| Year |
Citation |
Score |
| 2011 |
Rolland M, Frahm N, Nickle DC, Jojic N, Deng W, Allen TM, Brander C, Heckerman DE, Mullins JI. Increased breadth and depth of cytotoxic T lymphocytes responses against HIV-1-B Nef by inclusion of epitope variant sequences. Plos One. 6: e17969. PMID 21464919 DOI: 10.1371/Journal.Pone.0017969 |
0.662 |
|
| 2010 |
Deng W, Maust BS, Nickle DC, Learn GH, Liu Y, Heath L, Kosakovsky Pond SL, Mullins JI. DIVEIN: a web server to analyze phylogenies, sequence divergence, diversity, and informative sites. Biotechniques. 48: 405-8. PMID 20569214 DOI: 10.2144/000113370 |
0.439 |
|
| 2009 |
Campbell MS, Gottlieb GS, Hawes SE, Nickle DC, Wong KG, Deng W, Lampinen TM, Kiviat NB, Mullins JI. HIV-1 superinfection in the antiretroviral therapy era: are seroconcordant sexual partners at risk? Plos One. 4: e5690. PMID 19479055 DOI: 10.1371/Journal.Pone.0005690 |
0.602 |
|
| 2009 |
Rousseau CM, Lockhart DW, Listgarten J, Maley SN, Kadie C, Learn GH, Nickle DC, Heckerman DE, Deng W, Brander C, Ndung'u T, Coovadia H, Goulder PJ, Korber BT, Walker BD, et al. Rare HLA drive additional HIV evolution compared to more frequent alleles. Aids Research and Human Retroviruses. 25: 297-303. PMID 19327049 DOI: 10.1089/Aid.2008.0208 |
0.598 |
|
| 2009 |
Rolland MM, Swain VJ, Lanxon-Cookson E, Rao U, Henry KR, Arts EJ, Nickle DC, Mullins JI. P17-14. Fitness-informed HIV-1 Gag-p24 vaccine design Retrovirology. 6. DOI: 10.1186/1742-4690-6-S3-P296 |
0.576 |
|
| 2008 |
Nickle DC, Jojic N, Heckerman D, Jojic V, Kirovski D, Rolland M, Kosakovsky Pond S, Mullins JI. Comparison of immunogen designs that optimize peptide coverage: reply to Fischer et al. Plos Computational Biology. 4: e25. PMID 18463692 DOI: 10.1371/Journal.Pcbi.0040025 |
0.49 |
|
| 2008 |
Rousseau CM, Daniels MG, Carlson JM, Kadie C, Crawford H, Prendergast A, Matthews P, Payne R, Rolland M, Raugi DN, Maust BS, Learn GH, Nickle DC, Coovadia H, Ndung'u T, et al. HLA class I-driven evolution of human immunodeficiency virus type 1 subtype c proteome: immune escape and viral load. Journal of Virology. 82: 6434-46. PMID 18434400 DOI: 10.1128/Jvi.02455-07 |
0.631 |
|
| 2008 |
Diem K, Nickle DC, Motoshige A, Fox A, Ross S, Mullins JI, Corey L, Coombs RW, Krieger JN. Male genital tract compartmentalization of human immunodeficiency virus type 1 (HIV). Aids Research and Human Retroviruses. 24: 561-71. PMID 18426336 DOI: 10.1089/Aid.2007.0115 |
0.658 |
|
| 2008 |
Gottlieb GS, Heath L, Nickle DC, Wong KG, Leach SE, Jacobs B, Gezahegne S, van 't Wout AB, Jacobson LP, Margolick JB, Mullins JI. HIV-1 variation before seroconversion in men who have sex with men: analysis of acute/early HIV infection in the multicenter AIDS cohort study. The Journal of Infectious Diseases. 197: 1011-5. PMID 18419538 DOI: 10.1086/529206 |
0.689 |
|
| 2008 |
Sylla M, Chamberland A, Boileau C, Traoré HA, Ag-Aboubacrine S, Cissé M, Koala S, Drabo J, Diallo I, Niamba P, Tremblay-Sher D, Machouf N, Rashed S, Nickle DC, Nguyen VK, et al. Characterization of drug resistance in antiretroviral-treated patients infected with HIV-1 CRF02_AG and AGK subtypes in Mali and Burkina Faso. Antiviral Therapy. 13: 141-8. PMID 18389909 |
