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Bjoern Peters

Title(s)Adjunct Professor, Medicine
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Revised Adaptive Immune Receptor Data in the Immune Epitope Database. bioRxiv. 2026 Jun 06. Scheffer L, Richardson EM, Vita R, Zarebski L, Blazeska N, Wheeler DK, Cantrell JR, Deleuran SN, Lees WD, Christley S, Corrie B, Cowell LG, Sette A, Peters B. PMID: 42282728; PMCID: PMC13252180.
      View in: PubMed   Mentions:
    2. Cancer epitope prediction tools and analysis pipelines in CEDAR. Nucleic Acids Res. 2026 May 12. Carri I, Greenbaum J, Yan Z, Kim K, Kim H, Premlal ALR, Marrama D, Blazeska N, Carter H, Lee KH, Sears T, Nielsen M, Sette A, Peters B, Kosaloglu-Yalçin Z. PMID: 42116703.
      View in: PubMed   Mentions:    Fields:    
    3. The Cell Ontology in the age of single-cell omics. Sci Data. 2026 Apr 24. Tan SZK, Puig-Barbe A, Goutte-Gattat D, Eastwood C, Aevermann B, Avola A, Balhoff JP, Bayindir IU, Belfiore J, Caron AR, Fischer DS, George N, Gyori BM, Haendel MA, Hoyt CT, Kir H, Lubiana T, Matentzoglu N, Overton JA, Peng B, Peters B, Quardokus EM, Ray PL, Roncaglia P, Rivera AD, Stefancsik R, Teh WK, Toro S, Vasilevsky N, Xu C, Zhang Y, Scheuermann RH, Mungall CJ, Diehl AD, Osumi-Sutherland D. PMID: 42031777.
      View in: PubMed   Mentions:    Fields:    
    4. NetMHCIIphosPan: A Machine Learning Tool for Predicting HLA Class II Antigen Presentation of Phosphorylated Peptides. J Proteome Res. 2026 May 01; 25(5):2529-2545. Garcia Alvarez HM, Kaabinejadian S, Yari H, Shepherd CM, Hildebrand WH, Sette A, Peters B, Parker R, Ternette N, Nielsen M. PMID: 41994856.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    5. Peptide-driven identification of TCRs reveals dynamics and phenotypes of CD4 T cells in tuberculosis. J Immunol. 2026 Feb 09; 215(2). Tippalagama R, Trevizani R, Chihab LY, Chawla A, Fung K, Greenbaum J, Kearns K, De Silva AD, Gunasinghe W, Perera J, Gunasekara H, Senevirathne DD, Scriba T, Sette A, Lindestam Arlehamn C, Burel JG, Peters B. PMID: 41241821; PMCID: PMC12718515.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    6. An intranasal adenoviral-vectored vaccine protects against highly pathogenic avian influenza H5N1 in naive and antigen-experienced animals. Cell Rep Med. 2026 Feb 17; 7(2):102582. Ying B, Pyles K, Darling TL, Seehra K, Pham T, Huang LC, Harastani HH, Sharma A, Desai P, Kashentseva EA, Curiel DT, Peters B, Case JB, Strauch EM, Diamond MS, Boon ACM. PMID: 41619721; PMCID: PMC12923973.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCellsPHPublic Health
    7. Mycobacterium tuberculosis-specific blood immune signatures distinguish sarcoidosis from tuberculosis disease. J Immunol. 2026 Jan 21; 215(1). Chihab LY, Cheng C, Hillman H, Khan N, Kearns K, Mondal M, Wang A, Seumois G, Vijayanand P, Drake WP, Veltkamp M, Janssen Bonás M, van Moorsel CHM, Joosten SA, van Meijgaarden KE, Palmieri F, Petrone L, Aiello A, Goletti D, De Silva AD, Tennekoon R, Dilani D, Scriba T, Fisher M, Luabeya AK, Lindestam Arlehamn CS, Peters B, Burel JG. PMID: 41105206; PMCID: PMC12585110.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    8. Curation at Scale with EPITOME: Extraction Pipeline for Immunological Texts and Open-Source Multimodal Enquiry. bioRxiv. 2026 Jan 09. Richardson E, Lischwe P, Bennett J, Blazeska N, Greenbaum J, Harlan B, Lallmamode N, Marrama D, Talbott M, Vita R, Sette A, Kuether K, Peters B. PMID: 41542539; PMCID: PMC12803164.
      View in: PubMed   Mentions:
    9. NetMHCIIphosPan: a machine learning tool for predicting HLA class II antigen presentation of phosphorylated peptides. bioRxiv. 2026 Jan 05. Alvarez HMG, Kaabinejadian S, Yari H, Shepherd CM, Hildebrand WH, Sette A, Peters B, Parker R, Ternette N, Nielsen M. PMID: 41542563; PMCID: PMC12803180.
      View in: PubMed   Mentions:
    10. Evaluating COVID-19 severity prediction and immune dynamics with NULISAseq: Insights from the IMPACC study. J Immunol. 2025 Dec 01; 214(12):3310-3320. Abe K, Holmes TH, Nguyen TT, IMPACC Network , Kim-Schulze S, Levy O, Baden LR, Melamed E, Ehrlich LIR, McComsey GA, Sekaly RP, Cairns CB, Haddad EK, Shaw AC, Hafler DA, Montgomery RR, Corry DB, Kheradmand F, Atkinson MA, Brakenridge SC, Agudelo Higuita NI, Metcalf JP, Hough CL, Messer WB, Pulendran B, Nadeau KC, Davis MM, Fernandez-Sesma A, Simon V, Kraft M, Bime C, Calfee CS, Erle DJ, Schaenman J, Reed EF, Ozonoff A, Peters B, Kleinstein SH, Augustine AD, Diray-Arce J, Becker PM, Rouphael N, Maecker HT. PMID: 41166719; PMCID: PMC12726064.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    11. Individuals with latent tuberculosis infection display pulmonary airway enrichment and recall recruitment of CD4+ TRM with protective functional phenotypes. Immunohorizons. 2025 Nov 24; 9(12). Jarvela JR, Burel JG, Moyer M, Thiel BA, Aung H, Canaday DH, Peters B, Arlehamn CL, Silver RF. PMID: 41285033; PMCID: PMC12643478.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    12. Minimal immune cell subset differences in a cohort of close contacts of tuberculosis index cases. Tuberculosis (Edinb). 2025 Dec; 155:102707. Panda S, Cheng C, Hillery N, Catanzaro DG, Ciobanu N, Crudu V, Rodwell T, Catanzaro A, Burel JG, Peters B, Lindestam Arlehamn CS. PMID: 41252780.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    13. Enrichment of a CD4-CD8- NK-like cytotoxic Vδ1/3 T cell subset in tuberculosis disease. bioRxiv. 2025 Nov 13. Kearns K, Tippalagama R, Chawla A, Greenbaum J, De Silva AD, Gunasinghe W, Perera J, Gunasekera H, Senevirathne DD, Scriba TJ, Burel JG, Lindestam Arlehamn CS, Peters B. PMID: 41292844; PMCID: PMC12642414.
      View in: PubMed   Mentions:
    14. Minimalistic transcriptomic signatures permit accurate early prediction of COVID-19 mortality. JCI Insight. 2025 Nov 10; 10(21). Narendra R, Lydon EC, Phan HV, Spottiswoode N, Neyton LP, Diray-Arce J, IMPACC Network, COMET Consortium, EARLI Consortium, Becker PM, Kim-Schulze S, Hoch A, Pickering H, van Zalm P, Cairns CB, Altman MC, Augustine AD, Bosinger S, Eckalbar W, Guan L, Doni Jayavelu N, Kleinstein SH, Krammer F, Maecker HT, Ozonoff A, Peters B, Rouphael N, Montgomery RR, Reed E, Schaenman J, Steen H, Levy O, Haller SC, Erle D, Hendrickson CM, Krummel MF, Matthay MA, Woodruff P, Haddad EK, Calfee CS, Langelier CR. PMID: 41212055; PMCID: PMC12643502.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    15. A meta-analysis of experimentally validated neo-epitopes: patterns, biases, and opportunities. Cancer Immunol Immunother. 2025 Nov 06; 74(12):362. Sette A, Carri I, Marrama D, Frentzen A, Mahita J, Blazeska N, Vita R, Nielsen M, Wan YR, Carter H, Schoenberger S, Peters B, Kosaloglu-Yalçin Z. PMID: 41196374; PMCID: PMC12592574.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    16. The Adaptive Immune Receptor Repertoire Knowledge Commons: An invitation to the community. Cell Syst. 2025 Sep 17; 16(9):101401. Cowell LG, Christley S, Breden F, Burns KA, Corrie BD, Lees WD, Overton JA, Peters B, Richardson E, Roskin KM, Scheffer L, Vita R, Watson CT, Yaari G. PMID: 40967183; PMCID: PMC13189698.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimals
    17. A multiomics recovery factor predicts long COVID in the IMPACC study. J Clin Invest. 2025 Nov 03; 135(21). Gabernet G, Maciuch J, Gygi JP, Moore JF, Hoch A, Syphurs C, Chu T, Doni Jayavelu N, Corry DB, Kheradmand F, Baden LR, Sekaly RP, McComsey GA, Haddad EK, Cairns CB, Rouphael N, Fernandez-Sesma A, Simon V, Metcalf JP, Agudelo Higuita NI, Hough CL, Messer WB, Davis MM, Nadeau KC, Pulendran B, Kraft M, Bime C, Reed EF, Schaenman J, Erle DJ, Calfee CS, Atkinson MA, Brakenridge SC, Melamed E, Shaw AC, Hafler DA, Augustine AD, Becker PM, Ozonoff A, Bosinger SE, Eckalbar W, Maecker HT, Kim-Schulze S, Steen H, Krammer F, Westendorf K, IMPACC Network, Peters B, Fourati S, Altman MC, Levy O, Smolen KK, Montgomery RR, Diray-Arce J, Kleinstein SH, Guan L, Ehrlich LI. PMID: 40924481; PMCID: PMC12582403.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    18. The spontaneous neoantigen-specific CD4+ T-cell response to a growing tumor is functionally and phenotypically diverse. J Immunother Cancer. 2025 Sep 04; 13(9). Griswold RQ, Brightman SE, Soria Zavala K, Ordaz-Arias MA, Djassemi N, Thota RR, Naradikian MS, Dose H, Alarcon S, Vijayanand P, Peters B, Miller AM, Cohen EEW, Schoenberger SP. PMID: 40907998; PMCID: PMC12414154.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    19. Is the vaccination-induced B cell receptor repertoire predictable? Immunoinformatics (Amst). 2025 Sep; 19. Richardson E, Willemsen L, Shinde P, Nielsen M, Peters B. PMID: 41311460; PMCID: PMC12657037.
      View in: PubMed   Mentions:
    20. T-cell receptor insights: Determinants of Major Histocompatibility Complex class I versus class II recognition. Protein Sci. 2025 Sep; 34(9):e70262. De Almeida Mendes M, Chihab L, Nilsson JB, Scheffer L, Nielsen M, Peters B. PMID: 40815345; PMCID: PMC12356138.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    21. T cell monocyte complexes exhibit distinct immune signatures during infection. iScience. 2025 Sep 19; 28(9):113432. Kang N, Chawla A, Hillman H, Tippalagama R, Kim C, Mikulski Z, McArdle S, Seumois G, Vijayanand P, Scriba TJ, De Silva AD, Balmaseda A, Harris E, Weiskopf D, Sette A, Arlehamn CL, Peters B, Burel JG. PMID: 40989028; PMCID: PMC12450731.
      View in: PubMed   Mentions:
    22. NetMHCpan-4.2: improved prediction of CD8+ epitopes by use of transfer learning and structural features. Front Immunol. 2025; 16:1616113. Nilsson JB, Greenbaum J, Peters B, Nielsen M. PMID: 40852704; PMCID: PMC12367478.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    23. Minimal immune cell subset differences in a cohort of close contacts of tuberculosis index cases. bioRxiv. 2025 Aug 04. Panda S, Cheng C, Hillery N, Catanzaro DG, Ciobanu N, Crudu V, Rodwell T, Catanzaro A, Burel JG, Peters B, Arlehamn CSL. PMID: 40799590; PMCID: PMC12340800.
      View in: PubMed   Mentions:
    24. MICBG406A polymorphism reduces risk of mechanical ventilation and death during viral acute lung injury. JCI Insight. 2025 Aug 08; 10(15). Pickering H, Alipanah-Lechner N, Chen E, Duchen D, Maecker HT, Kim-Schulze S, Montgomery RR, Cotsapas C, Steen H, Krammer F, Langelier CR, Levy O, Baden LR, Melamed E, Ehrlich LI, McComsey GA, Sekaly RP, Cairns CB, Haddad EK, Shaw AC, Hafler DA, Corry DB, Kheradmand F, Atkinson MA, Brakenridge SC, Higuita NIA, Metcalf JP, Hough CL, Messer WB, Pulendran B, Nadeau KC, Davis MM, Sesma AF, Simon V, Kraft M, Bime C, Erle DJ, Schaenmann J, Ozonoff A, Peters B, Kleinstein SH, Augustine AD, Diray-Arce J, Becker PM, Rouphael N, Altman MC, Bosinger S, Eckalbar W, IMPACC Network, Calfee CS, Aguilar OA, Reed EF, Greenland JR, Calabrese DR. PMID: 40608426; PMCID: PMC12333951.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    25. Empiric Azithromycin in COVID-19 Impacts the Respiratory Microbiome and Antimicrobial Resistome without Anti-inflammatory Benefit. Res Sq. 2025 Jun 20. Langelier C, Glascock A, Maguire C, Van Phan H, Lydon E, Calfee C, Corry D, Kheradmand F, Baden L, Sekaly RP, McComsey G, Haddad E, Cairns C, Pulendran B, Fernandez-Sesma A, Simon V, Metcalf J, Higuita N, Messer W, Davis M, Nadeau KC, Kraft M, Bime C, Schaenman J, Erle D, Atkinson M, Ehrlich LIR, Melamed E, Montgomery R, Shaw A, Hough C, Geng L, Hoch A, Hafler D, Augustine A, Becker P, Peters B, Ozonoff A, Kim-Schulze S, Krammer F, Bosinger S, Eckalbar W, Altman M, Wilson M, Guan L, Maecker H, Steen H, Diray-Arce J, Rouphael N, Kleinstein S, Reed E, Levy O, Chu V. PMID: 40585204; PMCID: PMC12204364.
      View in: PubMed   Mentions:
    26. The Cell Ontology in the age of single-cell omics. ArXiv. 2025 Jun 17. Tan SZK, Puig-Barbe A, Goutte-Gattat D, Eastwood C, Aevermann B, Avola A, Balhoff JP, Bayindir IU, Belfiore J, Caron AR, Fischer DS, George N, Gyori BM, Haendel MA, Hoyt CT, Kir H, Lubiana T, Matentzoglu N, Overton JA, Peng B, Peters B, Quardokus EM, Ray PL, Roncaglia P, Rivera AD, Stefancsik R, Teh WK, Toro S, Vasilevsky N, Xu C, Zhang Y, Scheuermann RH, Mungall CJ, Diehl AD, Osumi-Sutherland D. PMID: 40735089; PMCID: PMC12306828.
      View in: PubMed   Mentions:
    27. AbEpiTope-1.0: Improved antibody target prediction by use of AlphaFold and inverse folding. Sci Adv. 2025 Jun 13; 11(24):eadu1823. Clifford JN, Richardson E, Peters B, Nielsen M. PMID: 40512857; PMCID: PMC12165000.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    28. High-affinity CD16A polymorphism associated with reduced risk ofsevere COVID-19. JCI Insight. 2025 Jul 08; 10(13). Qualls AE, Tsao T, Lui I, Lim SA, Su Y, Chen E, Duchen D, Maecker HT, Kim-Schulze S, Montgomery RR, Krammer F, Langelier CR, Levy O, Baden LR, Melamed E, Ehrlich LI, McComsey GA, Sekaly RP, Cairns CB, Haddad EK, Shaw AC, Hafler DA, Corry DB, Kheradmand F, Atkinson MA, Brakenridge SC, Higuita NIA, Metcalf JP, Hough CL, Messer WB, Pulendran B, Nadeau KC, Davis MM, Fernandez-Sesma A, Simon V, Kraft M, Bime C, Calfee CS, Erle DJ, Schaenmann J, Ozonoff A, Peters B, Kleinstein SH, Augustine AD, Diray-Arce J, Becker PM, Rouphael N, IMPACC Network, Goldman JD, Calabrese DR, Heath JR, Wells JA, Reed EF, Lanier LL, Pickering H, Aguilar OA. PMID: 40402577; PMCID: PMC12306582.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    29. Peptide Driven Identification of TCRs (PDI-TCR) reveals dynamics and phenotypes of CD4 T cells in tuberculosis. bioRxiv. 2025 May 11. Tippalagama R, Trevizani R, Chihab LY, Chawla A, Fung K, Greenbaum J, Kearns K, De Silva AD, Gunasinghe W, Perera J, Gunasekera H, Senevirathne DD, Scriba TJ, Sette A, Arlehamn CSL, Burel JG, Peters B. PMID: 40654739; PMCID: PMC12248119.
