Jason A. Greenbaum, Ph.D. - Publications

Affiliations: 
2006 Boston University, Boston, MA, United States 
Area:
General Biophysics, Molecular Biology, Biostatistics Biology

30 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2015 Hinz D, Seumois G, Gholami AM, Greenbaum JA, Lane J, White B, Broide DH, Schulten V, Sidney J, Bakhru P, Oseroff C, Wambre E, James EA, Kwok WW, Peters B, et al. Lack of allergy to timothy grass pollen is not a passive phenomenon but associated with allergen-specific modulation of immune reactivity. Clinical and Experimental Allergy : Journal of the British Society For Allergy and Clinical Immunology. PMID 26662458 DOI: 10.1111/cea.12692  0.92
2015 McKinney DM, Fu Z, Le L, Greenbaum JA, Peters B, Sette A. Development and validation of a sample sparing strategy for HLA typing utilizing next generation sequencing. Human Immunology. PMID 26027778 DOI: 10.1016/j.humimm.2015.04.007  0.92
2015 Krause P, Morris V, Greenbaum JA, Park Y, Bjoerheden U, Mikulski Z, Muffley T, Shui JW, Kim G, Cheroutre H, Liu YC, Peters B, Kronenberg M, Murai M. IL-10-producing intestinal macrophages prevent excessive antibacterial innate immunity by limiting IL-23 synthesis. Nature Communications. 6: 7055. PMID 25959063 DOI: 10.1038/ncomms8055  0.92
2015 Plummer E, Buck MD, Sanchez M, Greenbaum JA, Turner J, Grewal R, Klose B, Sampath A, Warfield KL, Peters B, Ramstedt U, Shresta S. Dengue Virus Evolution under a Host-Targeted Antiviral. Journal of Virology. 89: 5592-601. PMID 25762732 DOI: 10.1128/JVI.00028-15  0.92
2015 Trolle T, Metushi IG, Greenbaum JA, Kim Y, Sidney J, Lund O, Sette A, Peters B, Nielsen M. Automated benchmarking of peptide-MHC class I binding predictions. Bioinformatics (Oxford, England). 31: 2174-81. PMID 25717196 DOI: 10.1093/bioinformatics/btv123  0.92
2015 Lindestam Arlehamn CS, Paul S, Mele F, Huang C, Greenbaum JA, Vita R, Sidney J, Peters B, Sallusto F, Sette A. Immunological consequences of intragenus conservation of Mycobacterium tuberculosis T-cell epitopes. Proceedings of the National Academy of Sciences of the United States of America. 112: E147-55. PMID 25548174 DOI: 10.1073/pnas.1416537112  0.92
2015 Vita R, Overton JA, Greenbaum JA, Ponomarenko J, Clark JD, Cantrell JR, Wheeler DK, Gabbard JL, Hix D, Sette A, Peters B. The immune epitope database (IEDB) 3.0. Nucleic Acids Research. 43: D405-12. PMID 25300482 DOI: 10.1093/Nar/Gku938  0.92
2015 Westernberg L, Schulten V, Greenbaum JA, Natali S, Tripple V, McKinney DM, Frazier A, Hofer H, Wallner M, Sallusto F, Sette A, Peters B. T-cell epitope conservation across allergen species is a major determinant of immunogenicity Journal of Allergy and Clinical Immunology. DOI: 10.1016/j.jaci.2015.11.034  0.92
2013 Calis JJ, Maybeno M, Greenbaum JA, Weiskopf D, De Silva AD, Sette A, Keşmir C, Peters B. Properties of MHC class I presented peptides that enhance immunogenicity. Plos Computational Biology. 9: e1003266. PMID 24204222 DOI: 10.1371/journal.pcbi.1003266  0.92
2013 Vita R, Overton JA, Greenbaum JA, Sette A, Peters B. Query enhancement through the practical application of ontology: the IEDB and OBI. Journal of Biomedical Semantics. 4: S6. PMID 23734660 DOI: 10.1186/2041-1480-4-S1-S6  0.92
