LA. Long term follow-up of children in the HIVNET 012 perinatal HIV prevention trial: Five-year growth and survival. J Acquir Immune Defic Syndr. 2013 Oct 10.
Full-text article: http://scholars.fhcrc.org/2214/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24121753?otool=fhcrclib

Polis CB, Westreich D, Balkus JE, Heffron R; Participants of the 2013 HC-HIV Observational Analysis Meeting. Assessing the effect of hormonal contraception on HIV acquisition in observational data: challenges and recommended analytic approaches. AIDS. 2013 Oct;27 Suppl 1:S35-43.
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24088682

Slyker J, Farquhar C, Atkinson C, Asbjornsdottir K, Roxby A, Drake A, Kiarie J, Wald A, Boeckh M, Richardson B, Odem-Davis K, John-Stewart G, Emery V. Compartmentalized cytomegalovirus replication and transmission in the setting of maternal HIV-1 infection. Clin Infect Dis. 2013 Nov 5.
Full-text article: http://scholars.fhcrc.org/2351/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24192386?otool=fhcrclib

Thompson B, O'Connell M, Loest H, Anderson J, Westcott R. Understanding and reducing obstacles in a collaboration between a minority institution and a cancer center. J Health Care Poor Underserved. 2013; 24(4): 1648-1656.
Full-text article: http://scholars.fhcrc.org/2345/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24185160?otool=fhcrclib

Walensky RP, Ross EL, Kumarasamy N, Wood R, Noubary F, Paltiel AD, Nakamura YM, Godbole SV, Panchia R, Sanne I, Weinstein MC, Losina E, Mayer KH, Chen YQ, Wang L, McCauley M, Gamble T, Seage GR,3rd, Cohen MS, Freedberg KA. Cost-effectiveness of HIV treatment as prevention in serodiscordant couples. N Engl J Med. 2013 Oct 31; 369(18): 1715-1725.
Full-text article: http://scholars.fhcrc.org/2285/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24171517?otool=fhcrclib

Winer RL, Xi LF, Shen Z, Stern JE, Newman L, Feng Q, Hughes JP, Koutsky LA. Viral load and short-term natural history of type-specific oncogenic human papillomavirus infections in a high-risk cohort of midadult women. Int J Cancer. 2013 Oct 6.
Full-text article: http://scholars.fhcrc.org/2204/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24136492?otool=fhcrclib

Zhang J, Chaloner K, McLinden JH, Stapleton JT. Bayesian analysis and classification of two enzyme-linked immunosorbent assay tests without a gold standard. Stat Med. 2013 Oct 15; 32(23): 4102-4117.
Full-text article: http://scholars.fhcrc.org/2247/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23592433?otool=fhcrclib

October

Abu-Raddad LJ, Barnabas RV, Janes H, Weiss HA, Kublin JG, Longini IM,Jr, Wasserheit JN. Have the explosive HIV epidemics in sub-saharan africa been driven by higher community viral load? AIDS. 2013 Sep 24; 27(15): 2494-2496.
Full-text article: http://scholars.fhcrc.org/2033/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24029738?otool=fhcrclib

Adimora AA, Hughes JP, Wang J, Haley DF, Golin CE, Magnus M, Rompalo A, Justman J, Del Rio C, El-Sadr W, Mannheimer S, Soto-Torres L, Hodder SL, for the HPTN 064 Protocol Team. Characteristics of multiple and concurrent partnerships among women at high risk for hiv infection. J Acquir Immune Defic Syndr. 2013 Sep 18.
Full-text article: http://scholars.fhcrc.org/2117/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24056163?otool=fhcrclib

Beima-Sofie KM, Bigham AW, Lingappa JR, Wamalwa D, Mackelprang RD, Bamshad MJ, Maleche-Obimbo E, Richardson BA, John-Stewart GC. Toll-like receptor variants are associated with infant HIV-1 acquisition and peak plasma HIV-1 RNA level. AIDS. 2013 Sep 24; 27(15): 2431-2439.
Full-text article: http://scholars.fhcrc.org/2079/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24037211?otool=fhcrclib

Brewer RA, Magnus M, Kuo I, Wang L, Liu TY, Mayer KH. Exploring the relationship between incarceration and HIV among black men who have sex with men in the united states. J Acquir Immune Defic Syndr. 2013 Oct 2.
Full-text article: http://scholars.fhcrc.org/2129/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24091691?otool=fhcrclib

Buckle GC, Collins JP, Sumba PO, Nakalema B, Omenah D, Stiffler K, Casper C, Otieno JA, Orem J, Moormann AM. Factors influencing time to diagnosis and initiation of treatment of endemic burkitt lymphoma among children in uganda and western kenya: A cross-sectional survey. Infect Agent Cancer. 2013 Sep 30; 8(1): 36.
Full-text article: http://scholars.fhcrc.org/2147/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24079452?otool=fhcrclib

Dimitrov D, Boily MC, Marrazzo J, Beigi R, Brown ER. Population-level benefits from providing effective HIV prevention means to pregnant women in high prevalence settings. PLoS One. 2013 Sep 16; 8(9): e73770.
Full-text article: http://scholars.fhcrc.org/2103/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24066069?otool=fhcrclib

Fisher CE, Leisenring W, Boeckh M, Hohl TM. Reply to mikulska, raiola, signori, et al. Clin Infect Dis. 2013 Sep 17.
Full-text article: http://scholars.fhcrc.org/2058/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24046297?otool=fhcrclib.

Gottardo R, Bailer RT, Korber BT, Gnanakaran S, Phillips J, Shen X, Tomaras GD, Turk E, Imholte G, Eckler L, Wenschuh H, Zerweck J, Greene K, Gao H, Berman PW, Francis D, Sinangil F, Lee C, Nitayaphan S, Rerks-Ngarm S, Kaewkungwal J, Pitisuttithum P, Tartaglia J, Robb ML, Michael NL, Kim JH, Zolla-Pazner S, Haynes BF, Mascola JR, Self S, Gilbert P, Montefiori DC. Plasma IgG to linear epitopes in the V2 and V3 regions of HIV-1 gp120 correlate with a reduced risk of infection in the RV144 vaccine efficacy trial. PLoS One. 2013 Sep 26; 8(9): e75665.
Full-text article: http://scholars.fhcrc.org/2141/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24086607?otool=fhcrclib

Haberer JE, Baeten JM, Campbell J, Wangisi J, Katabira E, Ronald A, Tumwesigye E, Psaros C, Safren SA, Ware NC, Thomas KK, Donnell D, Krows M, Kidoguchi L, Celum C, Bangsberg DR. Adherence to antiretroviral prophylaxis for HIV prevention: A substudy cohort within a clinical trial of serodiscordant couples in east africa. PLoS Med. 2013 Sep; 10(9): e1001511.
Full-text article: http://scholars.fhcrc.org/2114/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24058300?otool=fhcrclib

Hammer SM, Sobieszczyk ME, Janes H, Karuna ST, Mulligan MJ, Grove D, Koblin BA, Buchbinder SP, Keefer MC, Tomaras GD, Frahm N, Hural J, Anude C, Graham BS, Enama ME, Adams E, Dejesus E, Novak RM, Frank I, Bentley C, Ramirez S, Fu R, Koup RA, Mascola JR, Nabel GJ, Montefiori DC, Kublin J, McElrath MJ, Corey L, Gilbert PB, the HVTN 505 Study Team. Efficacy trial of a DNA/rAd5 HIV-1 preventive vaccine. N Engl J Med. 2013 Oct 7.
Full-text article: http://scholars.fhcrc.org/2166/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24099601?otool=fhcrclib

Hansen SG, Jr MP, Ventura AB, Hughes CM, Gilbride RM, Ford JC, Oswald K, Shoemaker R, Li Y, Lewis MS, Gilliam AN, Xu G, Whizin N, Burwitz BJ, Planer SL, Turner JM, Legasse AW, Axthelm MK, Nelson JA, Fruh K, Sacha JB, Estes JD, Keele BF, Edlefsen PT, Lifson JD, Picker LJ. Immune clearance of highly pathogenic SIV infection. Nature. 2013 Sep 11.
Full-text article: http://scholars.fhcrc.org/2038/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24025770?otool=fhcrclib