      View in: PubMed   Mentions:
    30. Single-cell transcriptional analysis reveals allergen-specific signatures in human γδ T cells. JCI Insight. 2025 Jun 09; 10(11). Kearns K, Lewis SA, Yu ED, Abawi A, Wang E, Maiche S, Mondal M, Vijayanand P, Seumois G, Peters B, Sette A, Da Silva Antunes R. PMID: 40244697; PMCID: PMC12220975.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    31. A global collaboration for systematic analysis of broad-ranging antibodies against the SARS-CoV-2 spike protein. Cell Rep. 2025 04 22; 44(4):115499. Schendel SL, Yu X, Halfmann PJ, Mahita J, Ha B, Hastie KM, Li H, Bedinger D, Troup C, Li K, Kuzmina N, Torrelles JB, Munt JE, Mattocks M, Osei-Twum M, Callaway HM, CoVIC-DB Team, Reece S, Palser A, Kellam P, Dennison SM, Huntwork RHC, Horn GQ, Abraha M, Feeney E, Martinez-Sobrido L, Pino PA, Hicks A, Ye C, Park JG, Maingot B, Periasamy S, Mallory M, Scobey T, Lepage MN, St-Amant N, Khan S, Gambiez A, Coronavirus Immunotherapeutic Consortium, Baric RS, Bukreyev A, Gagnon L, Germann T, Kawaoka Y, Tomaras GD, Peters B, Saphire EO. PMID: 40184253; PMCID: PMC12014896.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    32. Th1 polarization in Bordetella pertussis vaccine responses is maintained through a positive feedback loop. Nat Commun. 2025 Apr 01; 16(1):3132. Willemsen L, Lee J, Shinde P, Soldevila F, Aoki M, Orfield S, Kojima M, da Silva Antunes R, Sette A, Peters B. PMID: 40169665; PMCID: PMC11961675.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCellsPHPublic Health
    33. Putting computational models of immunity to the test-An invited challenge to predict B.pertussis vaccination responses. PLoS Comput Biol. 2025 Mar; 21(3):e1012927. Shinde P, Willemsen L, Anderson M, Aoki M, Basu S, Burel JG, Cheng P, Ghosh Dastidar S, Dunleavy A, Einav T, Forschmiedt J, Fourati S, Garcia J, Gibson W, Greenbaum JA, Guan L, Guan W, Gygi JP, Ha B, Hou J, Hsiao J, Huang Y, Jansen R, Kakoty B, Kang Z, Kobie JJ, Kojima M, Konstorum A, Lee J, Lewis SA, Li A, Lock EF, Mahita J, Mendes M, Meng H, Neher A, Nili S, Olsen LR, Orfield S, Overton JA, Pai N, Parker C, Qian B, Rasmussen M, Reyna J, Richardson E, Safo S, Sorenson J, Srinivasan A, Thrupp N, Tippalagama R, Trevizani R, Ventz S, Wang J, Wu CC, Ay F, Grant B, Kleinstein SH, Peters B. PMID: 40163550; PMCID: PMC11978014.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    34. The spontaneous neoantigen-specific CD4+ T cell response to a growing tumor is functionally and phenotypically diverse. bioRxiv. 2025 Mar 29. Griswold RQ, Brightman SE, Zavala KS, Ordaz-Arias MA, Djassemi N, Thota RR, Naradikian MS, Dose H, Alarcon S, Pandurangan V, Peters B, Miller AM, Cohen EEW, Schoenberger SP. PMID: 40196575; PMCID: PMC11974889.
      View in: PubMed   Mentions:
    35. Standardizing free-text data exemplified by two fields from the Immune Epitope Database. J Biomed Semantics. 2025 03 22; 16(1):5. Duesing S, Bennett J, Overton JA, Vita R, Peters B. PMID: 40121509; PMCID: PMC11929277.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    36. Comparative performance analysis of neoepitope prediction algorithms in head and neck cancer. Front Immunol. 2025; 16:1494453. Chihab LY, Burel JG, Miller AM, Westernberg L, Brown B, Greenbaum J, Korrer MJ, Schoenberger SP, Joyce S, Kim YJ, Kosaloglu-Yalçin Z, Peters B. PMID: 40103827; PMCID: PMC11914794.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    37. Human responses to the DNA prime/chimpanzee adenovirus (ChAd63) boost vaccine identify CSP, AMA1 and TRAP MHC Class I-restricted epitopes. PLoS One. 2025; 20(2):e0318098. Ganeshan H, Huang J, Belmonte M, Belmonte A, Inoue S, Velasco R, Maiolatesi S, Limbach K, Patterson N, Sklar MJ, Soisson L, Epstein JE, Edgel KA, Peters B, Hollingdale MR, Villasante E, Duplessis CA, Sedegah M. PMID: 39946433; PMCID: PMC11825025.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCellsCTClinical Trials
    38. Clinical and immunological outcomes after randomized trial of baked milk oral immunotherapy for milk allergy. JCI Insight. 2025 Jan 09; 10(1). Dantzer JA, Lewis SA, Psoter KJ, Sutherland A, Frazier A, Richardson E, Maiche S, Seumois G, Peters B, Wood RA. PMID: 39782691; PMCID: PMC11721308.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCTClinical Trials
    39. The Immune Epitope Database (IEDB): 2024 update. Nucleic Acids Res. 2025 Jan 06; 53(D1):D436-D443. Vita R, Blazeska N, Marrama D, IEDB Curation Team Members , Duesing S, Bennett J, Greenbaum J, De Almeida Mendes M, Mahita J, Wheeler DK, Cantrell JR, Overton JA, Natale DA, Sette A, Peters B. PMID: 39558162; PMCID: PMC11701597.
      View in: PubMed   Mentions: 65     Fields:    Translation:Humans
    40. Using the Cancer Epitope Database and Analysis Resource (CEDAR). Methods Mol Biol. 2025; 2932:75-91. Kosaloglu-Yalçin Z, Vita R, Blazeska N, Peters B, Sette A. PMID: 40779104; PMCID: PMC12543298.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    41. Targets of influenza human T-cell response are mostly conserved in H5N1. mBio. 2025 02 05; 16(2):e0347924. Sidney J, Kim A-R, de Vries RD, Peters B, Meade PS, Krammer F, Grifoni A, Sette A. PMID: 39714185; PMCID: PMC11796400.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    42. Early antiviral CD4+ and CD8+ T cells are associated with upper airway clearance of SARS-CoV-2. JCI Insight. 2024 Dec 20; 9(24). Ramirez SI, Lopez PG, Faraji F, Parikh UM, Heaps A, Ritz J, Moser C, Eron JJ, Wohl D, Currier J, Daar ES, Greninger A, Klekotka P, Grifoni A, Weiskopf D, Sette A, Peters B, Hughes MD, Chew KW, Smith DM, Crotty S, Accelerating COVID-19 Therapeutic Interventions and Vaccines-2 (ACTIV-2)/A5401 Study Team. PMID: 39704169; PMCID: PMC11665554.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    43. Standardizing Free-Text Data Exemplified by Age and Data-Location Fields in the Immune Epitope Database. Res Sq. 2024 Nov 14. Duesing S, Bennett J, Overton JA, Vita R, Peters B. PMID: 39606440; PMCID: PMC11601825.
      View in: PubMed   Mentions:
    44. Type I interferon signaling in dendritic cells limits direct antigen presentation and CD8+ T cell responses against an arthritogenic alphavirus. mBio. 2024 Dec 11; 15(12):e0293024. Bullock CB, Wang L, Ware BC, Wagoner N, Ohara RA, Liu T-T, Desai P, Peters B, Murphy KM, Handley SA, Morrison TE, Diamond MS. PMID: 39535221; PMCID: PMC11633147.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    45. Th1 polarization in Bordetella pertussis vaccine responses is maintained through a positive feedback loop. bioRxiv. 2024 Oct 17. Willemsen L, Lee J, Shinde P, Soldevila F, Aoki M, Orfield S, Kojima M, Antunes RDS, Sette A, Peters B. PMID: 39149302; PMCID: PMC11326151.
      View in: PubMed   Mentions:
    46. Therapy modulates the response to T cell epitopes over the spectrum of tuberculosis infection. J Infect. 2024 Dec; 89(6):106295. Petrone L, Peruzzu D, Altera AMG, Salmi A, Vanini V, Cuzzi G, Coppola A, Mellini V, Gualano G, Palmieri F, Panda S, Peters B, Sette A, Arlehamn CSL, Goletti D. PMID: 39343243.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    47. A novel method for characterizing cell-cell interactions at single-cell resolution reveals unique signatures in blood T cell-monocyte complexes during infection. bioRxiv. 2024 Sep 23. Kang N, Chawla A, Hillman H, Tippalagama R, Kim C, Mikulski Z, Seumois G, Vijayanand P, Scriba TJ, De Silva AD, Balmaseda A, Harris E, Weiskopf D, Sette A, Arlehamn CL, Peters B, Burel JG. PMID: 39386643; PMCID: PMC11463634.
      View in: PubMed   Mentions:
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    52. Epistasis Between HLA-DRB1*16:02:01 and SLC16A11 T-C-G-T-T Reduces Odds for Type 2 Diabetes in Southwest American Indians. Diabetes. 2024 Jun 01; 73(6):1002-1011. Williams RC, Hanson RL, Peters B, Kearns K, Knowler WC, Bogardus C, Baier LJ. PMID: 38530923; PMCID: PMC11109785.
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    63. The MegaPool Approach to Characterize Adaptive CD4+ and CD8+ T Cell Responses. Curr Protoc. 2023 Nov; 3(11):e934. da Silva Antunes R, Weiskopf D, Sidney J, Rubiro P, Peters B, Lindestam Arlehamn CS, Grifoni A, Sette A. PMID: 37966108; PMCID: PMC10662678.
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    65. A meta-analysis of epitopes in prostate-specific antigens identifies opportunities and knowledge gaps. Hum Immunol. 2023 Nov; 84(11):578-589. Foos G, Blazeska N, Nielsen M, Carter H, Kosaloglu-Yalcin Z, Peters B, Sette A. PMID: 37679223; PMCID: PMC11017785.
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    69. Author Correction: Neoantigen-specific stem cell memory-like CD4+ T cells mediate CD8+ T cell-dependent immunotherapy of MHC class II-negative solid tumors. Nat Immunol. 2023 Aug; 24(8):1391. Brightman SE, Becker A, Thota RR, Naradikian MS, Chihab L, Zavala KS, Ramamoorthy Premlal AL, Griswold RQ, Dolina JS, Cohen EEW, Miller AM, Peters B, Schoenberger SP. PMID: 37464051; PMCID: PMC10382305.
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    100. Transcriptional analysis of peripheral memory T cells reveals Parkinson's disease-specific gene signatures. NPJ Parkinsons Dis. 2022 Mar 21; 8(1):30. Dhanwani R, Lima-Junior JR, Sethi A, Pham J, Williams G, Frazier A, Xu Y, Amara AW, Standaert DG, Goldman JG, Litvan I, Alcalay RN, Peters B, Sulzer D, Arlehamn CSL, Sette A. PMID: 35314697; PMCID: PMC8938520.
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    101. Targeting the tumor mutanome for personalized vaccination in a TMB low non-small cell lung cancer. J Immunother Cancer. 2022 03; 10(3). McCann K, von Witzleben A, Thomas J, Wang C, Wood O, Singh D, Boukas K, Bendjama K, Silvestre N, Nielsen FC, Thomas G, Sanchez-Elsner T, Greenbaum J, Schoenberger S, Peters B, Vijayanand P, Savelyeva N, Ottensmeier C. PMID: 35361728; PMCID: PMC8971766.
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    102. Single-cell eQTL analysis of activated T cell subsets reveals activation and cell type-dependent effects of disease-risk variants. Sci Immunol. 2022 02 25; 7(68):eabm2508. Schmiedel BJ, Gonzalez-Colin C, Fajardo V, Rocha J, Madrigal A, Ramírez-Suástegui C, Bhattacharyya S, Simon H, Greenbaum JA, Peters B, Seumois G, Ay F, Chandra V, Vijayanand P. PMID: 35213211; PMCID: PMC9035271.
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    103. Towards the prediction of non-peptidic epitopes. PLoS Comput Biol. 2022 02; 18(2):e1009151. Zierep PF, Vita R, Blazeska N, Moumbock AFA, Greenbaum JA, Peters B, Günther S. PMID: 35180214; PMCID: PMC8893639.
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    104. Abacavir inhibits but does not cause self-reactivity to HLA-B*57:01-restricted EBV specific T cell receptors. Commun Biol. 2022 02 16; 5(1):133. Sooda A, Rwandamuriye F, Wanjalla CN, Jing L, Koelle DM, Peters B, Leary S, Chopra A, Calderwood MA, Mallal SA, Pavlos R, Watson M, Phillips EJ, Redwood AJ. PMID: 35173258; PMCID: PMC8850454.
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    105. Minimal Information about MHC Multimers (MIAMM). J Immunol. 2022 02 01; 208(3):531-537. Vita R, Mody A, Overton JA, Buus S, Haley ST, Sette A, Mallajosyula V, Davis MM, Long DL, Willis RA, Peters B, Altman JD. PMID: 35042788; PMCID: PMC8830768.
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    106. Combined assessment of MHC binding and antigen abundance improves T cell epitope predictions. iScience. 2022 Feb 18; 25(2):103850. Kosaloglu-Yalçin Z, Lee J, Greenbaum J, Schoenberger SP, Miller A, Kim YJ, Sette A, Nielsen M, Peters B. PMID: 35128348; PMCID: PMC8806398.
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    107. Lack of evidence of significant homology of SARS-CoV-2 spike sequences to myocarditis-associated antigens. EBioMedicine. 2022 Jan; 75:103807. Marrama D, Mahita J, Sette A, Peters B. PMID: 34998242; PMCID: PMC8733122.
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    108. Epitope-Specific T Cell Receptor Data and Tools in the Immune Epitope Database. Methods Mol Biol. 2022; 2574:267-280. Chronister W, Sette A, Peters B. PMID: 36087207.
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    109. CD4+CCR6+ T cells dominate the BCG-induced transcriptional signature. EBioMedicine. 2021 Dec; 74:103746. Singhania A, Dubelko P, Kuan R, Chronister WD, Muskat K, Das J, Phillips EJ, Mallal SA, Seumois G, Vijayanand P, Sette A, Lerm M, Peters B, Lindestam Arlehamn C. PMID: 34902786; PMCID: PMC8671872.
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    110. OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies. Database (Oxford). 2021 10 26; 2021. Jackson R, Matentzoglu N, Overton JA, Vita R, Balhoff JP, Buttigieg PL, Carbon S, Courtot M, Diehl AD, Dooley DM, Duncan WD, Harris NL, Haendel MA, Lewis SE, Natale DA, Osumi-Sutherland D, Ruttenberg A, Schriml LM, Smith B, Stoeckert CJ, Vasilevsky NA, Walls RL, Zheng J, Mungall CJ, Peters B. PMID: 34697637; PMCID: PMC8546234.
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    111. A metric for evaluating biological information in gene sets and its application to identify co-expressed gene clusters in PBMC. PLoS Comput Biol. 2021 10; 17(10):e1009459. Bennett J, Pomaznoy M, Singhania A, Peters B. PMID: 34613979; PMCID: PMC8523066.
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    112. Distinct blood transcriptomic signature of treatment in latent tuberculosis infected individuals at risk of developing active disease. Tuberculosis (Edinb). 2021 12; 131:102127. Burel JG, Singhania A, Dubelko P, Muller J, Tanner R, Parizotto E, Dedicoat M, Fletcher TE, Dunbar J, Cunningham AF, Lindestam Arlehamn CS, Catanzaro DG, Catanzaro A, Rodwell T, McShane H, O'Shea MK, Peters B. PMID: 34555657; PMCID: PMC8629963.