0.343 |
|
| 2008 |
Frahm N, Nickle DC, Linde CH, Cohen DE, Zuñiga R, Lucchetti A, Roach T, Walker BD, Allen TM, Korber BT, Mullins JI, Brander C. Increased detection of HIV-specific T cell responses by combination of central sequences with comparable immunogenicity. Aids (London, England). 22: 447-56. PMID 18301057 DOI: 10.1097/Qad.0B013E3282F42412 |
0.624 |
|
| 2008 |
Ngumbela KC, Day CL, Mncube Z, Nair K, Ramduth D, Thobakgale C, Moodley E, Reddy S, De Pierres C, Mkhwanazi N, Bishop K, Van Der Stok M, Ismail N, Honeyborne I, Crawford H, ... ... Nickle D, et al. Targeting of a CD8 T cell env epitope presented by HLA-B*5802 is associated with markers of HIV disease progression and lack of selection pressure Aids Research and Human Retroviruses. 24: 72-82. PMID 18275350 DOI: 10.1089/Aid.2007.0124 |
0.618 |
|
| 2008 |
Chun TW, Nickle DC, Justement JS, Meyers JH, Roby G, Hallahan CW, Kottilil S, Moir S, Mican JM, Mullins JI, Ward DJ, Kovacs JA, Mannon PJ, Fauci AS. Persistence of HIV in gut-associated lymphoid tissue despite long-term antiretroviral therapy. The Journal of Infectious Diseases. 197: 714-20. PMID 18260759 DOI: 10.1086/527324 |
0.685 |
|
| 2008 |
Nickle DC, Jojic N, Heckerman D, Jojic V, Kirovski D, Rolland M, Kosakovsky Pond S, Mullins JI. Correction: Comparison of Immunogen Designs That Optimize Peptide Coverage: Reply to Fischer et al Plos Computational Biology. 4. DOI: 10.1371/Annotation/Da2Fae86-8F92-4D32-Aefe-A30A1De7A8F8 |
0.391 |
|
| 2007 |
Rolland M, Nickle DC, Mullins JI. HIV-1 group M conserved elements vaccine. Plos Pathogens. 3: e157. PMID 18052528 DOI: 10.1371/Journal.Ppat.0030157 |
0.673 |
|
| 2007 |
Rolland M, Nickle DC, Deng W, Frahm N, Brander C, Learn GH, Heckerman D, Jojic N, Jojic V, Walker BD, Mullins JI. Recognition of HIV-1 peptides by host CTL is related to HIV-1 similarity to human proteins. Plos One. 2: e823. PMID 17786195 DOI: 10.1371/Journal.Pone.0000823 |
0.685 |
|
| 2007 |
Rolland M, Brander C, Nickle DC, Herbeck JT, Gottlieb GS, Campbell MS, Maust BS, Mullins JI. HIV-1 over time: fitness loss or robustness gain? Nature Reviews. Microbiology. 5: C1. PMID 17703224 DOI: 10.1038/Nrmicro1594-C1 |
0.629 |
|
| 2007 |
Gottlieb GS, Nickle DC, Jensen MA, Wong KG, Kaslow RA, Shepherd JC, Margolick JB, Mullins JI. HIV type 1 superinfection with a dual-tropic virus and rapid progression to AIDS: a case report. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. 45: 501-9. PMID 17638203 DOI: 10.1086/520024 |
0.695 |
|
| 2007 |
Deng W, Nickle DC, Learn GH, Maust B, Mullins JI. ViroBLAST: a stand-alone BLAST web server for flexible queries of multiple databases and user's datasets. Bioinformatics (Oxford, England). 23: 2334-6. PMID 17586542 DOI: 10.1093/Bioinformatics/Btm331 |
0.46 |
|
| 2007 |
Nickle DC, Heath L, Jensen MA, Gilbert PB, Mullins JI, Kosakovsky Pond SL. HIV-specific probabilistic models of protein evolution. Plos One. 2: e503. PMID 17551583 DOI: 10.1371/Journal.Pone.0000503 |