Johnston C, Koelle DM, Wald A. Current status and prospects for development of an HSV vaccine. Vaccine. 2013 Sep 6.
Full-text article: http://scholars.fhcrc.org/2041/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24016811?otool=fhcrclib

Kaleebu P, Njai HF, Wang L, Jones N, Ssewanyana I, Richardson P, Kintu K, Emel L, Musoke P, Fowler MG, Ou SS, Guay L, Andrew P, Baglyos L, Cao H, for the HPTN 027 protocol team. Immunogenicity of ALVAC-HIV vCP1521 in infants of HIV-1 infected women in uganda (HPTN 027): The first pediatric HIV vaccine trial in africa. J Acquir Immune Defic Syndr. 2013 Oct 2.
Full-text article: http://scholars.fhcrc.org/2127/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24091694?otool=fhcrclib

Marty FM, Winston DJ, Rowley SD, Vance E, Papanicolaou GA, Mullane KM, Brundage TM, Robertson AT, Godkin S, Mommeja-Marin H, Boeckh M, CMX001-201 Clinical Study Group. CMX001 to prevent cytomegalovirus disease in hematopoietic-cell transplantation. N Engl J Med. 2013 Sep 26; 369(13): 1227-1236.
Full-text article: http://scholars.fhcrc.org/2095/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24066743?otool=fhcrclib

Marzinke MA, Clarke W, Wang L, Cummings V, Liu TY, Piwowar-Manning E, Breaud A, Griffith S, Buchbinder S, Shoptaw S, Del Rio C, Magnus M, Mannheimer S, Fields SD, Mayer KH, Wheeler DP, Koblin BA, Eshleman SH, Fogel JM. Non-disclosure of HIV status in a clinical trial setting: Antiretroviral drug screening can help distinguish between newly-diagnosed and previously-diagnosed HIV infection. Clin Infect Dis. 2013 Oct 2.
Full-text article: http://scholars.fhcrc.org/2124/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24092804?otool=fhcrclib

Mawad R, Gooley TA, Sandhu V, Lionberger J, Scott B, Sandmaier BM, O'Donnell P, Becker PS, Petersdorf S, Dorcy KS, Hendrie P, Sorror ML, Walter RB, Deeg HJ, Appelbaum FR, Estey EH, Pagel JM. Frequency of allogeneic hematopoietic cell transplantation among patients with high- or intermediate-risk acute myeloid leukemia in first complete remission. J Clin Oncol. 2013 Sep 23.
Full-text article: http://scholars.fhcrc.org/2101/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24062388?otool=fhcrclib

Ouwendijk WJ, Laing KJ, Verjans GM, Koelle DM. T-cell immunity to human alphaherpesviruses. Curr Opin Virol. 2013 Aug; 3(4): 452-460.
Full-text article: http://scholars.fhcrc.org/2089/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23664660?otool=fhcrclib

Peterson CW, Younan P, Polacino PS, Maurice NJ, Miller HW, Prlic M, Jerome KR, Woolfrey AE, Hu SL, Kiem HP. Robust suppression of env-SHIV viremia in macaca nemestrina by 3-drug ART is independent of timing of initiation during chronic infection. J Med Primatol. 2013 Oct; 42(5): 237-246.
Full-text article: http://scholars.fhcrc.org/2049/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24025078?otool=fhcrclib

Ping LH, Jabara CB, Rodrigo AG, Hudelson SE, Piwowar-Manning E, Wang L, Eshleman SH, Cohen MS, Swanstrom R. HIV-1 transmission during early antiretroviral therapy: Evaluation of two HIV-1 transmission events in the HPTN 052 prevention study. PLoS One. 2013 Sep 24; 8(9): e71557.
Full-text article: http://scholars.fhcrc.org/2137/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24086252?otool=fhcrclib

Ren X, Graham JC, Jing L, Mikheev AM, Gao Y, Lew JP, Xie H, Kim AS, Shang X, Friedman C, Vail G, Fang MZ, Bromberg Y, Zarbl H. Mapping of Mcs30, a new mammary carcinoma susceptibility quantitative trait locus (QTL30) on rat chromosome 12: Identification of fry as a candidate mcs gene. PLoS One. 2013 Sep 2; 8(9): e70930.
Full-text article: http://scholars.fhcrc.org/2165/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24023717?otool=fhcrclib

Schiffer JT, Swan D, Corey L, Wald A. Rapid viral expansion and short drug half-life explain the incomplete effectiveness of current herpes simplex virus-2 directed antiviral agents. Antimicrob Agents Chemother. 2013 Sep 9.
Full-text article: http://scholars.fhcrc.org/2042/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24018260?otool=fhcrclib

van Velzen M, Jing L, Osterhaus AD, Sette A, Koelle DM, Verjans GM. Local CD4 and CD8 T-cell reactivity to HSV-1 antigens documents broad viral protein expression and immune competence in latently infected human trigeminal ganglia. PLoS Pathog. 2013 Aug; 9(8): e1003547.
Full-text article: http://scholars.fhcrc.org/2087/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23966859?otool=fhcrclib

Waghmare A, Campbell AP, Xie H, Seo S, Kuypers J, Leisenring W, Jerome KR, Englund JA, Boeckh M. Respiratory syncytial virus lower respiratory disease in hematopoietic cell transplant recipients: Viral RNA detection in blood, antiviral treatment, and clinical outcomes. Clin Infect Dis. 2013 Sep 24.
Full-text article: http://scholars.fhcrc.org/2097/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24065324?otool=fhcrclib

Weber ND, Stone D, Jerome KR. TALENs targeting HBV: Designer endonuclease therapies for viral infections. Mol Ther. 2013 Oct; 21(10): 1819-1820.
Full-text article: http://scholars.fhcrc.org/2145/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24081123?otool=fhcrclib.

Woodberry MW, Shankar R, Cent A, Jerome KR, Kuypers J. Comparison of the simplexa Flua/b & rsv direct kit and laboratory-developed real time pcr assays for respiratory virus detection. J Clin Microbiol. 2013 Sep 18.
Full-text article: http://scholars.fhcrc.org/2055/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24048529?otool=fhcrclib

September

Cron A, Gouttefangeas C, Frelinger J, Lin L, Singh SK, Britten CM, Welters MJ, van der Burg SH, West M, Chan C. Hierarchical modeling for rare event detection and cell subset alignment across flow cytometry samples. PLoS Comput Biol. 2013 Jul; 9(7): e1003130.
Full-text article: http://scholars.fhcrc.org/2000/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23874174?otool=fhcrclib

Imholte GC, Scott-Boyer MP, Labbe A, Deschepper CF, Gottardo R. iBMQ: A R/Bioconductor package for integrated bayesian modeling of eQTL data. Bioinformatics. 2013 Aug 19.
Full-text article: http://scholars.fhcrc.org/1981/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23958729?otool=fhcrclib

Jacob ST, Pavlinac PB, Nakiyingi L, Banura P, Baeten JM, Morgan K, Magaret A, Manabe Y, Reynolds SJ, Liles WC, Wald A, Joloba ML, Mayanja-Kizza H, Scheld WM. Mycobacterium tuberculosis bacteremia in a cohort of HIV-infected patients hospitalized with severe sepsis in uganda-high frequency, low clinical sand derivation of a clinical prediction score. PLoS One. 2013 Aug 5; 8(8): e70305.
Full-text article: http://scholars.fhcrc.org/1947/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23940557?otool=fhcrclib

Kang C, Qaqish B, Monaco J, Sheridan SL, Cai J. Kappa statistic for clustered dichotomous responses from physicians and patients. Stat Med. 2013 Sep 20; 32(21): 3700-3719.
Full-text article: http://scholars.fhcrc.org/2028/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23533082?otool=fhcrclib

Kawakami T, Lichtnekert J, Thompson LJ, Karna P, Bouabe H, Hohl TM, Heinecke JW, Ziegler SF, Nelson PJ, Duffield JS. Resident renal mononuclear phagocytes comprise five discrete populations with distinct phenotypes and functions. J Immunol. 2013 Aug 16.
Full-text article: http://scholars.fhcrc.org/1974/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23956422?otool=fhcrclib