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    113. Comparative analysis of the ex vivo IFN-gamma responses to CD8+ T cell epitopes within allelic forms of PfAMA1 in subjects with natural exposure to malaria. PLoS One. 2021; 16(9):e0257219. Nlinwe ON, Ofori EA, Akyea-Mensah K, Kyei-Baafour E, Ganeshan H, Belmonte M, Peters B, Villasante E, Sedegah M, Kusi KA. PMID: 34506564; PMCID: PMC8432784.
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    114. Comparison of the impact of allelic polymorphisms in PfAMA1 on the induction of T Cell responses in high and low malaria endemic communities in Ghana. Malar J. 2021 Sep 10; 20(1):367. Ofori EA, Tetteh JKA, Frimpong A, Ganeshan H, Belmonte M, Peters B, Villasante E, Sedegah M, Ofori MF, Kusi KA. PMID: 34507582; PMCID: PMC8431259.
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    115. NetTCR-2.0 enables accurate prediction of TCR-peptide binding by using paired TCRα and β sequence data. Commun Biol. 2021 09 10; 4(1):1060. Montemurro A, Schuster V, Povlsen HR, Bentzen AK, Jurtz V, Chronister WD, Crinklaw A, Hadrup SR, Winther O, Peters B, Jessen LE, Nielsen M. PMID: 34508155; PMCID: PMC8433451.
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    116. The Cancer Epitope Database and Analysis Resource: A Blueprint for the Establishment of a New Bioinformatics Resource for Use by the Cancer Immunology Community. Front Immunol. 2021; 12:735609. Kosaloglu-Yalçin Z, Blazeska N, Carter H, Nielsen M, Cohen E, Kufe D, Conejo-Garcia J, Robbins P, Schoenberger SP, Peters B, Sette A. PMID: 34504503; PMCID: PMC8421848.
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    117. Allele-Specific Thresholds of Eluted Ligands for T-Cell Epitope Prediction. Mol Cell Proteomics. 2021; 20:100122. Reardon B, Kosaloglu-Yalçin Z, Paul S, Peters B, Sette A. PMID: 34303001; PMCID: PMC8724920.
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    118. Impact of SARS-CoV-2 variants on the total CD4+ and CD8+ T cell reactivity in infected or vaccinated individuals. Cell Rep Med. 2021 07 20; 2(7):100355. Tarke A, Sidney J, Methot N, Yu ED, Zhang Y, Dan JM, Goodwin B, Rubiro P, Sutherland A, Wang E, Frazier A, Ramirez SI, Rawlings SA, Smith DM, da Silva Antunes R, Peters B, Scheuermann RH, Weiskopf D, Crotty S, Grifoni A, Sette A. PMID: 34230917; PMCID: PMC8249675.
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    119. HLA-DR Marks Recently Divided Antigen-Specific Effector CD4 T Cells in Active Tuberculosis Patients. J Immunol. 2021 07 15; 207(2):523-533. Tippalagama R, Singhania A, Dubelko P, Lindestam Arlehamn CS, Crinklaw A, Pomaznoy M, Seumois G, deSilva AD, Premawansa S, Vidanagama D, Gunasena B, Goonawardhana NDS, Ariyaratne D, Scriba TJ, Gilman RH, Saito M, Taplitz R, Vijayanand P, Sette A, Peters B, Burel JG. PMID: 34193602; PMCID: PMC8516689.
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    120. SARS-CoV-2 human T cell epitopes: Adaptive immune response against COVID-19. Cell Host Microbe. 2021 07 14; 29(7):1076-1092. Grifoni A, Sidney J, Vita R, Peters B, Crotty S, Weiskopf D, Sette A. PMID: 34237248; PMCID: PMC8139264.
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    121. A system-view of Bordetella pertussis booster vaccine responses in adults primed with whole-cell versus acellular vaccine in infancy. JCI Insight. 2021 04 08; 6(7). da Silva Antunes R, Soldevila F, Pomaznoy M, Babor M, Bennett J, Tian Y, Khalil N, Qian Y, Mandava A, Scheuermann RH, Cortese M, Pulendran B, Petro CD, Gilkes AP, Purcell LA, Sette A, Peters B. PMID: 33690224; PMCID: PMC8119213.
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    122. An immunologically friendly classification of non-peptidic ligands. Database (Oxford). 2021 03 27; 2021. Edwards L, Jackson R, Overton JA, Vita R, Blazeska N, Peters B, Sette A. PMID: 33772585; PMCID: PMC8001080.
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    123. TCRMatch: Predicting T-Cell Receptor Specificity Based on Sequence Similarity to Previously Characterized Receptors. Front Immunol. 2021; 12:640725. Chronister WD, Crinklaw A, Mahajan S, Vita R, Kosaloglu-Yalçin Z, Yan Z, Greenbaum JA, Jessen LE, Nielsen M, Christley S, Cowell LG, Sette A, Peters B. PMID: 33777034; PMCID: PMC7991084.
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    124. Negligible impact of SARS-CoV-2 variants on CD4 + and CD8 + T cell reactivity in COVID-19 exposed donors and vaccinees. bioRxiv. 2021 Mar 01. Tarke A, Sidney J, Methot N, Zhang Y, Dan JM, Goodwin B, Rubiro P, Sutherland A, da Silva Antunes R, Frazier A, Rawlings SA, Smith DM, Peters B, Scheuermann RH, Weiskopf D, Crotty S, Grifoni A, Sette A. PMID: 33688655; PMCID: PMC7941626.
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    125. B cells modulate mouse allergen-specific T cells in nonallergic laboratory animal-care workers. JCI Insight. 2021 02 22; 6(4). Yu ED, Westernberg L, Grifoni A, Frazier A, Sutherland A, Wang E, Peters B, da Silva Antunes R, Sette A. PMID: 33616085; PMCID: PMC7934936.
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    126. Functional Analysis of Immune Signature Genes in Th1* Memory Cells Links ISOC1 and Pyrimidine Metabolism to IFN-γ and IL-17 Production. J Immunol. 2021 03 15; 206(6):1181-1193. Kushnareva Y, Mathews IT, Andreyev AY, Altay G, Lindestam Arlehamn CS, Pandurangan V, Nilsson R, Jain M, Sette A, Peters B, Sharma S. PMID: 33547171; PMCID: PMC7946769.
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    127. Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases. Cell Rep Med. 2021 02 16; 2(2):100204. Tarke A, Sidney J, Kidd CK, Dan JM, Ramirez SI, Yu ED, Mateus J, da Silva Antunes R, Moore E, Rubiro P, Methot N, Phillips E, Mallal S, Frazier A, Rawlings SA, Greenbaum JA, Peters B, Smith DM, Crotty S, Weiskopf D, Grifoni A, Sette A. PMID: 33521695; PMCID: PMC7837622.
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    128. Corrigendum: T Cell Responses to Neural Autoantigens Are Similar in Alzheimer's Disease Patients and Age-Matched Healthy Controls. Front Neurosci. 2020; 14:641809. Dhanwani R, Pham J, Premlal ALR, Frazier A, Kumar A, Pero ME, Bartolini F, Dutra JR, Marder KS, Peters B, Sulzer D, Sette A, Lindestam Arlehamn CS. PMID: 33519374; PMCID: PMC7841494.
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    129. The TCR repertoire of α-synuclein-specific T cells in Parkinson's disease is surprisingly diverse. Sci Rep. 2021 01 11; 11(1):302. Singhania A, Pham J, Dhanwani R, Frazier A, Rezende Dutra J, Marder KS, Phillips E, Mallal S, Amara AW, Standaert DG, Sulzer D, Peters B, Sette A, Lindestam Arlehamn CS. PMID: 33432042; PMCID: PMC7801678.
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    130. Immunological memory to SARS-CoV-2 assessed for up to 8 months after infection. Science. 2021 02 05; 371(6529). Dan JM, Mateus J, Kato Y, Hastie KM, Yu ED, Faliti CE, Grifoni A, Ramirez SI, Haupt S, Frazier A, Nakao C, Rayaprolu V, Rawlings SA, Peters B, Krammer F, Simon V, Saphire EO, Smith DM, Weiskopf D, Sette A, Crotty S. PMID: 33408181; PMCID: PMC7919858.
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    131. Promoter-interacting expression quantitative trait loci are enriched for functional genetic variants. Nat Genet. 2021 01; 53(1):110-119. Chandra V, Bhattacharyya S, Schmiedel BJ, Madrigal A, Gonzalez-Colin C, Fotsing S, Crinklaw A, Seumois G, Mohammadi P, Kronenberg M, Peters B, Ay F, Vijayanand P. PMID: 33349701; PMCID: PMC8053422.
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    135. Comparison of HLA ligand elution data and binding predictions reveals varying prediction performance for the multiple motifs recognized by HLA-DQ2.5. Immunology. 2021 02; 162(2):235-247. Kosaloglu-Yalçin Z, Sidney J, Chronister W, Peters B, Sette A. PMID: 33064841; PMCID: PMC7808151.
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    136. Epitope prediction and identification- adaptive T cell responses in humans. Semin Immunol. 2020 08; 50:101418. Sidney J, Peters B, Sette A. PMID: 33131981; PMCID: PMC7749839.
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    137. Lack of evidence supporting a role of IFN-β and TGF-β in differential polarization of Bordetella pertussis specific-T cell responses. Cytokine. 2021 01; 137:155313. da Silva Antunes R, Quiambao LG, Soldevila F, Sutherland A, Peters B, Sette A. PMID: 33002739; PMCID: PMC7726043.
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    138. Lack of evidence for BCG vaccine protection from severe COVID-19. Proc Natl Acad Sci U S A. 2020 10 13; 117(41):25203-25204. Lindestam Arlehamn CS, Sette A, Peters B. PMID: 32994350; PMCID: PMC7568270.
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    139. Antigen-Specific Adaptive Immunity to SARS-CoV-2 in Acute COVID-19 and Associations with Age and Disease Severity. Cell. 2020 11 12; 183(4):996-1012.e19. Rydyznski Moderbacher C, Ramirez SI, Dan JM, Grifoni A, Hastie KM, Weiskopf D, Belanger S, Abbott RK, Kim C, Choi J, Kato Y, Crotty EG, Kim C, Rawlings SA, Mateus J, Tse LPV, Frazier A, Baric R, Peters B, Greenbaum J, Saphire EO, Smith DM, Sette A, Crotty S. PMID: 33010815; PMCID: PMC7494270.
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    142. A behind-the-scenes tour of the IEDB curation process: an optimized process empirically integrating automation and human curation efforts. Immunology. 2020 10; 161(2):139-147. Salimi N, Edwards L, Foos G, Greenbaum JA, Martini S, Reardon B, Shackelford D, Vita R, Zalman L, Peters B, Sette A. PMID: 32615639; PMCID: PMC7496777.
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    143. Pathogenic Autoimmunity in Atherosclerosis Evolves From Initially Protective Apolipoprotein B100-Reactive CD4+ T-Regulatory Cells. Circulation. 2020 09 29; 142(13):1279-1293. Wolf D, Gerhardt T, Winkels H, Michel NA, Pramod AB, Ghosheh Y, Brunel S, Buscher K, Miller J, McArdle S, Baas L, Kobiyama K, Vassallo M, Ehinger E, Dileepan T, Ali A, Schell M, Mikulski Z, Sidler D, Kimura T, Sheng X, Horstmann H, Hansen S, Mitre LS, Stachon P, Hilgendorf I, Gaddis DE, Hedrick C, Benedict CA, Peters B, Zirlik A, Sette A, Ley K. PMID: 32703007; PMCID: PMC7515473.
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    144. Correction: Quantitative and Qualitative Perturbations of CD8+ MAITs in Healthy Mycobacterium tuberculosis-Infected Individuals. Immunohorizons. 2020 Jul 22; 4(7):442-443. Pomaznoy M, Kuan R, Lindvall M, Burel JG, Seumois G, Vijayanand P, Taplitz R, Gilman RH, Saito M, Lewinsohn DM, Sette A, Peters B, Lindestam Arlehamn CS. PMID: 32699177; PMCID: PMC10202146.
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    146. Impact of Cysteine Residues on MHC Binding Predictions and Recognition by Tumor-Reactive T Cells. J Immunol. 2020 07 15; 205(2):539-549. Sachs A, Moore E, Kosaloglu-Yalcin Z, Peters B, Sidney J, Rosenberg SA, Robbins PF, Sette A. PMID: 32571843; PMCID: PMC7413297.
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    147. Single-cell transcriptomic analysis of allergen-specific T cells in allergy and asthma. Sci Immunol. 2020 06 12; 5(48). Seumois G, Ramírez-Suástegui C, Schmiedel BJ, Liang S, Peters B, Sette A, Vijayanand P. PMID: 32532832; PMCID: PMC7372639.
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    148. Quantitative and Qualitative Perturbations of CD8+ MAITs in Healthy Mycobacterium tuberculosis-Infected Individuals. Immunohorizons. 2020 06 04; 4(6):292-307. Pomaznoy M, Kuan R, Lindvall M, Burel JG, Seumois G, Vijayanand P, Taplitz R, Gilman RH, Saito M, Lewinsohn DM, Sette A, Peters B, Lindestam Arlehamn CS. PMID: 32499216; PMCID: PMC7543048.
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    150. Targets of T Cell Responses to SARS-CoV-2 Coronavirus in Humans with COVID-19 Disease and Unexposed Individuals. Cell. 2020 06 25; 181(7):1489-1501.e15. Grifoni A, Weiskopf D, Ramirez SI, Mateus J, Dan JM, Moderbacher CR, Rawlings SA, Sutherland A, Premkumar L, Jadi RS, Marrama D, de Silva AM, Frazier A, Carlin AF, Greenbaum JA, Peters B, Krammer F, Smith DM, Crotty S, Sette A. PMID: 32473127; PMCID: PMC7237901.
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    151. The Challenge of Distinguishing Cell-Cell Complexes from Singlet Cells in Non-Imaging Flow Cytometry and Single-Cell Sorting. Cytometry A. 2020 11; 97(11):1127-1135. Burel JG, Pomaznoy M, Lindestam Arlehamn CS, Seumois G, Vijayanand P, Sette A, Peters B. PMID: 32400942; PMCID: PMC7666012.
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    153. Immunoinformatics: Predicting Peptide-MHC Binding. Annu Rev Biomed Data Sci. 2020 Jul; 3:191-215. Nielsen M, Andreatta M, Peters B, Buus S. PMID: 37427310; PMCID: PMC10328453.
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    155. Development and Validation of a Bordetella pertussis Whole-Genome Screening Strategy. J Immunol Res. 2020; 2020:8202067. da Silva Antunes R, Quiambao LG, Sutherland A, Soldevila F, Dhanda SK, Armstrong SK, Brickman TJ, Merkel T, Peters B, Sette A. PMID: 32322598; PMCID: PMC7154976.
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    156. A Sequence Homology and Bioinformatic Approach Can Predict Candidate Targets for Immune Responses to SARS-CoV-2. Cell Host Microbe. 2020 04 08; 27(4):671-680.e2. Grifoni A, Sidney J, Zhang Y, Scheuermann RH, Peters B, Sette A. PMID: 32183941; PMCID: PMC7142693.
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    157. Candidate Targets for Immune Responses to 2019-Novel Coronavirus (nCoV): Sequence Homology- and Bioinformatic-Based Predictions. SSRN. 2020 Feb 25; 3541361. Grifoni A, Sidney J, Zhang Y, Scheuermann RH, Peters B, Sette A. PMID: 32714104; PMCID: PMC7366807.
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    158. T Cell Epitope Predictions. Annu Rev Immunol. 2020 04 26; 38:123-145. Peters B, Nielsen M, Sette A. PMID: 32045313; PMCID: PMC10878398.
      View in: PubMed   Mentions: 143     Fields:    Translation:HumansAnimalsCells
    159. Identification of Plasmodium falciparum circumsporozoite protein-specific CD8+ T cell epitopes in a malaria exposed population. PLoS One. 2020; 15(2):e0228177. Kusi KA, Aggor FE, Amoah LE, Anum D, Nartey Y, Amoako-Sakyi D, Obiri-Yeboah D, Hollingdale M, Ganeshan H, Belmonte M, Peters B, Kim Y, Tetteh J, Kyei-Baafour E, Dodoo D, Villasante E, Sedegah M. PMID: 32040522; PMCID: PMC7010280.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    160. Major Histocompatibility Complex Binding, Eluted Ligands, and Immunogenicity: Benchmark Testing and Predictions. Front Immunol. 2019; 10:3151. Paul S, Grifoni A, Peters B, Sette A. PMID: 32117208; PMCID: PMC7012937.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimalsCells
    161. Epitope-specific airway-resident CD4+ T cell dynamics during experimental human RSV infection. J Clin Invest. 2020 01 02; 130(1):523-538. Guvenel A, Jozwik A, Ascough S, Ung SK, Paterson S, Kalyan M, Gardener Z, Bergstrom E, Kar S, Habibi MS, Paras A, Zhu J, Park M, Dhariwal J, Almond M, Wong EH, Sykes A, Del Rosario J, Trujillo-Torralbo MB, Mallia P, Sidney J, Peters B, Kon OM, Sette A, Johnston SL, Openshaw PJ, Chiu C. PMID: 31815739; PMCID: PMC6934186.