0.629 |
|
| 2007 |
Rolland M, Jensen MA, Nickle DC, Yan J, Learn GH, Heath L, Weiner D, Mullins JI. Reconstruction and function of ancestral center-of-tree human immunodeficiency virus type 1 proteins. Journal of Virology. 81: 8507-14. PMID 17537854 DOI: 10.1128/Jvi.02683-06 |
0.683 |
|
| 2007 |
Nickle DC, Rolland M, Jensen MA, Pond SL, Deng W, Seligman M, Heckerman D, Mullins JI, Jojic N. Coping with viral diversity in HIV vaccine design. Plos Computational Biology. 3: e75. PMID 17465674 DOI: 10.1371/Journal.Pcbi.0030075 |
0.696 |
|
| 2007 |
Bhattacharya T, Daniels M, Heckerman D, Foley B, Frahm N, Kadie C, Carlson J, Yusim K, McMahon B, Gaschen B, Mallal S, Mullins JI, Nickle DC, Herbeck J, Rousseau C, et al. Founder effects in the assessment of HIV polymorphisms and HLA allele associations. Science (New York, N.Y.). 315: 1583-6. PMID 17363674 DOI: 10.1126/Science.1131528 |
0.615 |
|
| 2007 |
Gottlieb GS, Hawes SE, Nickle DC, Herbeck JT, Kiviat NB, Mullins JI, Sow PS. Presenting plasma HIV RNA level and rate of CD4 T-cell decline. Jama. 297: 805; author reply 80. PMID 17327518 DOI: 10.1001/Jama.297.8.805-A |
0.58 |
|
| 2007 |
Rousseau CM, Learn GH, Bhattacharya T, Nickle DC, Heckerman D, Chetty S, Brander C, Goulder PJ, Walker BD, Kiepiela P, Korber BT, Mullins JI. Extensive intrasubtype recombination in South African human immunodeficiency virus type 1 subtype C infections. Journal of Virology. 81: 4492-500. PMID 17314156 DOI: 10.1128/Jvi.02050-06 |
0.641 |
|
| 2007 |
Stekler J, Maenza J, Stevens CE, Swenson PD, Coombs RW, Wood RW, Campbell MS, Nickle DC, Collier AC, Golden MR. Screening for acute HIV infection: lessons learned. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. 44: 459-61. PMID 17205460 DOI: 10.1086/510747 |
0.541 |
|
| 2007 |
Kiepiela P, Ngumbela K, Thobakgale C, Ramduth D, Honeyborne I, Moodley E, Reddy S, de Pierres C, Mncube Z, Mkhwanazi N, Bishop K, van der Stok M, Nair K, Khan N, Crawford H, ... ... Nickle D, et al. CD8+ T-cell responses to different HIV proteins have discordant associations with viral load. Nature Medicine. 13: 46-53. PMID 17173051 DOI: 10.1038/Nm1520 |
0.668 |
|
| 2006 |
Ross HA, Nickle DC, Liu Y, Heath L, Jensen MA, Rodrigo AG, Mullins JI. Sources of variation in ancestral sequence reconstruction for HIV-1 envelope genes. Evolutionary Bioinformatics Online. 2: 53-76. PMID 19455202 DOI: 10.4137/Ebo.S0 |
0.517 |
|
| 2006 |
Liu Y, McNevin J, Cao J, Zhao H, Genowati I, Wong K, McLaughlin S, McSweyn MD, Diem K, Stevens CE, Maenza J, He H, Nickle DC, Shriner D, Holte SE, et al. Selection on the human immunodeficiency virus type 1 proteome following primary infection. Journal of Virology. 80: 9519-29. PMID 16973556 DOI: 10.1128/Jvi.00575-06 |
0.733 |
|
| 2006 |
Shriner D, Liu Y, Nickle DC, Mullins JI. Evolution of intrahost HIV-1 genetic diversity during chronic infection. Evolution; International Journal of Organic Evolution. 60: 1165-76. PMID 16892967 DOI: 10.1554/05-473.1 |