Kouyoumjian SP, Mumtaz GR, Hilmi N, Zidouh A, El Rhilani H, Alami K, Bennani A, Gouws E, Ghys PD, Abu-Raddad LJ. The epidemiology of HIV infection in morocco: Systematic review and data synthesis. Int J STD AIDS. 2013 Jul; 24(7): 507-516.
Full-text article: http://scholars.fhcrc.org/2031/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23970764?otool=fhcrclib

Ronen K, McCoy CO, Matsen FA, Boyd DF, Emery S, Odem-Davis K, Jaoko W, Mandaliya K, McClelland RS, Richardson BA, Overbaugh J. HIV-1 superinfection occurs less frequently than initial infection in a cohort of high-risk kenyan women. PLoS Pathog. 2013 Aug; 9(8): e1003593.
Full-text article: http://scholars.fhcrc.org/2019/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/24009513?otool=fhcrclib

Tieu HV, Li X, Donnell D, Vittinghoff E, Buchbinder S, Parente ZG, Koblin B. Anal sex role segregation and versatility among men who have sex with men: EXPLORE study. J Acquir Immune Defic Syndr. 2013 Sep 1; 64(1): 121-125.
Full-text article: http://scholars.fhcrc.org/1945/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23945255?otool=fhcrclib

August

Afanasiev OK, Nagase K, Simonson W, Vandeven N, Blom A, Koelle DM, Clark R, Nghiem P. Vascular e-selectin expression correlates with CD8 lymphocyte infiltration and improved outcome in merkel cell carcinoma. J Invest Dermatol. 2013 Aug;133(8):2065-2073.
Full-text article: http://scholars.fhcrc.org/1934/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23353989?otool=fhcrclib

Andrasik MP, Karuna S, Nebergall M, Koblin B, Kublin J, NIAID HIV Vaccine Trials Network. Behavioral risk assessment in HIV vaccine trials network (HVTN) clinical trials: A qualitative study exploring HVTN staff perspectives. Vaccine. 2013 Jul 13. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1834/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23859840?otool=fhcrclib

Brookmeyer R, Laeyendecker O, Donnell D, Eshleman SH. Cross-sectional HIV incidence estimation in HIV prevention research. J Acquir Immune Defic Syndr. 2013 Jul;63 Suppl 2:S233-9.
Full-text article: http://scholars.fhcrc.org/1940/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23764641?otool=fhcrclib

Chan KC, Chen YQ, Di CZ. Proportional mean residual life model for right-censored length-biased data. Biometrika. 2012 Dec;99(4):995-1000.
Full-text article: http://scholars.fhcrc.org/1807/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23843676?otool=fhcrclib

Chung MH, McKenzie KP, De Vuyst H, Richardson BA, Rana F, Pamnani R, Njoroge JW, Nyongesa-Malava E, Sakr SR, John-Stewart GC, Mugo NR. Comparing pap smear, via, and hpv cervical cancer screening methods among hiv-positive women by immune status and antiretroviral therapy. AIDS. 2013 Jul 9. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1804/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23842133?otool=fhcrclib

Coghill AE, Newcomb PA, Madeleine MM, Richardson BA, Mutyaba I, Okuku F, Phipps W, Wabinga H, Orem J, Casper C. Contribution of HIV infection to mortality among cancer patients in uganda. AIDS. 2013 Aug 6. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1932/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23921614?otool=fhcrclib

Datta S, Prado R, Rodriguez A. Bayesian factor models in characterizing molecular adaptation. J Appl Stat. 2013 Jul 1;40(7):1402-1424.
Full-text article: http://scholars.fhcrc.org/1877/

PubMed Record: No PubMed record available.

De Roos AJ, Martinez-Maza O, Jerome KR, Mirick DK, Kopecky KJ, Madeleine MM, Magpantay L, Edlefsen KL, Lacroix AZ. Investigation of epstein-barr virus as a potential cause of B-cell non-hodgkin lymphoma in a prospective cohort. Cancer Epidemiol Biomarkers Prev. 2013 Jul 2. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1857/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23885038?otool=fhcrclib

Dyer TP, Regan R, Wilton L, Harawa NT, Ou SS, Wang L, Shoptaw S. Differences in substance use, psychosocial characteristics and HIV-related sexual risk behavior between black men who have sex with men only (BMSMO) and black men who have sex with men and women (BMSMW) in six US cities. J Urban Health. 2013 Jul 30. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1906/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23897039?otool=fhcrclib

Finak G, McDavid A, Chattopadhyay P, Dominguez M, De Rosa S, Roederer M, Gottardo R. Mixture models for single-cell assays with applications to vaccine studies. Biostatistics. 2013 Jul 24. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1855/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23887981?otool=fhcrclib

Fogel JM, Wang L, Parsons TL, Ou SS, Piwowar-Manning E, Chen Y, Mudhune VO, Hosseinipour MC, Kumwenda J, Hakim JG, Chariyalertsak S, Panchia R, Sanne I, Kumarasamy N, Grinsztejn B, Makhema J, Pilotto J, Santos BR, Mayer KH, McCauley M, Gamble T, Bumpus NN, Hendrix CW, Cohen MS, Eshleman SH. Undisclosed antiretroviral drug use in a multi-national clinical trial (HPTN 052). J Infect Dis. 2013 Aug 1. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1891/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23908493?otool=fhcrclib

Fong Y, Sebestyen K, Yu X, Gilbert P, Self S. nCal: A R package for nonlinear calibration. Bioinformatics. 2013 Aug 6. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1925/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23926226?otool=fhcrclib

Gantt S, Casper C, Ambinder RF. Insights into the broad cellular effects of nelfinavir and the HIV protease inhibitors supporting their role in cancer treatment and prevention. Curr Opin Oncol. 2013 Jul 18. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1872/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23872785?otool=fhcrclib

Grant S, Chen YQ, May S. Performance of goodness-of-fit tests for the cox proportional hazards model with time-varying covariates. Lifetime Data Anal. 2013 Aug 9. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1929/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23925703?otool=fhcrclib

Hertz T, Oshansky CM, Roddam PL, Devincenzo JP, Caniza MA, Jojic N, Mallal S, Phillips E, James I, Halloran ME, Thomas PG, Corey L. HLA targeting efficiency correlates with human T-cell response magnitude and with mortality from influenza A infection. Proc Natl Acad Sci U S A. 2013 Aug 13;110(33):13492-7.
Full-text article: http://scholars.fhcrc.org/1854/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23878211?otool=fhcrclib

Janes H, Friedrich DP, Krambrink A, Smith RJ, Kallas E, Horton H, Casimiro DR, Carrington M, Geraghty D, Gilbert P, McElrath MJ, Frahm N. Vaccine-induced gag-specific T cells are associated with reduced viremia after HIV infection. J Infect Dis. 2013 Jul 21. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1861/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23878319?otool=fhcrclib

Kalams SA, Parker SD, Elizaga M, Metch B, Edupuganti S, Hural J, De Rosa S, Carter DK, Rybczyk K, Frank I, Fuchs J, Koblin B, Kim DH, Joseph P, Keefer MC, Baden LR, Eldridge J, Boyer J, Sherwat A, Cardinali M, Allen M, Pensiero M, Butler C, Khan AS, Yan J, Sardesai NY, Kublin JG, Weiner DB, for the NIAID HIV Vaccine Trials Network. Safety and comparative immunogenicity of an HIV-1 DNA vaccine in combination with plasmid interleukin 12 and impact of intramuscular electroporation for delivery. J Infect Dis. 2013 Jul 8. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1810/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23840043?otool=fhcrclib

Koblin BA, Mayer KH, Eshleman SH, Wang L, Mannheimer S, Del Rio C, Shoptaw S, Magnus M, Buchbinder S, Wilton L, Liu TY, Cummings V, Piwowar-Manning E, Fields SD, Griffith S, Elharrar V, Wheeler D, HPTN 061 Protocol Team. Correlates of HIV acquisition in a cohort of black men who have sex with men in the united states: HIV prevention trials network (HPTN) 061. PLoS One. 2013 Jul 26;8(7):e70413.
Full-text article: http://scholars.fhcrc.org/1931/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23922989?otool=fhcrclib