      View in: PubMed   Mentions: 37     Fields:    Translation:HumansCellsCTClinical Trials
    162. A structured model for immune exposures. Database (Oxford). 2020 01 01; 2020. Vita R, Overton JA, Dunn P, Cheung KH, Kleinstein SH, Sette A, Peters B. PMID: 32283555; PMCID: PMC7153954.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    163. Molecular Signatures of Dengue Virus-Specific IL-10/IFN-γ Co-producing CD4 T Cells and Their Association with Dengue Disease. Cell Rep. 2019 12 24; 29(13):4482-4495.e4. Tian Y, Seumois G, De-Oliveira-Pinto LM, Mateus J, Herrera-de la Mata S, Kim C, Hinz D, Goonawardhana NDS, de Silva AD, Premawansa S, Premawansa G, Wijewickrama A, Balmaseda A, Grifoni A, Vijayanand P, Harris E, Peters B, Sette A, Weiskopf D. PMID: 31875555; PMCID: PMC6942518.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansCells
    164. The Immune Epitope Database and Analysis Resource Program 2003-2018: reflections and outlook. Immunogenetics. 2020 02; 72(1-2):57-76. Martini S, Nielsen M, Peters B, Sette A. PMID: 31761977; PMCID: PMC6970984.
      View in: PubMed   Mentions: 38     Fields:    Translation:HumansAnimals
    165. The Human Immunopeptidome Project: A Roadmap to Predict and Treat Immune Diseases. Mol Cell Proteomics. 2020 01; 19(1):31-49. Vizcaíno JA, Kubiniok P, Kovalchik KA, Ma Q, Duquette JD, Mongrain I, Deutsch EW, Peters B, Sette A, Sirois I, Caron E. PMID: 31744855; PMCID: PMC6944237.
      View in: PubMed   Mentions: 55     Fields:    Translation:Humans
    166. Identifying inaccuracies in gene expression estimates from unstranded RNA-seq data. Sci Rep. 2019 11 08; 9(1):16342. Pomaznoy M, Sethi A, Greenbaum J, Peters B. PMID: 31704962; PMCID: PMC6841694.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    167. TCRpMHCmodels: Structural modelling of TCR-pMHC class I complexes. Sci Rep. 2019 10 10; 9(1):14530. Jensen KK, Rantos V, Jappe EC, Olsen TH, Jespersen MC, Jurtz V, Jessen LE, Lanzarotti E, Mahajan S, Peters B, Nielsen M, Marcatili P. PMID: 31601838; PMCID: PMC6787230.
      View in: PubMed   Mentions: 40     Fields:    Translation:HumansCells
    168. Benchmark datasets of immune receptor-epitope structural complexes. BMC Bioinformatics. 2019 Oct 10; 20(1):490. Mahajan S, Yan Z, Jespersen MC, Jensen KK, Marcatili P, Nielsen M, Sette A, Peters B. PMID: 31601176; PMCID: PMC6785892.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    169. A survey of known immune epitopes in the enteroviruses strains associated with acute flaccid myelitis. Hum Immunol. 2019 Nov; 80(11):923-929. Grifoni A, Mahajan S, Sidney J, Martini S, Scheuermann RH, Peters B, Sette A. PMID: 31451291; PMCID: PMC6876747.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    170. De novo mutations in mitochondrial DNA of iPSCs produce immunogenic neoepitopes in mice and humans. Nat Biotechnol. 2019 10; 37(10):1137-1144. Deuse T, Hu X, Agbor-Enoh S, Koch M, Spitzer MH, Gravina A, Alawi M, Marishta A, Peters B, Kosaloglu-Yalcin Z, Yang Y, Rajalingam R, Wang D, Nashan B, Kiefmann R, Reichenspurner H, Valantine H, Weissman IL, Schrepfer S. PMID: 31427818.
      View in: PubMed   Mentions: 60     Fields:    Translation:HumansAnimalsCells
    171. Restricted myeloperoxidase epitopes drive the adaptive immune response in MPO-ANCA vasculitis. J Autoimmun. 2020 01; 106:102306. Free ME, Stember KG, Hess JJ, McInnis EA, Lardinois O, Hogan SL, Hu Y, Mendoza C, Le AK, Guseman AJ, Pilkinton MA, Bortone DS, Cowens K, Sidney J, Karosiene E, Peters B, James E, Kwok WW, Vincent BG, Mallal SA, Jennette JC, Ciavatta DJ, Falk RJ. PMID: 31383567; PMCID: PMC6930338.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansAnimalsCells
    172. A Modified Injector and Sample Acquisition Protocol Can Improve Data Quality and Reduce Inter-Instrument Variability of the Helios Mass Cytometer. Cytometry A. 2019 09; 95(9):1019-1030. Lee BH, Kelly G, Bradford S, Davila M, Guo XV, Amir ED, Thrash EM, Solga MD, Lannigan J, Sellers B, Candia J, Tsang J, Montgomery RR, Tamaki SJ, Sigdel TK, Sarwal MM, Lanier LL, Tian Y, Kim C, Hinz D, Peters B, Sette A, Rahman AH. PMID: 31364278; PMCID: PMC6750971.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    173. Characterization of Magnitude and Antigen Specificity of HLA-DP, DQ, and DRB3/4/5 Restricted DENV-Specific CD4+ T Cell Responses. Front Immunol. 2019; 10:1568. Grifoni A, Moore E, Voic H, Sidney J, Phillips E, Jadi R, Mallal S, De Silva AD, De Silva AM, Peters B, Weiskopf D, Sette A. PMID: 31333679; PMCID: PMC6624677.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansCells
    174. IEDB-AR: immune epitope database-analysis resource in 2019. Nucleic Acids Res. 2019 07 02; 47(W1):W502-W506. Dhanda SK, Mahajan S, Paul S, Yan Z, Kim H, Jespersen MC, Jurtz V, Andreatta M, Greenbaum JA, Marcatili P, Sette A, Nielsen M, Peters B. PMID: 31114900; PMCID: PMC6602498.
      View in: PubMed   Mentions: 217     Fields:    Translation:HumansAnimals
    175. Analysis of Allergen-Specific T Cell and IgE Reactivity to Different Preparations of Cow's Milk-Containing Food Extracts. Cells. 2019 07 02; 8(7). Chen M, Sutherland A, Birrueta G, Laubach S, Leonard S, Peters B, Schulten V. PMID: 31269726; PMCID: PMC6679079.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    176. MOGSA: Integrative Single Sample Gene-set Analysis of Multiple Omics Data. Mol Cell Proteomics. 2019 08 09; 18(8 suppl 1):S153-S168. Meng C, Basunia A, Peters B, Gholami AM, Kuster B, Culhane AC. PMID: 31243065; PMCID: PMC6692785.
      View in: PubMed   Mentions: 48     Fields:    Translation:Humans
    177. Circulating T cell-monocyte complexes are markers of immune perturbations. Elife. 2019 06 25; 8. Burel JG, Pomaznoy M, Lindestam Arlehamn CS, Weiskopf D, da Silva Antunes R, Jung Y, Babor M, Schulten V, Seumois G, Greenbaum JA, Premawansa S, Premawansa G, Wijewickrama A, Vidanagama D, Gunasena B, Tippalagama R, deSilva AD, Gilman RH, Saito M, Taplitz R, Ley K, Vijayanand P, Sette A, Peters B. PMID: 31237234; PMCID: PMC6592685.
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    178. Widespread Tau-Specific CD4 T Cell Reactivity in the General Population. J Immunol. 2019 07 01; 203(1):84-92. Lindestam Arlehamn CS, Pham J, Alcalay RN, Frazier A, Shorr E, Carpenter C, Sidney J, Dhanwani R, Agin-Liebes J, Garretti F, Amara AW, Standaert DG, Phillips EJ, Mallal SA, Peters B, Sulzer D, Sette A. PMID: 31085590; PMCID: PMC6581570.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansCells
    179. Reporting and connecting cell type names and gating definitions through ontologies. BMC Bioinformatics. 2019 Apr 25; 20(Suppl 5):182. Overton JA, Vita R, Dunn P, Burel JG, Bukhari SAC, Cheung KH, Kleinstein SH, Diehl AD, Peters B. PMID: 31272390; PMCID: PMC6509839.
      View in: PubMed   Mentions: 7     Fields:    Translation:Humans
    180. Characterization and epitope identification of the T cell response in non-allergic individuals exposed to mouse allergen. World Allergy Organ J. 2019; 12(4):100026. Grifoni A, da Silva Antunes R, Westernberg L, Pham J, Birrueta G, Peters B, Sette A, Schulten V. PMID: 31044023; PMCID: PMC6479169.
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    181. Dengue-specific CD8+ T cell subsets display specialized transcriptomic and TCR profiles. J Clin Invest. 2019 03 18; 129(4):1727-1741. Tian Y, Babor M, Lane J, Seumois G, Liang S, Goonawardhana NDS, De Silva AD, Phillips EJ, Mallal SA, da Silva Antunes R, Grifoni A, Vijayanand P, Weiskopf D, Peters B, Sette A. PMID: 30882366; PMCID: PMC6436856.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansCells
    182. Variability in German Cockroach Extract Composition Greatly Impacts T Cell Potency in Cockroach-Allergic Donors. Front Immunol. 2019; 10:313. Birrueta G, Frazier A, Pomés A, Glesner J, Filep S, Schal C, Jeong KY, McMurtrey C, Vander Schans T, Hildebrand WH, Busse P, Beigelman A, Bacharier LB, Peters B, Sette A, Schulten V. PMID: 30891032; PMCID: PMC6413722.
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    183. Antibody Specific B-Cell Epitope Predictions: Leveraging Information From Antibody-Antigen Protein Complexes. Front Immunol. 2019; 10:298. Jespersen MC, Mahajan S, Peters B, Nielsen M, Marcatili P. PMID: 30863406; PMCID: PMC6399414.
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    184. Host Transcriptomics as a Tool to Identify Diagnostic and Mechanistic Immune Signatures of Tuberculosis. Front Immunol. 2019; 10:221. Burel JG, Babor M, Pomaznoy M, Lindestam Arlehamn CS, Khan N, Sette A, Peters B. PMID: 30837989; PMCID: PMC6389658.
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    185. Most viral peptides displayed by class I MHC on infected cells are immunogenic. Proc Natl Acad Sci U S A. 2019 02 19; 116(8):3112-3117. Croft NP, Smith SA, Pickering J, Sidney J, Peters B, Faridi P, Witney MJ, Sebastian P, Flesch IEA, Heading SL, Sette A, La Gruta NL, Purcell AW, Tscharke DC. PMID: 30718433; PMCID: PMC6386720.
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    186. The Immune Epitope Database (IEDB): 2018 update. Nucleic Acids Res. 2019 01 08; 47(D1):D339-D343. Vita R, Mahajan S, Overton JA, Dhanda SK, Martini S, Cantrell JR, Wheeler DK, Sette A, Peters B. PMID: 30357391; PMCID: PMC6324067.
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    187. GOnet: a tool for interactive Gene Ontology analysis. BMC Bioinformatics. 2018 Dec 07; 19(1):470. Pomaznoy M, Ha B, Peters B. PMID: 30526489; PMCID: PMC6286514.
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    188. A Review on T Cell Epitopes Identified Using Prediction and Cell-Mediated Immune Models for Mycobacterium tuberculosis and Bordetella pertussis. Front Immunol. 2018; 9:2778. Tian Y, da Silva Antunes R, Sidney J, Lindestam Arlehamn CS, Grifoni A, Dhanda SK, Paul S, Peters B, Weiskopf D, Sette A. PMID: 30555469; PMCID: PMC6281829.
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    189. Epitope Specific Antibodies and T Cell Receptors in the Immune Epitope Database. Front Immunol. 2018; 9:2688. Mahajan S, Vita R, Shackelford D, Lane J, Schulten V, Zarebski L, Jespersen MC, Marcatili P, Nielsen M, Sette A, Peters B. PMID: 30515166; PMCID: PMC6255941.
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    190. Footprints of antigen processing boost MHC class II natural ligand predictions. Genome Med. 2018 11 16; 10(1):84. Barra C, Alvarez B, Paul S, Sette A, Peters B, Andreatta M, Buus S, Nielsen M. PMID: 30446001; PMCID: PMC6240193.
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    191. Investigation of Outbreak-Specific Nonsynonymous Mutations on Ebolavirus GP in the Context of Known Immune Reactivity. J Immunol Res. 2018; 2018:1846207. Vaughan K, Xu X, Peters B, Sette A. PMID: 30581874; PMCID: PMC6276448.
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    192. ImmunomeBrowser: a tool to aggregate and visualize complex and heterogeneous epitopes in reference proteins. Bioinformatics. 2018 11 15; 34(22):3931-3933. Dhanda SK, Vita R, Ha B, Grifoni A, Peters B, Sette A. PMID: 29878047; PMCID: PMC6223373.
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    193. Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression. Cell. 2018 11 29; 175(6):1701-1715.e16. Schmiedel BJ, Singh D, Madrigal A, Valdovino-Gonzalez AG, White BM, Zapardiel-Gonzalo J, Ha B, Altay G, Greenbaum JA, McVicker G, Seumois G, Rao A, Kronenberg M, Peters B, Vijayanand P. PMID: 30449622; PMCID: PMC6289654.
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    194. Cutting Edge: Transcriptional Profiling Reveals Multifunctional and Cytotoxic Antiviral Responses of Zika Virus-Specific CD8+ T Cells. J Immunol. 2018 12 15; 201(12):3487-3491. Grifoni A, Costa-Ramos P, Pham J, Tian Y, Rosales SL, Seumois G, Sidney J, de Silva AD, Premkumar L, Collins MH, Stone M, Norris PJ, Romero CME, Durbin A, Ricciardi MJ, Ledgerwood JE, de Silva AM, Busch M, Peters B, Vijayanand P, Harris E, Falconar AK, Kallas E, Weiskopf D, Sette A. PMID: 30413672; PMCID: PMC6287102.
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    195. Putting benchmarks in their rightful place: The heart of computational biology. PLoS Comput Biol. 2018 11; 14(11):e1006494. Peters B, Brenner SE, Wang E, Slonim D, Kann MG. PMID: 30408027; PMCID: PMC6224028.
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    196. Mrp1 is involved in lipid presentation and iNKT cell activation by Streptococcus pneumoniae. Nat Commun. 2018 10 15; 9(1):4279. Chandra S, Gray J, Kiosses WB, Khurana A, Hitomi K, Crosby CM, Chawla A, Fu Z, Zhao M, Veerapen N, Richardson SK, Porcelli SA, Besra G, Howell AR, Sharma S, Peters B, Kronenberg M. PMID: 30323255; PMCID: PMC6189046.
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    197. Peanut-specific T cell responses in patients with different clinical reactivity. PLoS One. 2018; 13(10):e0204620. Birrueta G, Tripple V, Pham J, Manohar M, James EA, Kwok WW, Nadeau KC, Sette A, Peters B, Schulten V. PMID: 30304054; PMCID: PMC6179248.
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    198. Predicting T cell recognition of MHC class I restricted neoepitopes. Oncoimmunology. 2018; 7(11):e1492508. Kosaloglu-Yalçin Z, Lanka M, Frentzen A, Logandha Ramamoorthy Premlal A, Sidney J, Vaughan K, Greenbaum J, Robbins P, Gartner J, Sette A, Peters B. PMID: 30377561; PMCID: PMC6204999.
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    199. Development of a novel clustering tool for linear peptide sequences. Immunology. 2018 11; 155(3):331-345. Dhanda SK, Vaughan K, Schulten V, Grifoni A, Weiskopf D, Sidney J, Peters B, Sette A. PMID: 30014462; PMCID: PMC6187223.