2013 Weiskopf D, Angelo MA, de Azeredo EL, Sidney J, Greenbaum JA, Fernando AN, Broadwater A, Kolla RV, De Silva AD, de Silva AM, Mattia KA, Doranz BJ, Grey HM, Shresta S, Peters B, et al. Comprehensive analysis of dengue virus-specific responses supports an HLA-linked protective role for CD8+ T cells. Proceedings of the National Academy of Sciences of the United States of America. 110: E2046-53. PMID 23580623 DOI: 10.1073/pnas.1305227110  0.92
2013 Schulten V, Greenbaum JA, Hauser M, McKinney DM, Sidney J, Kolla R, Lindestam Arlehamn CS, Oseroff C, Alam R, Broide DH, Ferreira F, Ferreira-Briza F, Grey HM, Sette A, Peters B. Previously undescribed grass pollen antigens are the major inducers of T helper 2 cytokine-producing T cells in allergic individuals. Proceedings of the National Academy of Sciences of the United States of America. 110: 3459-64. PMID 23401558 DOI: 10.1073/pnas.1300512110  0.92
2013 Lindestam Arlehamn CS, Gerasimova A, Mele F, Henderson R, Swann J, Greenbaum JA, Kim Y, Sidney J, James EA, Taplitz R, McKinney DM, Kwok WW, Grey H, Sallusto F, Peters B, et al. Memory T cells in latent Mycobacterium tuberculosis infection are directed against three antigenic islands and largely contained in a CXCR3+CCR6+ Th1 subset. Plos Pathogens. 9: e1003130. PMID 23358848 DOI: 10.1371/journal.ppat.1003130  0.92
2013 Overton JA, Vita R, Greenbaum JA, Dietze H, Sette A, Peters B. A taxonomy for immunologists Ceur Workshop Proceedings. 1060: 124.  0.92
2012 Bandukwala HS, Gagnon J, Togher S, Greenbaum JA, Lamperti ED, Parr NJ, Molesworth AM, Smithers N, Lee K, Witherington J, Tough DF, Prinjha RK, Peters B, Rao A. Selective inhibition of CD4+ T-cell cytokine production and autoimmunity by BET protein and c-Myc inhibitors. Proceedings of the National Academy of Sciences of the United States of America. 109: 14532-7. PMID 22912406 DOI: 10.1073/Pnas.1212264109  0.92
2012 Oseroff C, Sidney J, Vita R, Tripple V, McKinney DM, Southwood S, Brodie TM, Sallusto F, Grey H, Alam R, Broide D, Greenbaum JA, Kolla R, Peters B, Sette A. T cell responses to known allergen proteins are differently polarized and account for a variable fraction of total response to allergen extracts. Journal of Immunology (Baltimore, Md. : 1950). 189: 1800-11. PMID 22786768 DOI: 10.4049/jimmunol.1200850  0.92
2012 Arlehamn CS, Sidney J, Henderson R, Greenbaum JA, James EA, Moutaftsi M, Coler R, McKinney DM, Park D, Taplitz R, Kwok WW, Grey H, Peters B, Sette A. Dissecting mechanisms of immunodominance to the common tuberculosis antigens ESAT-6, CFP10, Rv2031c (hspX), Rv2654c (TB7.7), and Rv1038c (EsxJ). Journal of Immunology (Baltimore, Md. : 1950). 188: 5020-31. PMID 22504645 DOI: 10.4049/jimmunol.1103556  0.92
2011 Weiskopf D, Yauch LE, Angelo MA, John DV, Greenbaum JA, Sidney J, Kolla RV, De Silva AD, de Silva AM, Grey H, Peters B, Shresta S, Sette A. Insights into HLA-restricted T cell responses in a novel mouse model of dengue virus infection point toward new implications for vaccine design. Journal of Immunology (Baltimore, Md. : 1950). 187: 4268-79. PMID 21918184 DOI: 10.4049/jimmunol.1101970  0.92
2010 Greenbaum JA, Assarsson E, Chung JL, Head S, Sette A, Peters B. TiArA: a virtual appliance for the analysis of Tiling Array data. Plos One. 5: e9993. PMID 20376318 DOI: 10.1371/journal.pone.0009993  0.92
2010 Vita R, Zarebski L, Greenbaum JA, Emami H, Hoof I, Salimi N, Damle R, Sette A, Peters B. The immune epitope database 2.0. Nucleic Acids Research. 38: D854-62. PMID 19906713 DOI: 10.1093/nar/gkp1004  0.92