Laeyendecker O, Piwowar-Manning E, Fiamma A, Kulich M, Donnell D, Bassuk D, Mullis CE, Chin C, Swanson P, Hackett J,Jr, Clarke W, Marzinke M, Szekeres G, Gray G, Richter L, Alexandre MW, Chariyalertsak S, Chingono A, Celentano DD, Morin SF, Sweat M, Coates T, Eshleman SH. Estimation of HIV incidence in a large, community-based, randomized clinical trial: NIMH project accept (HIV prevention trials network 043). PLoS One. 2013 Jul 11;8(7):e68349.
Full-text article: http://scholars.fhcrc.org/1867/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23874597?otool=fhcrclib

Mohamoud YA, Mumtaz GR, Riome S, Miller D, Abu-Raddad LJ. The epidemiology of hepatitis C virus in egypt: A systematic review and data synthesis. BMC Infect Dis. 2013 Jun 24;13:288.
Full-text article: http://scholars.fhcrc.org/1911/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23799878?otool=fhcrclib

Moodie Z, Janes H, Huang Y. New clinical trial designs for HIV vaccine evaluation. Curr Opin HIV AIDS. 2013 Jul 18. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1865/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23872613?otool=fhcrclib

Mujugira A, Magaret AS, Celum C, Baeten JM, Lingappa JR, Morrow RA, Fife KH, Delany-Moretlwe S, de Bruyn G, Bukusi EA, Karita E, Kapiga S, Corey L, Wald A, for the Partners in Prevention HSV/HIV Transmission Study Team. Daily acyclovir to decrease HSV-2 transmission from HSV-2/HIV-1 co-infected persons: A randomized controlled trial. J Infect Dis. 2013 Jul 20. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1899/ 
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23901094?otool=fhcrclib

Mullane KM, Winston DJ, Wertheim MS, Betts RF, Poretz DM, Camacho LH, Pergam SA, Mullane M, Stek JE, Sterling TM, Zhao Y, Manoff SB, Annunziato PW. Safety and immunogenicity of heat-treated zoster vaccine (ZVHT) in immunocompromised adults. J Infect Dis. 2013 Aug 1. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1887/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23908479?otool=fhcrclib

Munoz MA, Liu W, Delaney JA, Brown E, Mugavero MJ, Mathews WC, Napravnik S, Willig JH, Eron JJ, Hunt PW, Kahn JO, Saag MS, Kitahata MM, Crane HM. Comparative effectiveness of fish oil versus fenofibrate, gemfibrozil, and atorvastatin on lowering triglyceride levels among HIV-infected patients in routine clinical care. J Acquir Immune Defic Syndr. 2013 Jul 25. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1904/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23892238?otool=fhcrclib

Muthayya S, Rah JH, Sugimoto JD, Roos FF, Kraemer K, Black RE. The global hidden hunger indices and maps: An advocacy tool for action. PLoS One. 2013 Jun 12; 8(6): e67860.
Full-text article: http://scholars.fhcrc.org/1824/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23776712?otool=fhcrclib

Ngo LY, Kasahara S, Kumasaka DK, Knoblaugh SE, Jhingran A, Hohl TM. Inflammatory monocytes mediate early and organ-specific innate defense during systemic candidiasis. J Infect Dis. 2013 Aug 6. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1926/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23922372?otool=fhcrclib

Potter GE, Hens N. A penalized likelihood approach to estimate within-household contact networks from egocentric data. J R Stat Soc Ser C-Appl Stat. 2013 Aug;62(4):629-648.
Full-text article: http://scholars.fhcrc.org/1916/
PubMed Record: http://dx.doi.org/10.1111/rssc.12011

Schiffer JT. Mucosal HSV-2 specific CD8+ T-cells represent containment of prior viral shedding rather than a correlate of future protection. Front Immunol. 2013 Jul 29;4:209.
Full-text article: http://scholars.fhcrc.org/1886/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23908652?otool=fhcrclib

Schiffer JT, Swan DA, Stone D, Jerome KR. Predictors of hepatitis B cure using gene therapy to deliver DNA cleavage enzymes: A mathematical modeling approach. PLoS Comput Biol. 2013 Jul;9(7):e1003131.
Full-text article: http://scholars.fhcrc.org/1832/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23861664?otool=fhcrclib

Seshadri C, Shenoy M, Wells RD, Hensley-McBain T, Andersen-Nissen E, McElrath MJ, Cheng TY, Moody DB, Hawn TR. Human CD1a deficiency is common and genetically regulated. J Immunol. 2013 Jul 15. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1836/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23858036?otool=fhcrclib

Shebl FM, Emmanuel B, Bunts L, Biryahwaho B, Kiruthu C, Huang ML, Pfeiffer RM, Casper C, Mbulaiteye SM. Population-based assessment of kaposi sarcoma-associated herpesvirus DNA in plasma among ugandans. J Med Virol. 2013 Sep;85(9):1602-1610.
Full-text article: http://scholars.fhcrc.org/1852/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23852686?otool=fhcrclib

Smurzynski M, Wu K, Schouten JT, Lok JJ, Bosch RJ, Taiwo B, Johnson VA, Collier AC. Factors associated with remaining on initial randomized efavirenz-containing regimens. AIDS. 2013 Jul 31;27(12):1887-1897.
Full-text article: http://scholars.fhcrc.org/1920/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23925417?otool=fhcrclib

Wald A, Selke S, Magaret A, Boeckh M. Impact of human cytomegalovirus (CMV) infection on immune response to pandemic 2009 H1N1 influenza vaccine in healthy adults. J Med Virol. 2013 Sep;85(9):1557-1560.
Full-text article: http://scholars.fhcrc.org/1853/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23852679?otool=fhcrclib

Watts DH, Brown ER, Maldonado Y, Herron C, Chipato T, Reddy L, Moodley D, Nakabiito C, Manji K, Fawzi W, George K, Richardson P, Zwerski S, Coovadia H, Fowler M, for the HPTN 046 protocol team. HIV disease progression in the first year after delivery among african women followed in the HPTN 046 clinical trial. J Acquir Immune Defic Syndr. 2013 Jul 10. [Epub ahead of print]
Full-text article: http://scholars.fhcrc.org/1795/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23846568?otool=fhcrclib

July

Baisley K, Baeten JM, Hughes JP, Donnell DJ, Wang J, Hayes R, Jones DW, Celum C. Summary measures of adherence using pill counts in two HIV prevention trials: The need for standardisation in reporting. AIDS Behav. 2013 Jun 26.
Full-text article: http://scholars.fhcrc.org/1730/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23801018?otool=fhcrclib

Celum C, Baeten JM, Hughes JP, Barnabas R, Liu A, Van Rooyen H, Buchbinder S. Integrated strategies for combination HIV prevention: Principles and examples for men who have sex with men in the americas and heterosexual african populations. J Acquir Immune Defic Syndr. 2013 Jul; 63 Suppl 2: S213-20.
Full-text article: http://scholars.fhcrc.org/1675/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23764638?otool=fhcrclib

Coleman JS, Mwachari C, Balkus J, Sanguli L, Muliro A, Agnew K, Coombs RW, Cohen CR, Hitti J. Effect of the levonorgestrel intrauterine device on genital HIV-1 RNA shedding among HIV-1-infected women not taking antiretroviral therapy in nairobi, kenya. J Acquir Immune Defic Syndr. 2013 Jun 1; 63(2): 245-248.
Full-text article: http://scholars.fhcrc.org/1778/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23446496?otool=fhcrclib

Dai JY, Li SS, Gilbert PB. Case-only method for cause-specific hazards models with application to assessing differential vaccine efficacy by viral and host genetics. Biostatistics. 2013 Jun 27.
Full-text article: http://scholars.fhcrc.org/1753/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23813283?otool=fhcrclib

Donnell D, Hughes JP, Wang L, Chen YQ, Fleming TR. Study design considerations for evaluating efficacy of systemic preexposure prophylaxis interventions. J Acquir Immune Defic Syndr. 2013 Jul; 63 Suppl 2: S130-4.
Full-text article: http://scholars.fhcrc.org/1674/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23764624?otool=fhcrclib

Fisher CE, Stevens AM, Leisenring W, Pergam SA, Boeckh M, Hohl TM. The serum galactomannan index predicts mortality in hematopoietic stem cell transplant recipients with invasive aspergillosis. Clin Infect Dis. 2013 Jun 11.
Full-text article: http://scholars.fhcrc.org/1647/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23759343?otool=fhcrclib

Gantt S, Huang ML, Magaret A, Bunts L, Selke S, Wald A, Rosenthal PJ, Dorsey G, Casper C. An artesunate-containing antimalarial treatment regimen did not suppress cytomegalovirus viremia. J Clin Virol. 2013 Jul 1.
Full-text article: http://scholars.fhcrc.org/1742/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23827788?otool=fhcrclib

Godfrey C, Villa C, Dawson L, Swindells S, Schouten JT. Controlling healthcare-associated infections in the international research setting. Jaids. 2013 APR 1; 62(4): E115-E118.
Full-text article: http://scholars.fhcrc.org/1717/
PubMed Record: No PubMed record available.