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    200. Th1/Th17 polarization persists following whole-cell pertussis vaccination despite repeated acellular boosters. J Clin Invest. 2018 08 31; 128(9):3853-3865. da Silva Antunes R, Babor M, Carpenter C, Khalil N, Cortese M, Mentzer AJ, Seumois G, Petro CD, Purcell LA, Vijayanand P, Crotty S, Pulendran B, Peters B, Sette A. PMID: 29920186; PMCID: PMC6118631.
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    201. Determination of a Predictive Cleavage Motif for Eluted Major Histocompatibility Complex Class II Ligands. Front Immunol. 2018; 9:1795. Paul S, Karosiene E, Dhanda SK, Jurtz V, Edwards L, Nielsen M, Sette A, Peters B. PMID: 30127785; PMCID: PMC6087742.
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    202. Predicting HLA CD4 Immunogenicity in Human Populations. Front Immunol. 2018; 9:1369. Dhanda SK, Karosiene E, Edwards L, Grifoni A, Paul S, Andreatta M, Weiskopf D, Sidney J, Nielsen M, Peters B, Sette A. PMID: 29963059; PMCID: PMC6010533.
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    203. Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE). Proteomics. 2018 06; 18(12):e1800110. Lill JR, van Veelen PA, Tenzer S, Admon A, Caron E, Elias JE, Heck AJR, Marcilla M, Marino F, Müller M, Peters B, Purcell A, Sette A, Sturm T, Ternette N, Vizcaíno JA, Bassani-Sternberg M. PMID: 29791771; PMCID: PMC6033177.
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    204. Microbiota epitope similarity either dampens or enhances the immunogenicity of disease-associated antigenic epitopes. PLoS One. 2018; 13(5):e0196551. Carrasco Pro S, Lindestam Arlehamn CS, Dhanda SK, Carpenter C, Lindvall M, Faruqi AA, Santee CA, Renz H, Sidney J, Peters B, Sette A. PMID: 29734356; PMCID: PMC5937769.
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    205. An automated benchmarking platform for MHC class II binding prediction methods. Bioinformatics. 2018 05 01; 34(9):1522-1528. Andreatta M, Trolle T, Yan Z, Greenbaum JA, Peters B, Nielsen M. PMID: 29281002; PMCID: PMC5925780.
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    206. Urinary Peptides As a Novel Source of T Cell Allergen Epitopes. Front Immunol. 2018; 9:886. da Silva Antunes R, Pham J, McMurtrey C, Hildebrand WH, Phillips E, Mallal S, Sidney J, Busse P, Peters B, Schulten V, Sette A. PMID: 29755469; PMCID: PMC5932195.
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    207. DAFi: A directed recursive data filtering and clustering approach for improving and interpreting data clustering identification of cell populations from polychromatic flow cytometry data. Cytometry A. 2018 06; 93(6):597-610. Lee AJ, Chang I, Burel JG, Lindestam Arlehamn CS, Mandava A, Weiskopf D, Peters B, Sette A, Scheuermann RH, Qian Y. PMID: 29665244; PMCID: PMC6030426.
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    208. Transcriptomic Analysis of CD4+ T Cells Reveals Novel Immune Signatures of Latent Tuberculosis. J Immunol. 2018 05 01; 200(9):3283-3290. Burel JG, Lindestam Arlehamn CS, Khan N, Seumois G, Greenbaum JA, Taplitz R, Gilman RH, Saito M, Vijayanand P, Sette A, Peters B. PMID: 29602771; PMCID: PMC5991485.
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    209. Characterization of murine antibody responses to vaccinia virus envelope protein A14 reveals an immunodominant antigen lacking of effective neutralization targets. Virology. 2018 05; 518:284-292. Meng X, Kaever T, Yan B, Traktman P, Zajonc DM, Peters B, Crotty S, Xiang Y. PMID: 29558682; PMCID: PMC5911218.
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    210. Allergen and Epitope Targets of Mouse-Specific T Cell Responses in Allergy and Asthma. Front Immunol. 2018; 9:235. Schulten V, Westernberg L, Birrueta G, Sidney J, Paul S, Busse P, Peters B, Sette A. PMID: 29487600; PMCID: PMC5816932.
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    211. Improved methods for predicting peptide binding affinity to MHC class II molecules. Immunology. 2018 07; 154(3):394-406. Jensen KK, Andreatta M, Marcatili P, Buus S, Greenbaum JA, Yan Z, Sette A, Peters B, Nielsen M. PMID: 29315598; PMCID: PMC6002223.
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    212. Precursors of human CD4+ cytotoxic T lymphocytes identified by single-cell transcriptome analysis. Sci Immunol. 2018 01 19; 3(19). Patil VS, Madrigal A, Schmiedel BJ, Clarke J, O'Rourke P, de Silva AD, Harris E, Peters B, Seumois G, Weiskopf D, Sette A, Vijayanand P. PMID: 29352091; PMCID: PMC5931334.
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    213. The SysteMHC Atlas project. Nucleic Acids Res. 2018 01 04; 46(D1):D1237-D1247. Shao W, Pedrioli PGA, Wolski W, Scurtescu C, Schmid E, Vizcaíno JA, Courcelles M, Schuster H, Kowalewski D, Marino F, Arlehamn CSL, Vaughan K, Peters B, Sette A, Ottenhoff THM, Meijgaarden KE, Nieuwenhuizen N, Kaufmann SHE, Schlapbach R, Castle JC, Nesvizhskii AI, Nielsen M, Deutsch EW, Campbell DS, Moritz RL, Zubarev RA, Ytterberg AJ, Purcell AW, Marcilla M, Paradela A, Wang Q, Costello CE, Ternette N, van Veelen PA, van Els CACM, Heck AJR, de Souza GA, Sollid LM, Admon A, Stevanovic S, Rammensee HG, Thibault P, Perreault C, Bassani-Sternberg M, Aebersold R, Caron E. PMID: 28985418; PMCID: PMC5753376.
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    214. FAIR principles and the IEDB: short-term improvements and a long-term vision of OBO-foundry mediated machine-actionable interoperability. Database (Oxford). 2018 01 01; 2018. Vita R, Overton JA, Mungall CJ, Sette A, Peters B. PMID: 29688354; PMCID: PMC5819722.
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    215. Identification of errors in the IEDB using ontologies. Database (Oxford). 2018 01 01; 2018. Vita R, Overton JA, Peters B. PMID: 29688357; PMCID: PMC5824775.
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    216. Prior Dengue Virus Exposure Shapes T Cell Immunity to Zika Virus in Humans. J Virol. 2017 12 15; 91(24). Grifoni A, Pham J, Sidney J, O'Rourke PH, Paul S, Peters B, Martini SR, de Silva AD, Ricciardi MJ, Magnani DM, Silveira CGT, Maestri A, Costa PR, de-Oliveira-Pinto LM, de Azeredo EL, Damasco PV, Phillips E, Mallal S, de Silva AM, Collins M, Durbin A, Diehl SA, Cerpas C, Balmaseda A, Kuan G, Coloma J, Harris E, Crowe JE, Stone M, Norris PJ, Busch M, Vivanco-Cid H, Cox J, Graham BS, Ledgerwood JE, Turtle L, Solomon T, Kallas EG, Watkins DI, Weiskopf D, Sette A. PMID: 28978707; PMCID: PMC5709580.
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    217. Unique phenotypes and clonal expansions of human CD4 effector memory T cells re-expressing CD45RA. Nat Commun. 2017 11 13; 8(1):1473. Tian Y, Babor M, Lane J, Schulten V, Patil VS, Seumois G, Rosales SL, Fu Z, Picarda G, Burel J, Zapardiel-Gonzalo J, Tennekoon RN, De Silva AD, Premawansa S, Premawansa G, Wijewickrama A, Greenbaum JA, Vijayanand P, Weiskopf D, Sette A, Peters B. PMID: 29133794; PMCID: PMC5684192.
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    218. Structure-function characterization of three human antibodies targeting the vaccinia virus adhesion molecule D8. J Biol Chem. 2018 01 05; 293(1):390-401. Matho MH, Schlossman A, Gilchuk IM, Miller G, Mikulski Z, Hupfer M, Wang J, Bitra A, Meng X, Xiang Y, Kaever T, Doukov T, Ley K, Crotty S, Peters B, Hsieh-Wilson LC, Crowe JE, Zajonc DM. PMID: 29123031; PMCID: PMC5766908.
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    219. Global Assessment of Dengue Virus-Specific CD4+ T Cell Responses in Dengue-Endemic Areas. Front Immunol. 2017; 8:1309. Grifoni A, Angelo MA, Lopez B, O'Rourke PH, Sidney J, Cerpas C, Balmaseda A, Silveira CGT, Maestri A, Costa PR, Durbin AP, Diehl SA, Phillips E, Mallal S, De Silva AD, Nchinda G, Nkenfou C, Collins MH, de Silva AM, Lim MQ, Macary PA, Tatullo F, Solomon T, Satchidanandam V, Desai A, Ravi V, Coloma J, Turtle L, Rivino L, Kallas EG, Peters B, Harris E, Sette A, Weiskopf D. PMID: 29081779; PMCID: PMC5646259.
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    220. NetMHCpan-4.0: Improved Peptide-MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data. J Immunol. 2017 11 01; 199(9):3360-3368. Jurtz V, Paul S, Andreatta M, Marcatili P, Peters B, Nielsen M. PMID: 28978689; PMCID: PMC5679736.
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    221. Development of a strategy and computational application to select candidate protein analogues with reduced HLA binding and immunogenicity. Immunology. 2018 01; 153(1):118-132. Dhanda SK, Grifoni A, Pham J, Vaughan K, Sidney J, Peters B, Sette A. PMID: 28833085; PMCID: PMC5721253.
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    222. Differential Recognition of Mycobacterium tuberculosis-Specific Epitopes as a Function of Tuberculosis Disease History. Am J Respir Crit Care Med. 2017 09 15; 196(6):772-781. Scriba TJ, Carpenter C, Pro SC, Sidney J, Musvosvi M, Rozot V, Seumois G, Rosales SL, Vijayanand P, Goletti D, Makgotlho E, Hanekom W, Hatherill M, Peters B, Sette A, Arlehamn CSL. PMID: 28759253; PMCID: PMC5620682.
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    223. Erratum: T cells from patients with Parkinson's disease recognize α-synuclein peptides. Nature. 2017 09 13; 549(7671):292. Sulzer D, Alcalay RN, Garretti F, Cote L, Kanter E, Agin-Liebes J, Liong C, McMurtrey C, Hildebrand WH, Mao X, Dawson VL, Dawson TM, Oseroff C, Pham J, Sidney J, Dillon MB, Carpenter C, Weiskopf D, Phillips E, Mallal S, Peters B, Frazier A, Arlehamn CSL, Sette A. PMID: 28905919; PMCID: PMC10204083.
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    224. Shared peptide binding of HLA Class I and II alleles associate with cutaneous nevirapine hypersensitivity and identify novel risk alleles. Sci Rep. 2017 08 17; 7(1):8653. Pavlos R, McKinnon EJ, Ostrov DA, Peters B, Buus S, Koelle D, Chopra A, Schutte R, Rive C, Redwood A, Restrepo S, Bracey A, Kaever T, Myers P, Speers E, Malaker SA, Shabanowitz J, Jing Y, Gaudieri S, Hunt DF, Carrington M, Haas DW, Mallal S, Phillips EJ. PMID: 28819312; PMCID: PMC5561238.
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    225. Deciphering the MHC-associated peptidome: a review of naturally processed ligand data. Expert Rev Proteomics. 2017 09; 14(9):729-736. Vaughan K, Xu X, Caron E, Peters B, Sette A. PMID: 28756714.
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    226. Erratum for Verma et al., "Cytomegalovirus-Specific CD4 T Cells Are Cytolytic and Mediate Vaccine Protection". J Virol. 2017 09 01; 91(17). Verma S, Weiskopf D, Gupta A, McDonald B, Peters B, Sette A, Benedict CA. PMID: 28798100; PMCID: PMC5553172.
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    227. BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes. Nucleic Acids Res. 2017 07 03; 45(W1):W24-W29. Jespersen MC, Peters B, Nielsen M, Marcatili P. PMID: 28472356; PMCID: PMC5570230.
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    228. Experimental validation of the RATE tool for inferring HLA restrictions of T cell epitopes. BMC Immunol. 2017 06 21; 18(Suppl 1):20. Paul S, Arlehamn CSL, Schulten V, Westernberg L, Sidney J, Peters B, Sette A. PMID: 28681704; PMCID: PMC5499093.
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    229. T cells from patients with Parkinson's disease recognize α-synuclein peptides. Nature. 2017 06 29; 546(7660):656-661. Sulzer D, Alcalay RN, Garretti F, Cote L, Kanter E, Agin-Liebes J, Liong C, McMurtrey C, Hildebrand WH, Mao X, Dawson VL, Dawson TM, Oseroff C, Pham J, Sidney J, Dillon MB, Carpenter C, Weiskopf D, Phillips E, Mallal S, Peters B, Frazier A, Lindestam Arlehamn CS, Sette A. PMID: 28636593; PMCID: PMC5626019.
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    230. Machine learning reveals a non-canonical mode of peptide binding to MHC class II molecules. Immunology. 2017 10; 152(2):255-264. Andreatta M, Jurtz VI, Kaever T, Sette A, Peters B, Nielsen M. PMID: 28542831; PMCID: PMC5588850.
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    231. The Immune Epitope Database: How Data Are Entered and Retrieved. J Immunol Res. 2017; 2017:5974574. Fleri W, Vaughan K, Salimi N, Vita R, Peters B, Sette A. PMID: 28634590; PMCID: PMC5467323.
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    232. Allergen-specific immunotherapy modulates the balance of circulating Tfh and Tfr cells. J Allergy Clin Immunol. 2018 02; 141(2):775-777.e6. Schulten V, Tripple V, Seumois G, Qian Y, Scheuermann RH, Fu Z, Locci M, Rosales S, Vijayanand P, Sette A, Alam R, Crotty S, Peters B. PMID: 28506846; PMCID: PMC5682232.
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    233. Citrullination only infrequently impacts peptide binding to HLA class II MHC. PLoS One. 2017; 12(5):e0177140. Sidney J, Becart S, Zhou M, Duffy K, Lindvall M, Moore EC, Moore EL, Rao T, Rao N, Nielsen M, Peters B, Sette A. PMID: 28481943; PMCID: PMC5421785.
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    234. Patterns of Cellular Immunity Associated with Experimental Infection with rDEN2Δ30 (Tonga/74) Support Its Suitability as a Human Dengue Virus Challenge Strain. J Virol. 2017 Apr 15; 91(8). Grifoni A, Angelo M, Sidney J, Paul S, Peters B, de Silva AD, Phillips E, Mallal S, Diehl SA, Botten J, Boyson J, Kirkpatrick BD, Whitehead SS, Durbin AP, Sette A, Weiskopf D. PMID: 28148797; PMCID: PMC5375662.
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    235. Peptide-binding motifs of two common equine class I MHC molecules in Thoroughbred horses. Immunogenetics. 2017 05; 69(5):351-358. Bergmann T, Lindvall M, Moore E, Moore E, Sidney J, Miller D, Tallmadge RL, Myers PT, Malaker SA, Shabanowitz J, Osterrieder N, Peters B, Hunt DF, Antczak DF, Sette A. PMID: 28315936; PMCID: PMC5555743.
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    236. The Immune Epitope Database and Analysis Resource in Epitope Discovery and Synthetic Vaccine Design. Front Immunol. 2017; 8:278. Fleri W, Paul S, Dhanda SK, Mahajan S, Xu X, Peters B, Sette A. PMID: 28352270; PMCID: PMC5348633.
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    237. Human CD4+ T Cell Responses to an Attenuated Tetravalent Dengue Vaccine Parallel Those Induced by Natural Infection in Magnitude, HLA Restriction, and Antigen Specificity. J Virol. 2017 03 01; 91(5). Angelo MA, Grifoni A, O'Rourke PH, Sidney J, Paul S, Peters B, de Silva AD, Phillips E, Mallal S, Diehl SA, Kirkpatrick BD, Whitehead SS, Durbin AP, Sette A, Weiskopf D. PMID: 27974563; PMCID: PMC5309943.
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    238. Unconventional Peptide Presentation by Major Histocompatibility Complex (MHC) Class I Allele HLA-A*02:01: BREAKING CONFINEMENT. J Biol Chem. 2017 03 31; 292(13):5262-5270. Remesh SG, Andreatta M, Ying G, Kaever T, Nielsen M, McMurtrey C, Hildebrand W, Peters B, Zajonc DM. PMID: 28179428; PMCID: PMC5392673.