0.761 |
|
| 2006 |
Herbeck JT, Nickle DC, Learn GH, Gottlieb GS, Curlin ME, Heath L, Mullins JI. Human immunodeficiency virus type 1 env evolves toward ancestral states upon transmission to a new host. Journal of Virology. 80: 1637-44. PMID 16439520 DOI: 10.1128/Jvi.80.4.1637-1644.2006 |
0.696 |
|
| 2005 |
Chun TW, Nickle DC, Justement JS, Large D, Semerjian A, Curlin ME, O'Shea MA, Hallahan CW, Daucher M, Ward DJ, Moir S, Mullins JI, Kovacs C, Fauci AS. HIV-infected individuals receiving effective antiviral therapy for extended periods of time continually replenish their viral reservoir. The Journal of Clinical Investigation. 115: 3250-5. PMID 16276421 DOI: 10.1172/Jci26197 |
0.598 |
|
| 2005 |
Doria-Rose NA, Learn GH, Rodrigo AG, Nickle DC, Li F, Mahalanabis M, Hensel MT, McLaughlin S, Edmonson PF, Montefiori D, Barnett SW, Haigwood NL, Mullins JI. Human immunodeficiency virus type 1 subtype B ancestral envelope protein is functional and elicits neutralizing antibodies in rabbits similar to those elicited by a circulating subtype B envelope. Journal of Virology. 79: 11214-24. PMID 16103173 DOI: 10.1128/Jvi.79.17.11214-11224.2005 |
0.692 |
|
| 2005 |
Gottlieb GS, Nickle DC. Multidrug-resistant, dual-tropic HIV-1 and rapid progression. Lancet. 365: 1923-4; author reply. PMID 15936412 DOI: 10.1016/S0140-6736(05)66651-2 |
0.468 |
|
| 2004 |
Liu Y, Nickle DC, Shriner D, Jensen MA, Learn GH, Mittler JE, Mullins JI. Molecular clock-like evolution of human immunodeficiency virus type 1. Virology. 329: 101-8. PMID 15476878 DOI: 10.1016/J.Virol.2004.08.014 |
0.721 |
|
| 2004 |
Shriner D, Rodrigo AG, Nickle DC, Mullins JI. Pervasive genomic recombination of HIV-1 in vivo. Genetics. 167: 1573-83. PMID 15342499 DOI: 10.1534/Genetics.103.023382 |
0.767 |
|
| 2004 |
Mullins JI, Nickle DC, Heath L, Rodrigo AG, Learn GH. Immunogen sequence: the fourth tier of AIDS vaccine design. Expert Review of Vaccines. 3: S151-9. PMID 15285713 DOI: 10.1586/14760584.3.4.S151 |
0.617 |
|
| 2004 |
Fulcher JA, Hwangbo Y, Zioni R, Nickle D, Lin X, Heath L, Mullins JI, Corey L, Zhu T. Compartmentalization of human immunodeficiency virus type 1 between blood monocytes and CD4+ T cells during infection. Journal of Virology. 78: 7883-93. PMID 15254161 DOI: 10.1128/Jvi.78.15.7883-7893.2004 |
0.634 |
|
| 2004 |
Shriner D, Shankarappa R, Jensen MA, Nickle DC, Mittler JE, Margolick JB, Mullins JI. Influence of random genetic drift on human immunodeficiency virus type 1 env evolution during chronic infection. Genetics. 166: 1155-64. PMID 15082537 DOI: 10.1534/Genetics.166.3.1155 |
0.735 |
|
| 2004 |
Gottlieb GS, Nickle DC, Jensen MA, Wong KG, Grobler J, Li F, Liu SL, Rademeyer C, Learn GH, Karim SS, Williamson C, Corey L, Margolick JB, Mullins JI. Dual HIV-1 infection associated with rapid disease progression. Lancet (London, England). 363: 619-22. PMID 14987889 DOI: 10.1016/S0140-6736(04)15596-7 |
0.68 |
|
| 2003 |