Hertz T, Ahmed H, Friedrich DP, Casimiro DR, Self SG, Corey L, McElrath MJ, Buchbinder S, Horton H, Frahm N, Robertson MN, Graham BS, Gilbert P. HIV-1 vaccine-induced T-cell reponses cluster in epitope hotspots that differ from those induced in natural infection with HIV-1. PLoS Pathog. 2013 Jun; 9(6): e1003404.
Full-text article: http://scholars.fhcrc.org/1752/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23818843?otool=fhcrclib
*Science Spotlight

Imholte GC, Sauteraud R, Korber B, Bailer RT, Turk ET, Shen X, Tomaras GD, Mascola JR, Koup RA, Montefiori DC, Gottardo R. A computational framework for the analysis of peptide microarray antibody binding data with application to HIV vaccine profiling. J Immunol Methods. 2013 Jun 13.
Full-text article: http://scholars.fhcrc.org/1703/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23770318?otool=fhcrclib

Janes H, Pepe MS, Huang Y. A framework for evaluating markers used to select patient treatment. Med Decis Making. 2013 Jun 27.
Full-text article: http://scholars.fhcrc.org/1756/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23811760?otool=fhcrclib

Koblin BA, Metch B, Novak RM, Morgan C, Lucy D, Dunbar D, Graham P, Swann E, Madenwald T, Escamilia G, Frank I, HVTN 906 Study Team. Feasibility of identifying a cohort of US women at high risk for HIV infection for HIV vaccine efficacy trials: Longitudinal results of HVTN 906. J Acquir Immune Defic Syndr. 2013 Jun 1; 63(2): 239-244.
Full-text article: http://scholars.fhcrc.org/1775/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23446497?otool=fhcrclib

McClain J, Hsu F, Brown E, Burke G, Carr J, Harris T, Kritchevsky S, Szklo M, Tracy R, Ding J. Pericardial adipose tissue and coronary artery calcification in the multi-ethnic study of atherosclerosis (MESA). Obesity (Silver Spring). 2013 May; 21(5): 1056-1063.
Full-text article: http://scholars.fhcrc.org/1681/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23784910?otool=fhcrclib

Omenda MM, Milligan C, Odem-Davis K, Nduati R, Richardson BA, Lynch J, John-Stewart G, Overbaugh J. Evidence for efficient vertical transfer of maternal HIV-1 envelope-specific neutralizing antibodies but no association of such antibodies with reduced infant infection. J Acquir Immune Defic Syndr. 2013 Jun 14.
Full-text article: http://scholars.fhcrc.org/1691/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23774880?otool=fhcrclib

Pattacini L, Murnane PM, Kahle EM, Bolton MJ, Delrow JJ, Lingappa J, Katabira E, Donnell D, McElrath J, Baeten JM, Lund JM. Differential regulatory T cell activity in HIV-1-exposed seronegative individuals. AIDS Res Hum Retroviruses. 2013 Jul 2.
Full-text article: http://scholars.fhcrc.org/1749/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23815575?otool=fhcrclib

Travi G, Pergam SA. Cytomegalovirus pneumonia in hematopoietic stem cell recipients. J Intensive Care Med. 2013 Feb 6.
Full-text article: http://scholars.fhcrc.org/1665/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23753231?otool=fhcrclib

van Velzen M, Ouwendijk WJ, Selke S, Pas SD, van Loenen FB, Osterhaus AD, Wald A, Verjans GM. Longitudinal study on oral shedding of herpes simplex virus 1 and varicella-zoster virus in individuals infected with HIV. J Med Virol. 2013 Jun 18.
Full-text article: http://scholars.fhcrc.org/1684/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23780621?otool=fhcrclib

Wald A. Knowledge is power: A case for wider herpes simplex virus serologic testing. JAMA Pediatr. 2013 Jun 3: 1-2.
Full-text article: http://scholars.fhcrc.org/1662/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23733099?otool=fhcrclib

Woo S, Zhang X, Sauteraud R, Robert F, Gottardo R. PING 2.0: An R/Bioconductor package for nucleosome positioning using next-generation sequencing data. Bioinformatics. 2013 Jun 20.
Full-text article: http://scholars.fhcrc.org/1672/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23786769?otool=fhcrclib

June

Balkus JE, Richardson BA, Mochache V, Chohan V, Chan JD, Masese L, Shafi J, Marrazzo J, Farquhar C, McClelland RS. A prospective cohort study comparing the effect of single-dose 2 g metronidazole on trichomonas vaginalis infection in HIV-seropositive versus HIV-seronegative women. Sex Transm Dis. 2013 Jun; 40(6): 499-505.
Full-text article: http://scholars.fhcrc.org/1526/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23677023?otool=fhcrclib

Chu HY, Kuypers J, Renaud C, Wald A, Martin E, Fairchok M, Magaret A, Sarancino M, Englund JA. Molecular epidemiology of respiratory syncytial virus transmission in childcare. J Clin Virol. 2013 May 16
Full-text article: http://scholars.fhcrc.org/1548/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23684816?otool=fhcrclib

Curran K, Mugo NR, Kurth A, Ngure K, Heffron R, Donnell D, Celum C, Baeten JM. Daily short message service surveys to measure sexual behavior and pre-exposure prophylaxis use among kenyan men and women. AIDS Behav. 2013 May 22
Full-text article: http://scholars.fhcrc.org/1566/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23695519?otool=fhcrclib

Edlefsen PT, Gilbert PB, Rolland M. Sieve analysis in HIV-1 vaccine efficacy trials. Curr Opin HIV AIDS. 2013 May 28
Full-text article: http://scholars.fhcrc.org/1576/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23719202?otool=fhcrclib

Green ML, Leisenring WM, Xie H, Walter RB, Mielcarek M, Sandmaier BM, Riddell SR, Boeckh M. CMV reactivation after allogeneic HCT and relapse risk: Evidence for early protection in acute myeloid leukemia. Blood. 2013 Jun 6
Full-text article: http://scholars.fhcrc.org/1605/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23744585?otool=fhcrclib

Hansen SG, Sacha JB, Hughes CM, Ford JC, Burwitz BJ, Scholz I, Gilbride RM, Lewis MS, Gilliam AN, Ventura AB, Malouli D, Xu G, Richards R, Whizin N, Reed JS, Hammond KB, Fischer M, Turner JM, Legasse AW, Axthelm MK, Edlefsen PT, Nelson JA, Lifson JD, Fruh K, Picker LJ. Cytomegalovirus vectors violate CD8+ T cell epitope recognition paradigms. Science. 2013 May 24; 340(6135): 1237874.
Full-text article: http://scholars.fhcrc.org/1555/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23704576?otool=fhcrclib

Haynes BF, McElrath MJ. Progress in HIV-1 vaccine development. Curr Opin HIV AIDS. 2013 Jul; 8(4): 326-332.
Full-text article: http://scholars.fhcrc.org/1604/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23743722?otool=fhcrclib

Kunwar P, Hawkins N, Dinges WL, Liu Y, Gabriel EE, Swan DA, Stevens CE, Maenza J, Collier AC, Mullins JI, Hertz T, Yu X, Horton H. Superior control of HIV-1 replication by CD8+ T cells targeting conserved epitopes: Implications for HIV vaccine design. PLoS One. 2013 May 31; 8(5): e64405.
Full-text article: http://scholars.fhcrc.org/1614/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23741326?otool=fhcrclib