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    239. An Integrated Workflow To Assess Technical and Biological Variability of Cell Population Frequencies in Human Peripheral Blood by Flow Cytometry. J Immunol. 2017 02 15; 198(4):1748-1758. Burel JG, Qian Y, Lindestam Arlehamn C, Weiskopf D, Zapardiel-Gonzalo J, Taplitz R, Gilman RH, Saito M, de Silva AD, Vijayanand P, Scheuermann RH, Sette A, Peters B. PMID: 28069807; PMCID: PMC5296239.
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    240. Better living through ontologies at the Immune Epitope Database. Database (Oxford). 2017 01 01; 2017(1). Vita R, Overton JA, Sette A, Peters B. PMID: 28365732; PMCID: PMC5467561.
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    241. Immunodominance in allergic T-cell reactivity to Japanese cedar in different geographic cohorts. Ann Allergy Asthma Immunol. 2016 12; 117(6):680-689.e1. Oseroff C, Pham J, Frazier A, Hinz D, Sidney J, Paul S, Greenbaum JA, Vita R, Peters B, Schulten V, Sette A. PMID: 27979027; PMCID: PMC5172395.
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    242. 17q21 asthma-risk variants switch CTCF binding and regulate IL-2 production by T cells. Nat Commun. 2016 11 16; 7:13426. Schmiedel BJ, Seumois G, Samaniego-Castruita D, Cayford J, Schulten V, Chavez L, Ay F, Sette A, Peters B, Vijayanand P. PMID: 27848966; PMCID: PMC5116091.
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    243. Identifying Candidate Targets of Immune Responses in Zika Virus Based on Homology to Epitopes in Other Flavivirus Species. PLoS Curr. 2016 Nov 15; 8. Xu X, Vaughan K, Weiskopf D, Grifoni A, Diamond MS, Sette A, Peters B. PMID: 28018746; PMCID: PMC5145810.
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    244. Immunoproteomic analysis of house dust mite antigens reveals distinct classes of dominant T cell antigens according to function and serological reactivity. Clin Exp Allergy. 2017 Apr; 47(4):577-592. Oseroff C, Christensen LH, Westernberg L, Pham J, Lane J, Paul S, Greenbaum J, Stranzl T, Lund G, Hoof I, Holm J, Würtzen PA, Meno KH, Frazier A, Schulten V, Andersen PS, Peters B, Sette A. PMID: 27684489; PMCID: PMC5374056.
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    245. Vaccine Strain-Specificity of Protective HLA-Restricted Class 1 P. falciparum Epitopes. PLoS One. 2016; 11(10):e0163026. Sedegah M, Peters B, Hollingdale MR, Ganeshan HD, Huang J, Farooq F, Belmonte MN, Belmonte AD, Limbach KJ, Diggs C, Soisson L, Chuang I, Villasante ED. PMID: 27695088; PMCID: PMC5047630.
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    246. TepiTool: A Pipeline for Computational Prediction of T Cell Epitope Candidates. Curr Protoc Immunol. 2016 08 01; 114:18.19.1-18.19.24. Paul S, Sidney J, Sette A, Peters B. PMID: 27479659; PMCID: PMC4981331.
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    247. Reply. J Allergy Clin Immunol. 2016 10; 138(4):1237-1238. Westernberg L, Schulten V, Sette A, Peters B. PMID: 27484034.
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    248. HLA-DRB1 Alleles Are Associated With Different Magnitudes of Dengue Virus-Specific CD4+ T-Cell Responses. J Infect Dis. 2016 10 01; 214(7):1117-24. Weiskopf D, Angelo MA, Grifoni A, O'Rourke PH, Sidney J, Paul S, De Silva AD, Phillips E, Mallal S, Premawansa S, Premawansa G, Wijewickrama A, Peters B, Sette A. PMID: 27443615; PMCID: PMC5021234.
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    249. A Quantitative Analysis of Complexity of Human Pathogen-Specific CD4 T Cell Responses in Healthy M. tuberculosis Infected South Africans. PLoS Pathog. 2016 07; 12(7):e1005760. Lindestam Arlehamn CS, McKinney DM, Carpenter C, Paul S, Rozot V, Makgotlho E, Gregg Y, van Rooyen M, Ernst JD, Hatherill M, Hanekom WA, Peters B, Scriba TJ, Sette A. PMID: 27409590; PMCID: PMC4943605.
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    250. Transcriptional Profiling of Th2 Cells Identifies Pathogenic Features Associated with Asthma. J Immunol. 2016 07 15; 197(2):655-64. Seumois G, Zapardiel-Gonzalo J, White B, Singh D, Schulten V, Dillon M, Hinz D, Broide DH, Sette A, Peters B, Vijayanand P. PMID: 27271570; PMCID: PMC4936908.
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    251. Pro-apoptotic Bax molecules densely populate the edges of membrane pores. Sci Rep. 2016 06 03; 6:27299. Kuwana T, Olson NH, Kiosses WB, Peters B, Newmeyer DD. PMID: 27255832; PMCID: PMC4891688.
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    252. Th1 versus Th2 T cell polarization by whole-cell and acellular childhood pertussis vaccines persists upon re-immunization in adolescence and adulthood. Cell Immunol. 2016 Jun-Jul; 304-305:35-43. Bancroft T, Dillon MB, da Silva Antunes R, Paul S, Peters B, Crotty S, Lindestam Arlehamn CS, Sette A. PMID: 27212461; PMCID: PMC4899275.
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    253. The Ontology for Biomedical Investigations. PLoS One. 2016; 11(4):e0154556. Bandrowski A, Brinkman R, Brochhausen M, Brush MH, Bug B, Chibucos MC, Clancy K, Courtot M, Derom D, Dumontier M, Fan L, Fostel J, Fragoso G, Gibson F, Gonzalez-Beltran A, Haendel MA, He Y, Heiskanen M, Hernandez-Boussard T, Jensen M, Lin Y, Lister AL, Lord P, Malone J, Manduchi E, McGee M, Morrison N, Overton JA, Parkinson H, Peters B, Rocca-Serra P, Ruttenberg A, Sansone SA, Scheuermann RH, Schober D, Smith B, Soldatova LN, Stoeckert CJ, Taylor CF, Torniai C, Turner JA, Vita R, Whetzel PL, Zheng J. PMID: 27128319; PMCID: PMC4851331.
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    254. Linear Epitopes in Vaccinia Virus A27 Are Targets of Protective Antibodies Induced by Vaccination against Smallpox. J Virol. 2016 May; 90(9):4334-4345. Kaever T, Matho MH, Meng X, Crickard L, Schlossman A, Xiang Y, Crotty S, Peters B, Zajonc DM. PMID: 26889021; PMCID: PMC4836320.
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    255. Immunodominant Dengue Virus-Specific CD8+ T Cell Responses Are Associated with a Memory PD-1+ Phenotype. J Virol. 2016 May; 90(9):4771-4779. de Alwis R, Bangs DJ, Angelo MA, Cerpas C, Fernando A, Sidney J, Peters B, Gresh L, Balmaseda A, de Silva AD, Harris E, Sette A, Weiskopf D. PMID: 26912627; PMCID: PMC4836325.
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    256. Erratum: RSV-specific airway resident memory CD8+ T cells and differential disease severity after experimental human infection. Nat Commun. 2016 Mar 09; 7:11011. Jozwik A, Habibi MS, Paras A, Zhu J, Guvenel A, Dhariwal J, Almond M, Wong EH, Sykes A, Maybeno M, Del Rosario J, Trujillo-Torralbo MB, Mallia P, Sidney J, Peters B, Kon OM, Sette A, Johnston SL, Openshaw PJ, Chiu C. PMID: 26957359; PMCID: PMC4786878.
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    257. T-cell epitope conservation across allergen species is a major determinant of immunogenicity. J Allergy Clin Immunol. 2016 08; 138(2):571-578.e7. Westernberg L, Schulten V, Greenbaum JA, Natali S, Tripple V, McKinney DM, Frazier A, Hofer H, Wallner M, Sallusto F, Sette A, Peters B. PMID: 26883464; PMCID: PMC4975972.
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    258. T-cell recognition is shaped by epitope sequence conservation in the host proteome and microbiome. Immunology. 2016 May; 148(1):34-9. Bresciani A, Paul S, Schommer N, Dillon MB, Bancroft T, Greenbaum J, Sette A, Nielsen M, Peters B. PMID: 26789414; PMCID: PMC4819143.
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    259. Reproducibility and conflicts in immune epitope data. Immunology. 2016 Mar; 147(3):349-54. Vita R, Vasilevsky N, Bandrowski A, Haendel M, Sette A, Peters B. PMID: 26678806; PMCID: PMC4754615.
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    260. Measurement of ex vivo ELISpot interferon-gamma recall responses to Plasmodium falciparum AMA1 and CSP in Ghanaian adults with natural exposure to malaria. Malar J. 2016 Feb 01; 15:55. Ganeshan H, Kusi KA, Anum D, Hollingdale MR, Peters B, Kim Y, Tetteh JK, Ofori MF, Gyan BA, Koram KA, Huang J, Belmonte M, Banania JG, Dodoo D, Villasante E, Sedegah M. PMID: 26830334; PMCID: PMC4736649.
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    261. Toxoplasma gondii peptide ligands open the gate of the HLA class I binding groove. Elife. 2016 Jan 29; 5. McMurtrey C, Trolle T, Sansom T, Remesh SG, Kaever T, Bardet W, Jackson K, McLeod R, Sette A, Nielsen M, Zajonc DM, Blader IJ, Peters B, Hildebrand W. PMID: 26824387; PMCID: PMC4775218.
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    262. The Length Distribution of Class I-Restricted T Cell Epitopes Is Determined by Both Peptide Supply and MHC Allele-Specific Binding Preference. J Immunol. 2016 Feb 15; 196(4):1480-7. Trolle T, McMurtrey CP, Sidney J, Bardet W, Osborn SC, Kaever T, Sette A, Hildebrand WH, Nielsen M, Peters B. PMID: 26783342; PMCID: PMC4744552.
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    263. An ontology for major histocompatibility restriction. J Biomed Semantics. 2016; 7:1. Vita R, Overton JA, Seymour E, Sidney J, Kaufman J, Tallmadge RL, Ellis S, Hammond J, Butcher GW, Sette A, Peters B. PMID: 26759709; PMCID: PMC4709943.
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    264. RSV-specific airway resident memory CD8+ T cells and differential disease severity after experimental human infection. Nat Commun. 2015 Dec 21; 6:10224. Jozwik A, Habibi MS, Paras A, Zhu J, Guvenel A, Dhariwal J, Almond M, Wong EHC, Sykes A, Maybeno M, Del Rosario J, Trujillo-Torralbo MB, Mallia P, Sidney J, Peters B, Kon OM, Sette A, Johnston SL, Openshaw PJ, Chiu C. PMID: 26687547; PMCID: PMC4703893.
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    265. Epitope specific T-cell responses against influenza A in a healthy population. Immunology. 2016 Feb; 147(2):165-77. Savic M, Dembinski JL, Kim Y, Tunheim G, Cox RJ, Oftung F, Peters B, Mjaaland S. PMID: 26489873; PMCID: PMC4717245.
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    266. Immune Responses in Acute and Convalescent Patients with Mild, Moderate and Severe Disease during the 2009 Influenza Pandemic in Norway. PLoS One. 2015; 10(11):e0143281. Mohn KG, Cox RJ, Tunheim G, Berdal JE, Hauge AG, Jul-Larsen Å, Norwegian Pandemic Group, Peters B, Oftung F, Jonassen CM, Mjaaland S. PMID: 26606759; PMCID: PMC4659565.
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    267. The Use of the Immune Epitope Database to Study Autoimmune Epitope Data Related to Alopecia Areata. J Investig Dermatol Symp Proc. 2015 Nov; 17(2):36-41. Sette A, Paul S, Vaughan K, Peters B. PMID: 26551944; PMCID: PMC10198045.
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    268. Cytomegalovirus-Specific CD4 T Cells Are Cytolytic and Mediate Vaccine Protection. J Virol. 2016 01 15; 90(2):650-8. Verma S, Weiskopf D, Gupta A, McDonald B, Peters B, Sette A, Benedict CA. PMID: 26491148; PMCID: PMC4702662.
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    269. Automatic Generation of Validated Specific Epitope Sets. J Immunol Res. 2015; 2015:763461. Carrasco Pro S, Sidney J, Paul S, Lindestam Arlehamn C, Weiskopf D, Peters B, Sette A. PMID: 26568965; PMCID: PMC4629045.
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    270. The common equine class I molecule Eqca-1*00101 (ELA-A3.1) is characterized by narrow peptide binding and T cell epitope repertoires. Immunogenetics. 2015 Nov; 67(11-12):675-89. Bergmann T, Moore C, Sidney J, Miller D, Tallmadge R, Harman RM, Oseroff C, Wriston A, Shabanowitz J, Hunt DF, Osterrieder N, Peters B, Antczak DF, Sette A. PMID: 26399241; PMCID: PMC4783141.
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    271. Structural and Functional Characterization of Anti-A33 Antibodies Reveal a Potent Cross-Species Orthopoxviruses Neutralizer. PLoS Pathog. 2015 Sep; 11(9):e1005148. Matho MH, Schlossman A, Meng X, Benhnia MR, Kaever T, Buller M, Doronin K, Parker S, Peters B, Crotty S, Xiang Y, Zajonc DM. PMID: 26325270; PMCID: PMC4556652.
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    272. Dengue virus infection elicits highly polarized CX3CR1+ cytotoxic CD4+ T cells associated with protective immunity. Proc Natl Acad Sci U S A. 2015 Aug 04; 112(31):E4256-63. Weiskopf D, Bangs DJ, Sidney J, Kolla RV, De Silva AD, de Silva AM, Crotty S, Peters B, Sette A. PMID: 26195744; PMCID: PMC4534238.
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    273. Acyclovir Has Low but Detectable Influence on HLA-B*57:01 Specificity without Inducing Hypersensitivity. PLoS One. 2015; 10(5):e0124878. Metushi IG, Wriston A, Banerjee P, Gohlke BO, English AM, Lucas A, Moore C, Sidney J, Buus S, Ostrov DA, Mallal S, Phillips E, Shabanowitz J, Hunt DF, Preissner R, Peters B. PMID: 26024233; PMCID: PMC4449000.
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    274. Development and validation of a sample sparing strategy for HLA typing utilizing next generation sequencing. Hum Immunol. 2015 Dec; 76(12):917-22. McKinney DM, Fu Z, Le L, Greenbaum JA, Peters B, Sette A. PMID: 26027778; PMCID: PMC4662932.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    275. Analysis of Human RSV Immunity at the Molecular Level: Learning from the Past and Present. PLoS One. 2015; 10(5):e0127108. Vaughan K, Ponomarenko J, Peters B, Sette A. PMID: 26001197; PMCID: PMC4441423.
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    276. Human CD8+ T-Cell Responses Against the 4 Dengue Virus Serotypes Are Associated With Distinct Patterns of Protein Targets. J Infect Dis. 2015 Dec 01; 212(11):1743-51. Weiskopf D, Cerpas C, Angelo MA, Bangs DJ, Sidney J, Paul S, Peters B, Sanches FP, Silvera CG, Costa PR, Kallas EG, Gresh L, de Silva AD, Balmaseda A, Harris E, Sette A. PMID: 25980035; PMCID: PMC4633759.
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    277. IL-10-producing intestinal macrophages prevent excessive antibacterial innate immunity by limiting IL-23 synthesis. Nat Commun. 2015 May 11; 6:7055. 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. PMID: 25959063; PMCID: PMC4428691.
      View in: PubMed   Mentions: 62     Fields:    Translation:AnimalsCells
    278. A population response analysis approach to assign class II HLA-epitope restrictions. J Immunol. 2015 Jun 15; 194(12):6164-6176. Paul S, Dillon MBC, Arlehamn CSL, Huang H, Davis MM, McKinney DM, Scriba TJ, Sidney J, Peters B, Sette A. PMID: 25948811; PMCID: PMC4458389.
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    279. Development and validation of a broad scheme for prediction of HLA class II restricted T cell epitopes. J Immunol Methods. 2015 Jul; 422:28-34. Paul S, Lindestam Arlehamn CS, Scriba TJ, Dillon MB, Oseroff C, Hinz D, McKinney DM, Carrasco Pro S, Sidney J, Peters B, Sette A. PMID: 25862607; PMCID: PMC4458426.