2009 Kotturi MF, Botten J, Sidney J, Bui HH, Giancola L, Maybeno M, Babin J, Oseroff C, Pasquetto V, Greenbaum JA, Peters B, Ting J, Do D, Vang L, Alexander J, et al. A multivalent and cross-protective vaccine strategy against arenaviruses associated with human disease. Plos Pathogens. 5: e1000695. PMID 20019801 DOI: 10.1371/Journal.Ppat.1000695  0.92
2009 Greenbaum JA, Kotturi MF, Kim Y, Oseroff C, Vaughan K, Salimi N, Vita R, Ponomarenko J, Scheuermann RH, Sette A, Peters B. Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population. Proceedings of the National Academy of Sciences of the United States of America. 106: 20365-70. PMID 19918065 DOI: 10.1073/Pnas.0911580106  0.92
2008 Assarsson E, Greenbaum JA, Sundström M, Schaffer L, Hammond JA, Pasquetto V, Oseroff C, Hendrickson RC, Lefkowitz EJ, Tscharke DC, Sidney J, Grey HM, Head SR, Peters B, Sette A. Kinetic analysis of a complete poxvirus transcriptome reveals an immediate-early class of genes. Proceedings of the National Academy of Sciences of the United States of America. 105: 2140-5. PMID 18245380 DOI: 10.1073/pnas.0711573105  0.92
2008 Assarsson E, Greenbaum JA, Sundström M, Schaffer L, Hammond JA, Pasquetto V, Oseroff C, Hendrickson RC, Lefkowitz EJ, Tscharke DC, Sidney J, Grey H, Head SR, Peters B, Sette A. Reply to Satheshkumar and Moss: Poxvirus transcriptome analysis Proceedings of the National Academy of Sciences of the United States of America. 105: E63-E64. DOI: 10.1073/pnas.0805191105  0.92
2008 Assarsson E, Greenbaum JA, Sundström M, Schaffer L, Hammond JA, Pasquetto V, Oseroff C, Hendrickson RC, Lefkowitz EJ, Tscharke DC, Sidney J, Grey HM, Head SR, Peters B, Sette A. Kinetic analysis of a complete poxvirus transcriptome reveals an immediate-early class of genes (Proceedings of the National Academy of Sciences of the United States of America (2008) 105, (2140-2145) 10.1073/pnas.0711573105) Proceedings of the National Academy of Sciences of the United States of America. 105: 6787. DOI: 10.1073/pnas.0803050105  0.92
2007 Birney E, Stamatoyannopoulos JA, Dutta A, Guigó R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET, Thurman RE, Kuehn MS, Taylor CM, Neph S, Koch CM, ... ... Greenbaum JA, et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature. 447: 799-816. PMID 17571346 DOI: 10.1038/Nature05874  0.92
2007 Greenbaum JA, Pang B, Tullius TD. Construction of a genome-scale structural map at single-nucleotide resolution. Genome Research. 17: 947-53. PMID 17568010 DOI: 10.1101/Gr.6073107  0.92
2007 Greenbaum JA, Parker SC, Tullius TD. Detection of DNA structural motifs in functional genomic elements. Genome Research. 17: 940-6. PMID 17568009 DOI: 10.1101/Gr.5602807  0.92
2007 Greenbaum JA, Andersen PH, Blythe M, Bui HH, Cachau RE, Crowe J, Davies M, Kolaskar AS, Lund O, Morrison S, Mumey B, Ofran Y, Pellequer JL, Pinilla C, Ponomarenko JV, et al. Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools. Journal of Molecular Recognition : Jmr. 20: 75-82. PMID 17205610 DOI: 10.1002/Jmr.815  0.92
2005 Tullius TD, Greenbaum JA. Mapping nucleic acid structure by hydroxyl radical cleavage. Current Opinion in Chemical Biology. 9: 127-34. PMID 15811796 DOI: 10.1016/J.Cbpa.2005.02.009  0.92
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