Limaye AP, Hayes TK, Huang ML, Magaret A, Boeckh M, Jerome KR. Quantitation of cytomegalovirus (CMV) DNA load in dried blood spots (DBS) correlates well with plasma viral load. J Clin Microbiol. 2013 May 15
Full-text article: http://scholars.fhcrc.org/1525/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23678066?otool=fhcrclib

Renaud C, Xie H, Seo S, Kuypers J, Cent A, Corey L, Leisenring W, Boeckh M, Englund JA. Mortality rates of human metapneumovirus and respiratory syncytial virus lower respiratory tract infections in hematopoietic cell transplant recipients. Biol Blood Marrow Transplant. 2013 May 13
Full-text article: http://scholars.fhcrc.org/1520/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23680472?otool=fhcrclib

Sedlak RH, Castor J, Butler-Wu SM, Chan E, Cook L, Limaye AP, Jerome KR. Rapid detection of human cytomegalovirus UL97 and UL54 mutations directly from patient samples. J Clin Microbiol. 2013 May 15
Full-text article: http://scholars.fhcrc.org/1524/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23678068?otool=fhcrclib

van Rooyen H, Barnabas RV, Baeten JM, Phakathi Z, Joseph P, Krows M, Hong T, Murnane PM, Hughes J, Celum C. High HIV testing uptake and linkage to care in a novel program of home-based HIV counseling and testing with facilitated referral in KwaZulu-natal, south africa. J Acquir Immune Defic Syndr. 2013 May 24
Full-text article: http://scholars.fhcrc.org/1577/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23714740?otool=fhcrclib

Walsh PN, Friedrich DP, Williams JA, Smith RJ, Stewart TL, Carter DK, Liao HX, McElrath MJ, Frahm N, The NIAID HIV Vaccine Trials Network. Optimization and qualification of a memory B-cell ELISpot for the detection of vaccine-induced memory responses in HIV vaccine trials. J Immunol Methods. 2013 May 23
Full-text article: http://scholars.fhcrc.org/1588/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23707324?otool=fhcrclib

Wang T, Xu Y, Zhu H, Andrus T, Ivanov SB, Pan C, Dolores J, Dann GC, Zhou M, Forte D, Yang Z, Holte S, Corey L, Zhu T. Successful isolation of infectious and high titer human monocyte-derived HIV-1 from two subjects with discontinued therapy. PLoS One. 2013 May 31; 8(5): e65071.
Full-text article: http://scholars.fhcrc.org/1612/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23741458?otool=fhcrclib

May

Cohen JI, Mocarski ES, Raab-Traub N, Corey L, Nabel GJ. The need and challenges for development of an epstein-barr virus vaccine. Vaccine. 2013 Apr 18; 31 Suppl 2: B194-6.
Full-text article: http://scholars.fhcrc.org/1449/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23598481?otool=fhcrclib

Eckels J, Nathe C, Nelson EK, Shoemaker SG, Nostrand E, Yates NL, Ashley VC, Harris LJ, Bollenbeck M, Fong Y, Tomaras GD, Piehler B. Quality control, analysis and secure sharing of luminex(R) immunoassay data using the open source LabKey server platform. BMC Bioinformatics. 2013 Apr 30; 14(1): 145.
Full-text article: http://scholars.fhcrc.org/1489/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23631706?otool=fhcrclib

Fuchs JD, Sobieszczyk ME, Madenwald T, Grove D, Karuna ST, Andrasik M, Sherwat A, Broder G, Mayer K, Koblin B, Hammer S, HVTN 505 Protocol Team. Intentions to use pre-exposure prophylaxis among current phase 2B preventive HIV-1 vaccine efficacy trial participants. J Acquir Immune Defic Syndr. 2013 Apr 22
Full-text article: http://scholars.fhcrc.org/1448/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23614998?otool=fhcrclib

Janes H. Letter to the editor. Biostatistics. 2013 Apr 26
Full-text article: http://scholars.fhcrc.org/1493/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23624212?otool=fhcrclib

Janes H, Gilbert P, Buchbinder S, Kublin J, Sobieszczyk ME, Hammer SM. In pursuit of an HIV vaccine: Designing efficacy trials in the context of partially effective non-vaccine prevention modalities. AIDS Res Hum Retroviruses. 2013 Apr 19
Full-text article: http://scholars.fhcrc.org/1421/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23597282?otool=fhcrclib

Kingham TP, Alatise OI, Vanderpuye V, Casper C, Abantanga FA, Kamara TB, Olopade OI, Habeebu M, Abdulkareem FB, Denny L. Treatment of cancer in sub-saharan africa. Lancet Oncol. 2013 Apr; 14(4): e158-67.
Full-text article: http://scholars.fhcrc.org/1413/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23561747?otool=fhcrclib

Kurzrock R, Voorhees PM, Casper C, Furman RR, Fayad L, Lonial S, Borghaei H, Jagannath S, Sokol L, Usmani S, van de Velde H, Qin X, Puchalski TA, Hall B, Reddy M, Qi M, Van Rhee F. A phase I, open-label study of siltuximab, an anti-IL-6 monoclonal antibody, in patients with B-cell non-hodgkin's lymphoma, multiple myeloma, or castleman's disease. Clin Cancer Res. 2013 May 9
Full-text article: http://scholars.fhcrc.org/1509/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23659971?otool=fhcrclib

Liu P, Yates NL, Shen X, Bonsignori M, Moody MA, Liao HX, Fong Y, Alam SM, Overman RG, Denny T, Ferrari G, Ochsenbauer C, Kappes JC, Polonis V, Pitisuttithum P, Kaewkungwal J, Nitayaphan S, Rerks-Ngarm S, Montefiori DC, Gilbert P, Michael NL, Kim JH, Haynes BF, Tomaras GD. Infectious virion capture by HIV-1 gp120 specific IgG from RV144 vaccinees. J Virol. 2013 May 8
Full-text article: http://scholars.fhcrc.org/1512/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23658446

McDermott CL, Sandmaier BM, Storer B, Li H, Mager DE, Boeckh MJ, Bemer MJ, Knutson J, McCune JS. Non-relapse mortality and mycophenolic acid exposure in nonmyeloablative hematopoietic cell transplantation. Biol Blood Marrow Transplant. 2013 May 6
Full-text article: http://scholars.fhcrc.org/1498/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23660171?otool=fhcrclib

McGowan I, Hoesley C, Cranston RD, Andrew P, Janocko L, Dai JY, Carballo-Dieguez A, Ayudhya RK, Piper J, Hladik F, Mayer K. A phase 1 randomized, double blind, placebo controlled rectal safety and acceptability study of tenofovir 1% gel (MTN-007). PLoS One. 2013; 8(4): e60147.
Full-text article: http://scholars.fhcrc.org/1401/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23573238?otool=fhcrclib

Pandey JP, Namboodiri AM, Bu S, De Dieu Tapsoba J, Sato A, Dai JY. Immunoglobulin genes and the acquisition of HIV infection in a randomized trial of recombinant adenovirus HIV vaccine. Virology. 2013 Apr 10
Full-text article: http://scholars.fhcrc.org/1435/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23582638?otool=fhcrclib

Rickerts V, McCormick Smith I, Mousset S, Kommedal O, Fredricks DN. Deciphering the aetiology of a mixed fungal infection by broad-range PCR with sequencing and fluorescence in situ hybridisation. Mycoses. 2013 Apr 8
Full-text article: http://scholars.fhcrc.org/1417/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23560622?otool=fhcrclib

Schiffer JT, Swan D, Al Sallaq R, Magaret A, Johnston C, Mark KE, Selke S, Ocbamichael N, Kuntz S, Zhu J, Robinson B, Huang ML, Jerome KR, Wald A, Corey L. Rapid localized spread and immunologic containment define herpes simplex virus-2 reactivation in the human genital tract. Elife. 2013 Apr 16; 2: e00288.
Full-text article: http://scholars.fhcrc.org/1465/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23606943?otool=fhcrclib