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    280. Antibody specific epitope prediction-emergence of a new paradigm. Curr Opin Virol. 2015 Apr; 11:98-102. Sela-Culang I, Ofran Y, Peters B. PMID: 25837466; PMCID: PMC4456244.
      View in: PubMed   Mentions: 42     Fields:    Translation:HumansAnimals
    281. Dengue Virus Evolution under a Host-Targeted Antiviral. J Virol. 2015 May; 89(10):5592-601. Plummer E, Buck MD, Sanchez M, Greenbaum JA, Turner J, Grewal R, Klose B, Sampath A, Warfield KL, Peters B, Ramstedt U, Shresta S. PMID: 25762732; PMCID: PMC4442503.
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    282. Automated benchmarking of peptide-MHC class I binding predictions. Bioinformatics. 2015 Jul 01; 31(13):2174-81. Trolle T, Metushi IG, Greenbaum JA, Kim Y, Sidney J, Lund O, Sette A, Peters B, Nielsen M. PMID: 25717196; PMCID: PMC4481849.
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    283. Abacavir-reactive memory T cells are present in drug naïve individuals. PLoS One. 2015; 10(2):e0117160. Lucas A, Lucas M, Strhyn A, Keane NM, McKinnon E, Pavlos R, Moran EM, Meyer-Pannwitt V, Gaudieri S, D'Orsogna L, Kalams S, Ostrov DA, Buus S, Peters B, Mallal S, Phillips E. PMID: 25674793; PMCID: PMC4326126.
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    284. Immunological consequences of intragenus conservation of Mycobacterium tuberculosis T-cell epitopes. Proc Natl Acad Sci U S A. 2015 Jan 13; 112(2):E147-55. Lindestam Arlehamn CS, Paul S, Mele F, Huang C, Greenbaum JA, Vita R, Sidney J, Peters B, Sallusto F, Sette A. PMID: 25548174; PMCID: PMC4299226.
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    285. Murine anti-vaccinia virus D8 antibodies target different epitopes and differ in their ability to block D8 binding to CS-E. PLoS Pathog. 2014 Dec; 10(12):e1004495. Matho MH, de Val N, Miller GM, Brown J, Schlossman A, Meng X, Crotty S, Peters B, Xiang Y, Hsieh-Wilson LC, Ward AB, Zajonc DM. PMID: 25474621; PMCID: PMC4256255.
      View in: PubMed   Mentions: 17     Fields:    Translation:AnimalsCells
    286. PEASE: predicting B-cell epitopes utilizing antibody sequence. Bioinformatics. 2015 Apr 15; 31(8):1313-5. Sela-Culang I, Ashkenazi S, Peters B, Ofran Y. PMID: 25432167.
      View in: PubMed   Mentions: 30     Fields:    Translation:HumansCells
    287. New strategies for allergen T cell epitope identification: going beyond IgE. Int Arch Allergy Immunol. 2014; 165(2):75-82. Schulten V, Peters B, Sette A. PMID: 25402674; PMCID: PMC4315360.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimals
    288. CD4 T cells specific for a latency-associated γ-herpesvirus epitope are polyfunctional and cytotoxic. J Immunol. 2014 Dec 15; 193(12):5827-34. Freeman ML, Burkum CE, Cookenham T, Roberts AD, Lanzer KG, Huston GE, Jensen MK, Sidney J, Peters B, Kohlmeier JE, Woodland DL, van Dyk LF, Sette A, Blackman MA. PMID: 25378595; PMCID: PMC4301266.
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    289. Allergy-associated T cell epitope repertoires are surprisingly diverse and include non-IgE reactive antigens. World Allergy Organ J. 2014; 7(1):26. Frazier A, Schulten V, Hinz D, Oseroff C, Sidney J, Peters B, Sette A. PMID: 25352946; PMCID: PMC4210551.
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    290. The human CD8+ T cell responses induced by a live attenuated tetravalent dengue vaccine are directed against highly conserved epitopes. J Virol. 2015 Jan; 89(1):120-8. Weiskopf D, Angelo MA, Bangs DJ, Sidney J, Paul S, Peters B, de Silva AD, Lindow JC, Diehl SA, Whitehead S, Durbin A, Kirkpatrick B, Sette A. PMID: 25320311; PMCID: PMC4301095.
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    291. The immune epitope database (IEDB) 3.0. Nucleic Acids Res. 2015 Jan; 43(Database issue):D405-12. Vita R, Overton JA, Greenbaum JA, Ponomarenko J, Clark JD, Cantrell JR, Wheeler DK, Gabbard JL, Hix D, Sette A, Peters B. PMID: 25300482; PMCID: PMC4384014.
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    292. Sterile immunity to malaria after DNA prime/adenovirus boost immunization is associated with effector memory CD8+T cells targeting AMA1 class I epitopes. PLoS One. 2014; 9(9):e106241. Sedegah M, Hollingdale MR, Farooq F, Ganeshan H, Belmonte M, Kim Y, Peters B, Sette A, Huang J, McGrath S, Abot E, Limbach K, Shi M, Soisson L, Diggs C, Chuang I, Tamminga C, Epstein JE, Villasante E, Richie TL. PMID: 25211344; PMCID: PMC4161338.
      View in: PubMed   Mentions: 45     Fields:    Translation:HumansAnimalsCellsCTClinical Trials
    293. In vivo RNA interference screens identify regulators of antiviral CD4(+) and CD8(+) T cell differentiation. Immunity. 2014 Aug 21; 41(2):325-38. Chen R, Bélanger S, Frederick MA, Li B, Johnston RJ, Xiao N, Liu YC, Sharma S, Peters B, Rao A, Crotty S, Pipkin ME. PMID: 25148027; PMCID: PMC4160313.
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    294. The development and application of a quantitative peptide microarray based approach to protein interaction domain specificity space. Mol Cell Proteomics. 2014 Dec; 13(12):3647-62. Engelmann BW, Kim Y, Wang M, Peters B, Rock RS, Nash PD. PMID: 25135669; PMCID: PMC4256512.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    295. Transcriptional profile of tuberculosis antigen-specific T cells reveals novel multifunctional features. J Immunol. 2014 Sep 15; 193(6):2931-40. Arlehamn CL, Seumois G, Gerasimova A, Huang C, Fu Z, Yue X, Sette A, Vijayanand P, Peters B. PMID: 25092889; PMCID: PMC4157075.
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    296. Immunodominance changes as a function of the infecting dengue virus serotype and primary versus secondary infection. J Virol. 2014 Oct; 88(19):11383-94. Weiskopf D, Angelo MA, Sidney J, Peters B, Shresta S, Sette A. PMID: 25056881; PMCID: PMC4178794.
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    297. Potent neutralization of vaccinia virus by divergent murine antibodies targeting a common site of vulnerability in L1 protein. J Virol. 2014 Oct; 88(19):11339-55. Kaever T, Meng X, Matho MH, Schlossman A, Li S, Sela-Culang I, Ofran Y, Buller M, Crump RW, Parker S, Frazier A, Crotty S, Zajonc DM, Peters B, Xiang Y. PMID: 25031354; PMCID: PMC4178804.
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    298. Association between specific timothy grass antigens and changes in TH1- and TH2-cell responses following specific immunotherapy. J Allergy Clin Immunol. 2014 Nov; 134(5):1076-83. Schulten V, Tripple V, Sidney J, Greenbaum J, Frazier A, Alam R, Broide D, Peters B, Sette A. PMID: 25042980; PMCID: PMC4253970.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansAnimalsCellsCTClinical Trials
    299. Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions. BMC Bioinformatics. 2014 Jul 14; 15:241. Kim Y, Sidney J, Buus S, Sette A, Nielsen M, Peters B. PMID: 25017736; PMCID: PMC4111843.
      View in: PubMed   Mentions: 38     Fields:    Translation:HumansAnimalsCells
    300. Epigenomic analysis of primary human T cells reveals enhancers associated with TH2 memory cell differentiation and asthma susceptibility. Nat Immunol. 2014 Aug; 15(8):777-88. Seumois G, Chavez L, Gerasimova A, Lienhard M, Omran N, Kalinke L, Vedanayagam M, Ganesan AP, Chawla A, Djukanovic R, Ansel KM, Peters B, Rao A, Vijayanand P. PMID: 24997565; PMCID: PMC4140783.
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    301. Broadly reactive human CD8 T cells that recognize an epitope conserved between VZV, HSV and EBV. PLoS Pathog. 2014 Mar; 10(3):e1004008. Chiu C, McCausland M, Sidney J, Duh FM, Rouphael N, Mehta A, Mulligan M, Carrington M, Wieland A, Sullivan NL, Weinberg A, Levin MJ, Pulendran B, Peters B, Sette A, Ahmed R. PMID: 24675761; PMCID: PMC3968128.
      View in: PubMed   Mentions: 32     Fields:    Translation:HumansCells
    302. Using a combined computational-experimental approach to predict antibody-specific B cell epitopes. Structure. 2014 Apr 08; 22(4):646-57. Sela-Culang I, Benhnia MR, Matho MH, Kaever T, Maybeno M, Schlossman A, Nimrod G, Li S, Xiang Y, Zajonc D, Crotty S, Ofran Y, Peters B. PMID: 24631463.
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    303. Substantial gaps in knowledge of Bordetella pertussis antibody and T cell epitopes relevant for natural immunity and vaccine efficacy. Hum Immunol. 2014 May; 75(5):440-51. Vaughan K, Seymour E, Peters B, Sette A. PMID: 24530743; PMCID: PMC4792526.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansAnimalsCells
    304. Distinct roles of the methylcytosine oxidases Tet1 and Tet2 in mouse embryonic stem cells. Proc Natl Acad Sci U S A. 2014 Jan 28; 111(4):1361-6. Huang Y, Chavez L, Chang X, Wang X, Pastor WA, Kang J, Zepeda-Martínez JA, Pape UJ, Jacobsen SE, Peters B, Rao A. PMID: 24474761; PMCID: PMC3910590.
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    305. CD8 T-cell reactivity to islet antigens is unique to type 1 while CD4 T-cell reactivity exists in both type 1 and type 2 diabetes. J Autoimmun. 2014 May; 50:77-82. Sarikonda G, Pettus J, Phatak S, Sachithanantham S, Miller JF, Wesley JD, Cadag E, Chae J, Ganesan L, Mallios R, Edelman S, Peters B, von Herrath M. PMID: 24387802.
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    306. A molecular view of multiple sclerosis and experimental autoimmune encephalitis: what can we learn from the epitope data? J Neuroimmunol. 2014 Feb 15; 267(1-2):73-85. Vaughan K, Peters B, O'Connor KC, Martin R, Sette A. PMID: 24365494; PMCID: PMC4784960.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimals
    307. HLA class I alleles are associated with peptide-binding repertoires of different size, affinity, and immunogenicity. J Immunol. 2013 Dec 15; 191(12):5831-9. Paul S, Weiskopf D, Angelo MA, Sidney J, Peters B, Sette A. PMID: 24190657; PMCID: PMC3872965.
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    308. Temporal intra-individual variation of immunological biomarkers in type 1 diabetes patients: implications for future use in cross-sectional assessment. PLoS One. 2013; 8(11):e79383. Sarikonda G, Pettus J, Sachithanantham S, Phatak S, Miller JF, Ganesan L, Chae J, Mallios R, Edelman S, Peters B, von Herrath M. PMID: 24223938; PMCID: PMC3817042.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    309. Properties of MHC class I presented peptides that enhance immunogenicity. PLoS Comput Biol. 2013 Oct; 9(10):e1003266. Calis JJ, Maybeno M, Greenbaum JA, Weiskopf D, De Silva AD, Sette A, Kesmir C, Peters B. PMID: 24204222; PMCID: PMC3808449.
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    310. Evaluating the immunogenicity of protein drugs by applying in vitro MHC binding data and the immune epitope database and analysis resource. Clin Dev Immunol. 2013; 2013:467852. Paul S, Kolla RV, Sidney J, Weiskopf D, Fleri W, Kim Y, Peters B, Sette A. PMID: 24222776; PMCID: PMC3816028.
      View in: PubMed   Mentions: 39     Fields:    Translation:HumansCells
    311. Identification of minimal human MHC-restricted CD8+ T-cell epitopes within the Plasmodium falciparum circumsporozoite protein (CSP). Malar J. 2013 Jun 05; 12:185. Sedegah M, Kim Y, Ganeshan H, Huang J, Belmonte M, Abot E, Banania JG, Farooq F, McGrath S, Peters B, Sette A, Soisson L, Diggs C, Doolan DL, Tamminga C, Villasante E, Hollingdale MR, Richie TL. PMID: 23738590; PMCID: PMC3683343.
      View in: PubMed   Mentions: 27     Fields:    Translation:HumansAnimals
    312. Query enhancement through the practical application of ontology: the IEDB and OBI. J Biomed Semantics. 2013 Apr 15; 4 Suppl 1:S6. Vita R, Overton JA, Greenbaum JA, Sette A, OBI consortium, Peters B. PMID: 23734660; PMCID: PMC3633001.
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    313. Comprehensive analysis of dengue virus-specific responses supports an HLA-linked protective role for CD8+ T cells. Proc Natl Acad Sci U S A. 2013 May 28; 110(22):E2046-53. 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, Sette A. PMID: 23580623; PMCID: PMC3670335.
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    314. Bcl6 expressing follicular helper CD4 T cells are fate committed early and have the capacity to form memory. J Immunol. 2013 Apr 15; 190(8):4014-26. Choi YS, Yang JA, Yusuf I, Johnston RJ, Greenbaum J, Peters B, Crotty S. PMID: 23487426; PMCID: PMC3626566.
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    315. Previously undescribed grass pollen antigens are the major inducers of T helper 2 cytokine-producing T cells in allergic individuals. Proc Natl Acad Sci U S A. 2013 Feb 26; 110(9):3459-64. 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. PMID: 23401558; PMCID: PMC3587276.
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    316. A strategy to determine HLA class II restriction broadly covering the DR, DP, and DQ allelic variants most commonly expressed in the general population. Immunogenetics. 2013 May; 65(5):357-70. McKinney DM, Southwood S, Hinz D, Oseroff C, Arlehamn CS, Schulten V, Taplitz R, Broide D, Hanekom WA, Scriba TJ, Wood R, Alam R, Peters B, Sidney J, Sette A. PMID: 23392739; PMCID: PMC3633633.
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    317. Predicting cell types and genetic variations contributing to disease by combining GWAS and epigenetic data. PLoS One. 2013; 8(1):e54359. Gerasimova A, Chavez L, Li B, Seumois G, Greenbaum J, Rao A, Vijayanand P, Peters B. PMID: 23382893; PMCID: PMC3559682.
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    318. Memory T cells in latent Mycobacterium tuberculosis infection are directed against three antigenic islands and largely contained in a CXCR3+CCR6+ Th1 subset. PLoS Pathog. 2013 Jan; 9(1):e1003130. 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, Sette A. PMID: 23358848; PMCID: PMC3554618.
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    319. Positional bias of MHC class I restricted T-cell epitopes in viral antigens is likely due to a bias in conservation. PLoS Comput Biol. 2013; 9(1):e1002884. Kim Y, Yewdell JW, Sette A, Peters B. PMID: 23357871; PMCID: PMC3554532.
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    320. Navigating diabetes-related immune epitope data: resources and tools provided by the Immune Epitope Database (IEDB). Immunome Res. 2013; 9(1). Vaughan K, Peters B, Mallone R, von Herrath M, Roep BO, Sette A. PMID: 25140192; PMCID: PMC4134942.
      View in: PubMed   Mentions: 4  
    321. Strategies to query and display allergy-derived epitope data from the immune epitope database. Int Arch Allergy Immunol. 2013; 160(4):334-45. Vaughan K, Peters B, Larche M, Pomes A, Broide D, Sette A. PMID: 23172234; PMCID: PMC3629817.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimalsCells
    322. The identification of potentially pathogenic and therapeutic epitopes from common human allergens. Ann Allergy Asthma Immunol. 2013 Jan; 110(1):7-10. Schulten V, Oseroff C, Alam R, Broide D, Vijayanand P, Peters B, Sette A. PMID: 23244651; PMCID: PMC3547526.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    323. Unusual features of vaccinia virus extracellular virion form neutralization resistance revealed in human antibody responses to the smallpox vaccine. J Virol. 2013 Feb; 87(3):1569-85. Benhnia MR, Maybeno M, Blum D, Aguilar-Sino R, Matho M, Meng X, Head S, Felgner PL, Zajonc DM, Koriazova L, Kato S, Burton DR, Xiang Y, Crowe JE, Peters B, Crotty S. PMID: 23152530; PMCID: PMC3554146.