Jensen MA, Li FS, van 't Wout AB, Nickle DC, Shriner D, He HX, McLaughlin S, Shankarappa R, Margolick JB, Mullins JI. Improved coreceptor usage prediction and genotypic monitoring of R5-to-X4 transition by motif analysis of human immunodeficiency virus type 1 env V3 loop sequences. Journal of Virology. 77: 13376-88. PMID 14645592 DOI: 10.1128/Jvi.77.24.13376-13388.2003 |
0.727 |
|
| 2003 |
Nickle DC, Shriner D, Mittler JE, Frenkel LM, Mullins JI. Importance and detection of virus reservoirs and compartments of HIV infection. Current Opinion in Microbiology. 6: 410-6. PMID 12941414 DOI: 10.1016/S1369-5274(03)00096-1 |
0.748 |
|
| 2003 |
Shriner D, Nickle DC, Jensen MA, Mullins JI. Potential impact of recombination on sitewise approaches for detecting positive natural selection. Genetical Research. 81: 115-21. PMID 12872913 DOI: 10.1017/S0016672303006128 |
0.651 |
|
| 2003 |
Nickle DC, Jensen MA, Shriner D, Brodie SJ, Frenkel LM, Mittler JE, Mullins JI. Evolutionary indicators of human immunodeficiency virus type 1 reservoirs and compartments. Journal of Virology. 77: 5540-6. PMID 12692259 DOI: 10.1128/Jvi.77.9.5540-5546.2003 |
0.695 |
|
| 2003 |
Nickle DC, Jensen MA, Gottlieb GS, Shriner D, Learn GH, Rodrigo AG, Mullins JI. Consensus and ancestral state HIV vaccines. Science (New York, N.Y.). 299: 1515-8; author reply. PMID 12624248 DOI: 10.1126/Science.299.5612.1515C |
0.723 |
|
| 2003 |
Dybul M, Daucher M, Jensen MA, Hallahan CW, Chun TW, Belson M, Hidalgo B, Nickle DC, Yoder C, Metcalf JA, Davey RT, Ehler L, Kress-Rock D, Nies-Kraske E, Liu S, et al. Genetic characterization of rebounding human immunodeficiency virus type 1 in plasma during multiple interruptions of highly active antiretroviral therapy. Journal of Virology. 77: 3229-37. PMID 12584346 DOI: 10.1128/Jvi.77.5.3229-3237.2003 |
0.662 |
|
| 2002 |
Liu SL, Mittler JE, Nickle DC, Mulvania TM, Shriner D, Rodrigo AG, Kosloff B, He X, Corey L, Mullins JI. Selection for human immunodeficiency virus type 1 recombinants in a patient with rapid progression to AIDS. Journal of Virology. 76: 10674-84. PMID 12368309 DOI: 10.1128/Jvi.76.21.10674-10684.2002 |
0.756 |
|
| 2002 |
Malaspina A, Moir S, Nickle DC, Donoghue ET, Ogwaro KM, Ehler LA, Liu S, Mican JA, Dybul M, Chun TW, Mullins JI, Fauci AS. Human immunodeficiency virus type 1 bound to B cells: relationship to virus replicating in CD4+ T cells and circulating in plasma. Journal of Virology. 76: 8855-63. PMID 12163605 DOI: 10.1128/Jvi.76.17.8855-8863.2002 |
0.614 |
|
| 2002 |
Zhu T, Muthui D, Holte S, Nickle D, Feng F, Brodie S, Hwangbo Y, Mullins JI, Corey L. Evidence for human immunodeficiency virus type 1 replication in vivo in CD14+ monocytes and its potential role as a source of virus in patients on highly active antiretroviral therapy Journal of Virology. 76: 707-716. PMID 11752161 DOI: 10.1128/Jvi.76.2.707-716.2002 |
0.67 |
|
| 2002 |
Nickle DC, Learn GH, Rain MW, Mullins JI, Mittler JE. Curiously modern DNA for a "250 million-year-old" bacterium. Journal of Molecular Evolution. 54: 134-7. PMID 11734907 DOI: 10.1007/S00239-001-0025-X |
0.452 |
|
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