Tomaras GD, Ferrari G, Shen X, Alam SM, Liao HX, Pollara J, Bonsignori M, Moody MA, Fong Y, Chen X, Poling B, Nicholson CO, Zhang R, Lu X, Parks R, Kaewkungwal J, Nitayaphan S, Pitisuttithum P, Rerks-Ngarm S, Gilbert PB, Kim JH, Michael NL, Montefiori DC, Haynes BF. Vaccine-induced plasma IgA specific for the C1 region of the HIV-1 envelope blocks binding and effector function of IgG. Proc Natl Acad Sci U S A. 2013 May 9
Full-text article: http://scholars.fhcrc.org/1496/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23661056?otool=fhcrclib

Zhu J, Peng T, Johnston C, Phasouk K, Kask AS, Klock A, Jin L, Diem K, Koelle DM, Wald A, Robins H, Corey L. Immune surveillance by CD8alphaalpha skin-resident T cells in human herpes virus infection. Nature. 2013 May 23; 497(7450): 494-7.
Full-text article: http://scholars.fhcrc.org/1510/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23657257?otool=fhcrclib

March-April

Aghaeepour N, Finak G; FlowCAP Consortium; DREAM Consortium, Hoos H, Mosmann TR, Brinkman R, Gottardo R, Scheuermann RH. Critical assessment of automated flow cytometry data analysis techniques. Nat Methods. 2013 Mar;10(3):228-38.
Full-text article: http://scholars.fhcrc.org/1169/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23396282?otool=fhcrclib

Chao DL, Longini IM,Jr, Morris JG,Jr. Modeling cholera outbreaks. Curr Top Microbiol Immunol. 2013 Feb 15
Full-text article: http://scholars.fhcrc.org/1186/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23412687?otool=fhcrclib

Chen CT, McDavid AN, Kahsai OJ, Zebari AS, Carlson CS. Efficient identification of rare variants in large populations: Deep re-sequencing the CRP locus in the CARDIA study. Nucleic Acids Res. 2013 Feb 13
Full-text article: http://scholars.fhcrc.org/1154/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23408856?otool=fhcrclib

Chen X, Bailleux F, Desai K, Qin L, Dunning AJ. A threshold method for immunological correlates of protection. BMC Med Res Methodol. 2013 Mar 1; 13(1): 29.
Full-text article: http://scholars.fhcrc.org/1203/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23448322?otool=fhcrclib

Chu HY, Jain R, Xie H, Pottinger P, Fredricks DN. Voriconazole therapeutic drug monitoring: Retrospective cohort study of the relationship to clinical outcomes and adverse events. BMC Infect Dis. 2013 Feb 26; 13(1): 105.
Full-text article: http://scholars.fhcrc.org/1227/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23442261?otool=fhcrclib

Huang Y, Gilbert PB, Wolfson J. Design and estimation for evaluating principal surrogate markers in vaccine trials. Biometrics. 2013 Feb 14
Full-text article: http://scholars.fhcrc.org/1149/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23409839?otool=fhcrclib

Juraska M, Gilbert PB. Mark-specific hazard ratio model with multivariate continuous marks: An application to vaccine efficacy. Biometrics. 2013 Feb 19
Full-text article: http://scholars.fhcrc.org/1185/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23421613?otool=fhcrclib

Masese L, Baeten JM, Richardson BA, Deya R, Kabare E, Bukusi E, John-Stewart G, Jaoko W, McClelland RS. Incidence and correlates of chlamydia trachomatis infection in a high-risk cohort of kenyan women. Sex Transm Dis. 2013 Mar; 40(3): 221-225.
Full-text article: http://scholars.fhcrc.org/1151/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23407467?otool=fhcrclib

Rolland M, Manocheewa S, Swain JV, Lanxon-Cookson EC, Kim M, Westfall DH, Larsen BB, Gilbert PB, Mullins JI. HIV-1 conserved elements vaccines: Relationship between sequence conservation and replicative capacity. J Virol. 2013 Mar 6
Full-text article: http://scholars.fhcrc.org/1242/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23468488?otool=fhcrclib

Schiffer JT, Corey L. Rapid host immune response and viral dynamics in herpes simplex virus-2 infection. Nat Med. 2013 Mar 6; 19(3): 280-288.
Full-text article: http://scholars.fhcrc.org/1241/
PubMed Record: http://www.ncbi.nlm.nih.gov/pubmed/23467247?otool=fhcrclib

January-February

Alsallaq RA, Baeten JM, Celum CL, Hughes JP, Abu-Raddad LJ, Barnabas RV, et al. Understanding the Potential Impact of a Combination HIV Prevention Intervention in a Hyper-Endemic Community. PloS one. 2013;8(1):e54575.
http://www.ncbi.nlm.nih.gov/pubmed/23372738?otool=fhcrclib

Auranen K, Rinta-Kokko H, Halloran ME. Estimating Strain-Specific and Overall Efficacy of Polyvalent Vaccines Against Recurrent Pathogens From a Cross-Sectional Study. Biometrics. 2013.
http://www.ncbi.nlm.nih.gov/pubmed/23379663?otool=fhcrclib

Baddley JW, Andes DR, Marr KA, Kauffman CA, Kontoyiannis DP, Ito JI, et al. Antifungal therapy and length of hospitalization in transplant patients with invasive aspergillosis. Medical mycology : official publication of the International Society for Human and Animal Mycology. 2013;51(25):128-35.
http://www.ncbi.nlm.nih.gov/pubmed/22680976?otool=fhcrclib

Baggaley RF, Dimitrov D, Owen BN, Pickles M, Butler AR, Masse B, et al. Heterosexual Anal Intercourse: A Neglected Risk Factor for HIV? Am J Reprod Immunol. 2013;69 Suppl 1:95-105.
http://www.ncbi.nlm.nih.gov/pubmed/23279040?otool=fhcrclib

Barouch DH, Liu J, Peter L, Abbink P, Iampietro MJ, Cheung A, et al. Characterization of Humoral and Cellular Immune Responses Elicited by a Recombinant Adenovirus Serotype 26 HIV-1 Env Vaccine in Healthy Adults (IPCAVD 001). The Journal of infectious diseases. 2013;207(2):248-56.
http://www.ncbi.nlm.nih.gov/pubmed/23125443?otool=fhcrclib

Bernstein DI, Bellamy AR, Hook EW, Levin MJ, Wald A, Ewell MG, et al. Epidemiology, Clinical Presentation, and Antibody Response to Primary Infection With Herpes Simplex Virus Type 1 and Type 2 in Young Women. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America. 2013;56(3):344-51.
http://www.ncbi.nlm.nih.gov/pubmed/23087395?otool=fhcrclib

Campbell AP, Kuypers J, Englund JA, Guthrie KA, Corey L, Boeckh M. Self Collection of Foam Nasal Swabs for Respiratory Virus Detection by PCR among Immunocompetent Subjects and Hematopoietic Cell Transplant Recipients. J Clin Microbiol. 2013;51(1):324-7.
http://www.ncbi.nlm.nih.gov/pubmed/23135933?otool=fhcrclib

Chemaitelly H, Shelton JD, Hallett TB, Abu-Raddad LJ. Only a fraction of new HIV infections occur within identifiable stable discordant couples in sub-Saharan Africa. AIDS (London, England). 2013;27(2):251-60.
http://www.ncbi.nlm.nih.gov/pubmed/23079805?otool=fhcrclib

Cousins MM, Donnell D, Eshleman SH. Impact of mutation type and amplicon characteristics on genetic diversity measures generated using a high-resolution melting diversity assay. J Mol Diagn. 2013;15(1):130-7.
http://www.ncbi.nlm.nih.gov/pubmed/23178437?otool=fhcrclib

Dai JY, Gilbert PB, Hughes JP, Brown ER. Estimating the Efficacy of Preexposure Prophylaxis for HIV Prevention Among Participants With a Threshold Level of Drug Concentration. Am J Epidemiol. 2013;177(3):256-63.
http://www.ncbi.nlm.nih.gov/pubmed/23302152?otool=fhcrclib

Dimitrov DT, Mâsse BR, Boily M-C. Beating the placebo in HIV prevention efficacy trials: the role of the minimal efficacy bound. Journal of acquired immune deficiency syndromes (1999). 2013;62(1):95-101.
http://www.ncbi.nlm.nih.gov/pubmed/23075921?otool=fhcrclib

Donnell DJ, Baeten JM, Hong T, Lingappa JR, Mujugira A, Nakku-Joloba E, et al. Correlation Between Pill Counts and Biologic Effects in an HIV-1 Prevention Clinical Trial: Implications for Measuring Adherence. AIDS Behav. 2013;17(2):632-9.
http://www.ncbi.nlm.nih.gov/pubmed/22869103?otool=fhcrclib

Drozd DR, Limaye AP, Moss RB, Sanders RL, Hansen C, Edelman JD, et al. DAS181 treatment of severe parainfluenza type 3 pneumonia in a lung transplant recipient. Transpl Infect Dis. 2013;15(1):E28-32.
http://www.ncbi.nlm.nih.gov/pubmed/23279859?otool=fhcrclib

Duerr A, Huang Y, Buchbinder S, Coombs RW, Sanchez J, del Rio C, et al. Reply to richie and villasante. The Journal of infectious diseases. 2013;207(4):690-2.
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Eshleman SH, Hughes JP, Laeyendecker O, Wang J, Brookmeyer R, Johnson-Lewis L, et al. Use of a multi-faceted approach to analyze HIV incidence in a cohort study of women in the United States: HIV Prevention Trials Network 064 Study. The Journal of infectious diseases. 2013;207(2):223-31.
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Feng Z, Kagan J, Pepe M, Thornquist M, Ann Rinaudo J, Dahlgren J, et al. The Early Detection Research Network's Specimen Reference Sets: Paving the Way for Rapid Evaluation of Potential Biomarkers. Clin Chem. 2013;59(1):68-74.
http://www.ncbi.nlm.nih.gov/pubmed/23193062?otool=fhcrclib

Forthal DN, Landucci G, Chohan B, Richardson BA, Scott McClelland R, Jaoko W, et al. Antibody-dependent cell-mediated virus inhibition (ADCVI) antibody activity does not correlate with risk of HIV-1 superinfection. Journal of acquired immune deficiency syndromes (1999). 2013.
http://www.ncbi.nlm.nih.gov/pubmed/23344546?otool=fhcrclib

Gray GE, Metch B, Churchyard G, Mlisana K, Nchabeleng M, Allen M, et al. Does participation in an HIV vaccine efficacy trial affect risk behaviour in South Africa? Vaccine. 2013.
http://www.ncbi.nlm.nih.gov/pubmed/23370155?otool=fhcrclib

Heffron R, Mugo N, Ngure K, Celum C, Donnell D, Were E, et al. Hormonal contraceptive use and risk of HIV-1 disease progression. AIDS (London, England). 2013;27(2):261-7.
http://www.ncbi.nlm.nih.gov/pubmed/23079806?otool=fhcrclib

Hendrix CW, Chen BA, Guddera V, Hoesley C, Justman J, Nakabiito C, et al. MTN-001: Randomized Pharmacokinetic Cross-Over Study Comparing Tenofovir Vaginal Gel and Oral Tablets in Vaginal Tissue and Other Compartments. PloS one. 2013;8(1):e55013.
http://www.ncbi.nlm.nih.gov/pubmed/23383037?otool=fhcrclib

Hirsch HH, Martino R, Ward KN, Boeckh M, Einsele H, Ljungman P. Fourth European Conference on Infections in Leukaemia (ECIL-4): Guidelines for Diagnosis and Treatment of Human Respiratory Syncytial Virus, Parainfluenza Virus, Metapneumovirus, Rhinovirus, and Coronavirus. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America. 2013;56(2):258-66.   
http://www.ncbi.nlm.nih.gov/pubmed/23024295?otool=fhcrclib

Hodder SL, Justman J, Hughes JP, Wang J, Haley DF, Adimora AA, et al. HIV acquisition among women from selected areas of the United States: a cohort study. Ann Intern Med. 2013;158(1):10-8.
http://www.ncbi.nlm.nih.gov/pubmed/23277896?otool=fhcrclib

Hoot S, McGuire AT, Cohen KW, Strong RK, Hangartner L, Klein F, et al. Recombinant HIV Envelope Proteins Fail to Engage Germline Versions of Anti-CD4bs bNAbs. PLoS Pathog. 2013;9(1):e1003106.
http://www.ncbi.nlm.nih.gov/pubmed/23300456?otool=fhcrclib

Jing L, Schiffer JT, Chong TM, Bruckner JJ, Davies DH, Felgner PL, et al. CD4 T-cell memory responses to viral infections of humans show pronounced immunodominance independent of duration or viral persistence. Journal of virology. 2013;87(5):2617-27.
http://www.ncbi.nlm.nih.gov/pubmed/23255792?otool=fhcrclib

Kharfan-Dabaja MA, Boeckh M, Wilck MB, Langston AA, Chu AH, Wloch MK, et al. Reanalysis of TransVax immunogenicity. The Lancet infectious diseases. 2013;13(1):18.
http://www.ncbi.nlm.nih.gov/pubmed/23257230?otool=fhcrclib

Laeyendecker O, Brookmeyer R, Cousins MM, Mullis CE, Konikoff J, Donnell D, et al. HIV Incidence Determination in the United States: A Multi-Assay Approach. The Journal of infectious diseases. 2013;207(2):232-9.
http://www.ncbi.nlm.nih.gov/pubmed/23129760?otool=fhcrclib

Langat A, Benki-Nugent S, Wamalwa D, Tapia K, Ngugi E, Diener L, et al. Lipid Changes in Kenyan HIV-1-Infected Infants Initiating Highly Active Antiretroviral Therapy by One Year of Age. The Pediatric infectious disease journal. 2013.
http://www.ncbi.nlm.nih.gov/pubmed/23385950?otool=fhcrclib

Latkin C, Donnell D, Liu T-Y, Davey-Rothwell M, Celentano D, Metzger D. The dynamic relationship between social norms and behaviors: the results of an HIV prevention network intervention for injection drug users. Addiction. 2013.
http://www.ncbi.nlm.nih.gov/pubmed/23362861?otool=fhcrclib

Lingappa J, Thomas KK, Hughes JP, Baeten JM, Wald A, Farquhar C, et al. Partner characteristics predicting HIV-1 setpoint in sexually acquired HIV-1 among African seroconverters. AIDS research and human retroviruses. 2013;29(1):164-71.
http://www.ncbi.nlm.nih.gov/pubmed/23061422?otool=fhcrclib

Liu MKP, Hawkins N, Ritchie AJ, Ganusov VV, Whale V, Brackenridge S, et al. Vertical T cell immunodominance and epitope entropy determine HIV-1 escape. The Journal of clinical investigation. 2013;123(1):380-93.
http://www.ncbi.nlm.nih.gov/pubmed/23221345?otool=fhcrclib

McElrath M, Smythe K, Randolph-Habecker J, Melton K, Goodpaster T, Hughes S, et al. Comprehensive assessment of HIV target cells in the distal human gut suggests increasing HIV susceptibility toward the anus. Journal of acquired immune deficiency syndromes (1999). 2013.
http://www.ncbi.nlm.nih.gov/pubmed/23392465?otool=fhcrclib

Minnis AM, Gandham S, Richardson BA, Guddera V, Chen BA, Salata R, et al. Adherence and Acceptability in MTN 001: A Randomized Cross-Over Trial of Daily Oral and Topical Tenofovir for HIV Prevention in Women. AIDS Behav. 2013;17(2):737-47.
http://www.ncbi.nlm.nih.gov/pubmed/23065145?otool=fhcrclib

Mitchell C, Balkus JE, Fredricks D, Liu C, McKernan-Mullin J, Frenkel LM, et al. Interaction Between Lactobacilli, Bacterial Vaginosis-Associated Bacteria, and HIV Type 1 RNA and DNA Genital Shedding in U.S. and Kenyan Women. AIDS research and human retroviruses. 2013;29(1):13-9.
http://www.ncbi.nlm.nih.gov/pubmed/23020644?otool=fhcrclib

Mitchell C, Gottsch ML, Liu C, Fredricks DN, Nelson DB. Associations between vaginal bacteria and levels of vaginal defensins in pregnant women. Am J Obstet Gynecol. 2013;208(2):132e.1-7.
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