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    324. The immune epitope database: a historical retrospective of the first decade. Immunology. 2012 Oct; 137(2):117-23. Salimi N, Fleri W, Peters B, Sette A. PMID: 22681406; PMCID: PMC3461392.
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    325. Selective inhibition of CD4+ T-cell cytokine production and autoimmunity by BET protein and c-Myc inhibitors. Proc Natl Acad Sci U S A. 2012 Sep 04; 109(36):14532-7. 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. PMID: 22912406; PMCID: PMC3437860.
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    326. Polyfunctional CD4+ T cell responses to immunodominant epitopes correlate with disease activity of virulent Salmonella. PLoS One. 2012; 7(8):e43481. Maybeno M, Redeker A, Welten SP, Peters B, Loughhead SM, Schoenberger SP, Sette A, Arens R. PMID: 22912884; PMCID: PMC3422266.
      View in: PubMed   Mentions: 18     Fields:    Translation:AnimalsCellsPHPublic Health
    327. T cell responses to known allergen proteins are differently polarized and account for a variable fraction of total response to allergen extracts. J Immunol. 2012 Aug 15; 189(4):1800-11. 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. PMID: 22786768; PMCID: PMC3411923.
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    328. Analysis of T cell responses to the major allergens from German cockroach: epitope specificity and relationship to IgE production. J Immunol. 2012 Jul 15; 189(2):679-88. Oseroff C, Sidney J, Tripple V, Grey H, Wood R, Broide DH, Greenbaum J, Kolla R, Peters B, Pomés A, Sette A. PMID: 22706084; PMCID: PMC3392449.
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    329. A meta-analysis of the existing knowledge of immunoreactivity against hepatitis C virus (HCV). PLoS One. 2012; 7(5):e38028. Kim Y, Vaughan K, Greenbaum J, Peters B, Law M, Sette A. PMID: 22675428; PMCID: PMC3364976.
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    330. Drug hypersensitivity caused by alteration of the MHC-presented self-peptide repertoire. Proc Natl Acad Sci U S A. 2012 Jun 19; 109(25):9959-64. Ostrov DA, Grant BJ, Pompeu YA, Sidney J, Harndahl M, Southwood S, Oseroff C, Lu S, Jakoncic J, de Oliveira CA, Yang L, Mei H, Shi L, Shabanowitz J, English AM, Wriston A, Lucas A, Phillips E, Mallal S, Grey HM, Sette A, Hunt DF, Buus S, Peters B. PMID: 22645359; PMCID: PMC3382472.
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    331. Structural and biochemical characterization of the vaccinia virus envelope protein D8 and its recognition by the antibody LA5. J Virol. 2012 Aug; 86(15):8050-8. Matho MH, Maybeno M, Benhnia MR, Becker D, Meng X, Xiang Y, Crotty S, Peters B, Zajonc DM. PMID: 22623786; PMCID: PMC3421696.
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    332. Immune epitope database analysis resource. Nucleic Acids Res. 2012 Jul; 40(Web Server issue):W525-30. Kim Y, Ponomarenko J, Zhu Z, Tamang D, Wang P, Greenbaum J, Lundegaard C, Sette A, Lund O, Bourne PE, Nielsen M, Peters B. PMID: 22610854; PMCID: PMC3394288.
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    333. Dissecting mechanisms of immunodominance to the common tuberculosis antigens ESAT-6, CFP10, Rv2031c (hspX), Rv2654c (TB7.7), and Rv1038c (EsxJ). J Immunol. 2012 May 15; 188(10):5020-31. 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. PMID: 22504645; PMCID: PMC3345088.
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    334. Cost sensitive hierarchical document classification to triage PubMed abstracts for manual curation. BMC Bioinformatics. 2011 Dec 19; 12:482. Seymour E, Damle R, Sette A, Peters B. PMID: 22182279; PMCID: PMC3314711.
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    335. Insights into HLA-restricted T cell responses in a novel mouse model of dengue virus infection point toward new implications for vaccine design. J Immunol. 2011 Oct 15; 187(8):4268-79. 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. PMID: 21918184; PMCID: PMC3186824.
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    336. Human CD8⁺ and CD4⁺ T cell memory to lymphocytic choriomeningitis virus infection. J Virol. 2011 Nov; 85(22):11770-80. Kotturi MF, Swann JA, Peters B, Arlehamn CL, Sidney J, Kolla RV, James EA, Akondy RS, Ahmed R, Kwok WW, Buchmeier MJ, Sette A. PMID: 21900169; PMCID: PMC3209290.
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    337. A computational pipeline to generate MHC binding motifs. Immunome Res. 2011 May; 7(2). Wang P, Sidney J, Sette A, Peters B. PMID: 28747991; PMCID: PMC5524134.
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    338. Identification of CD4+ T cell epitopes in C. burnetii antigens targeted by antibody responses. PLoS One. 2011 Mar 15; 6(3):e17712. Chen C, Dow C, Wang P, Sidney J, Read A, Harmsen A, Samuel JE, Peters B. PMID: 21423609; PMCID: PMC3057979.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    339. Defining the herpes simplex virus-specific CD8+ T cell repertoire in C57BL/6 mice. J Immunol. 2011 Apr 01; 186(7):3927-33. St Leger AJ, Peters B, Sidney J, Sette A, Hendricks RL. PMID: 21357536; PMCID: PMC3308013.
      View in: PubMed   Mentions: 73     Fields:    Translation:AnimalsCells
    340. Towards defining molecular determinants recognized by adaptive immunity in allergic disease: an inventory of the available data. J Allergy (Cairo). 2010; 2010:628026. Vaughan K, Greenbaum J, Kim Y, Vita R, Chung J, Peters B, Broide D, Goodman R, Grey H, Sette A. PMID: 21403821; PMCID: PMC3042621.
      View in: PubMed   Mentions: 8  
    341. Functional classification of class II human leukocyte antigen (HLA) molecules reveals seven different supertypes and a surprising degree of repertoire sharing across supertypes. Immunogenetics. 2011 Jun; 63(6):325-35. Greenbaum J, Sidney J, Chung J, Brander C, Peters B, Sette A. PMID: 21305276; PMCID: PMC3626422.
      View in: PubMed   Mentions: 274     Fields:    Translation:HumansCells
    342. Functional analysis of frequently expressed Chinese rhesus macaque MHC class I molecules Mamu-A1*02601 and Mamu-B*08301 reveals HLA-A2 and HLA-A3 supertypic specificities. Immunogenetics. 2011 May; 63(5):275-90. Southwood S, Solomon C, Hoof I, Rudersdorf R, Sidney J, Peters B, Wahl A, Hawkins O, Hildebrand W, Mothé BR, Sette A. PMID: 21274527; PMCID: PMC3068250.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    343. Peptide binding predictions for HLA DR, DP and DQ molecules. BMC Bioinformatics. 2010 Nov 22; 11:568. Wang P, Sidney J, Kim Y, Sette A, Lund O, Nielsen M, Peters B. PMID: 21092157; PMCID: PMC2998531.
      View in: PubMed   Mentions: 373     Fields:    Translation:HumansCells
    344. Applications for T-cell epitope queries and tools in the Immune Epitope Database and Analysis Resource. J Immunol Methods. 2011 Nov 30; 374(1-2):62-9. Kim Y, Sette A, Peters B. PMID: 21047510; PMCID: PMC3041860.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansCells
    345. IEDB-3D: structural data within the immune epitope database. Nucleic Acids Res. 2011 Jan; 39(Database issue):D1164-70. Ponomarenko J, Papangelopoulos N, Zajonc DM, Peters B, Sette A, Bourne PE. PMID: 21030437; PMCID: PMC3013771.
      View in: PubMed   Mentions: 32     Fields:    Translation:Cells
    346. CD4+ T cells are not required for the induction of dengue virus-specific CD8+ T cell or antibody responses but contribute to protection after vaccination. J Immunol. 2010 Nov 01; 185(9):5405-16. Yauch LE, Prestwood TR, May MM, Morar MM, Zellweger RM, Peters B, Sette A, Shresta S. PMID: 20870934; PMCID: PMC2962919.
      View in: PubMed   Mentions: 119     Fields:    Translation:AnimalsCells
    347. Divergent motifs but overlapping binding repertoires of six HLA-DQ molecules frequently expressed in the worldwide human population. J Immunol. 2010 Oct 01; 185(7):4189-98. Sidney J, Steen A, Moore C, Ngo S, Chung J, Peters B, Sette A. PMID: 20810981; PMCID: PMC3307390.
      View in: PubMed   Mentions: 49     Fields:    Translation:HumansCells
    348. Identification and localization of minimal MHC-restricted CD8+ T cell epitopes within the Plasmodium falciparum AMA1 protein. Malar J. 2010 Aug 24; 9:241. Sedegah M, Kim Y, Peters B, McGrath S, Ganeshan H, Lejano J, Abot E, Banania G, Belmonte M, Sayo R, Farooq F, Doolan DL, Regis D, Tamminga C, Chuang I, Bruder JT, King CR, Ockenhouse CF, Faber B, Remarque E, Hollingdale MR, Richie TL, Sette A. PMID: 20735847; PMCID: PMC2939619.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    349. Molecular determinants of T cell epitope recognition to the common Timothy grass allergen. J Immunol. 2010 Jul 15; 185(2):943-55. Oseroff C, Sidney J, Kotturi MF, Kolla R, Alam R, Broide DH, Wasserman SI, Weiskopf D, McKinney DM, Chung JL, Petersen A, Grey H, Peters B, Sette A. PMID: 20554959; PMCID: PMC3310373.
      View in: PubMed   Mentions: 110     Fields:    Translation:HumansAnimalsCells
    350. Coverage of related pathogenic species by multivalent and cross-protective vaccine design: arenaviruses as a model system. Microbiol Mol Biol Rev. 2010 Jun; 74(2):157-70. Botten J, Sidney J, Mothé BR, Peters B, Sette A, Kotturi MF. PMID: 20508245; PMCID: PMC2884409.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    351. Meta-analysis of all immune epitope data in the Flavivirus genus: inventory of current immune epitope data status in the context of virus immunity and immunopathology. Viral Immunol. 2010 Jun; 23(3):259-84. Vaughan K, Greenbaum J, Blythe M, Peters B, Sette A. PMID: 20565291; PMCID: PMC2942863.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansAnimalsCells
    352. The most common Chinese rhesus macaque MHC class I molecule shares peptide binding repertoire with the HLA-B7 supertype. Immunogenetics. 2010 Jul; 62(7):451-64. Solomon C, Southwood S, Hoof I, Rudersdorf R, Peters B, Sidney J, Pinilla C, Marcondes MC, Ling B, Marx P, Sette A, Mothé BR. PMID: 20480161; PMCID: PMC2890073.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansAnimals
    353. IMMUNOCAT-a data management system for epitope mapping studies. J Biomed Biotechnol. 2010; 2010:856842. Chung JL, Sun J, Sidney J, Sette A, Peters B. PMID: 20490281; PMCID: PMC2871663.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    354. Polyfunctional CD4+ T cell responses to a set of pathogenic arenaviruses provide broad population coverage. Immunome Res. 2010 May 17; 6:4. Kotturi MF, Botten J, Maybeno M, Sidney J, Glenn J, Bui HH, Oseroff C, Crotty S, Peters B, Grey H, Altmann DM, Buchmeier MJ, Sette A. PMID: 20478058; PMCID: PMC2880318.
      View in: PubMed   Mentions: 15  
    355. TiArA: a virtual appliance for the analysis of Tiling Array data. PLoS One. 2010 Apr 01; 5(4):e9993. Greenbaum JA, Assarsson E, Chung JL, Head S, Sette A, Peters B. PMID: 20376318; PMCID: PMC2848623.
      View in: PubMed   Mentions:    Fields:    
    356. Design and utilization of epitope-based databases and predictive tools. Immunogenetics. 2010 Apr; 62(4):185-96. Salimi N, Fleri W, Peters B, Sette A. PMID: 20213141; PMCID: PMC2843836.
      View in: PubMed   Mentions: 16     Fields:    Translation:Humans
    357. Limitations of Ab initio predictions of peptide binding to MHC class II molecules. PLoS One. 2010 Feb 17; 5(2):e9272. Zhang H, Wang P, Papangelopoulos N, Xu Y, Sette A, Bourne PE, Lund O, Ponomarenko J, Nielsen M, Peters B. PMID: 20174654; PMCID: PMC2822856.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansCells
    358. Five HLA-DP molecules frequently expressed in the worldwide human population share a common HLA supertypic binding specificity. J Immunol. 2010 Mar 01; 184(5):2492-503. Sidney J, Steen A, Moore C, Ngo S, Chung J, Peters B, Sette A. PMID: 20139279; PMCID: PMC2935290.
      View in: PubMed   Mentions: 67     Fields:    Translation:HumansCells
    359. Hematopoietic cell types: prototype for a revised cell ontology. J Biomed Inform. 2011 Feb; 44(1):75-9. Diehl AD, Augustine AD, Blake JA, Cowell LG, Gold ES, Gondré-Lewis TA, Masci AM, Meehan TF, Morel PA, Nijnik A, Peters B, Pulendran B, Scheuermann RH, Yao QA, Zand MS, Mungall CJ. PMID: 20123131; PMCID: PMC2892030.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansAnimalsCells
    360. Uncovering the interplay between CD8, CD4 and antibody responses to complex pathogens. Future Microbiol. 2010 Feb; 5(2):221-39. Moutaftsi M, Tscharke DC, Vaughan K, Koelle DM, Stern L, Calvo-Calle M, Ennis F, Terajima M, Sutter G, Crotty S, Drexler I, Franchini G, Yewdell JW, Head SR, Blum J, Peters B, Sette A. PMID: 20143946; PMCID: PMC3363998.
      View in: PubMed   Mentions: 54     Fields:    Translation:HumansCells
    361. Two kinetic patterns of epitope-specific CD8 T-cell responses following murine gammaherpesvirus 68 infection. J Virol. 2010 Mar; 84(6):2881-92. Freeman ML, Lanzer KG, Cookenham T, Peters B, Sidney J, Wu TT, Sun R, Woodland DL, Sette A, Blackman MA. PMID: 20053740; PMCID: PMC2826075.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansAnimalsCells
    362. Definition of epitopes and antigens recognized by vaccinia specific immune responses: their conservation in variola virus sequences, and use as a model system to study complex pathogens. Vaccine. 2009 Dec 30; 27 Suppl 6:G21-6. Sette A, Grey H, Oseroff C, Peters B, Moutaftsi M, Crotty S, Assarsson E, Greenbaum J, Kim Y, Kolla R, Tscharke D, Koelle D, Johnson RP, Blum J, Head S, Sidney J. PMID: 20006135; PMCID: PMC2928716.
      View in: PubMed   Mentions: 31     Fields:    Translation:AnimalsCells
    363. A multivalent and cross-protective vaccine strategy against arenaviruses associated with human disease. PLoS Pathog. 2009 Dec; 5(12):e1000695. 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, Grey H, Buchmeier MJ, Sette A. PMID: 20019801; PMCID: PMC2787016.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    364. Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior. BMC Bioinformatics. 2009 Nov 30; 10:394. Kim Y, Sidney J, Pinilla C, Sette A, Peters B. PMID: 19948066; PMCID: PMC2790471.
      View in: PubMed   Mentions: 128     Fields:    Translation:Cells
    365. Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis. Hum Mol Genet. 2010 Feb 15; 19(4):707-19. Karp DR, Marthandan N, Marsh SG, Ahn C, Arnett FC, Deluca DS, Diehl AD, Dunivin R, Eilbeck K, Feolo M, Guidry PA, Helmberg W, Lewis S, Mayes MD, Mungall C, Natale DA, Peters B, Petersdorf E, Reveille JD, Smith B, Thomson G, Waller MJ, Scheuermann RH. PMID: 19933168; PMCID: PMC2807365.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    366. Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population. Proc Natl Acad Sci U S A. 2009 Dec 01; 106(48):20365-70. Greenbaum JA, Kotturi MF, Kim Y, Oseroff C, Vaughan K, Salimi N, Vita R, Ponomarenko J, Scheuermann RH, Sette A, Peters B. PMID: 19918065; PMCID: PMC2777968.
      View in: PubMed   Mentions: 195     Fields:    Translation:HumansCells
    367. The immune epitope database 2.0. Nucleic Acids Res. 2010 Jan; 38(Database issue):D854-62. Vita R, Zarebski L, Greenbaum JA, Emami H, Hoof I, Salimi N, Damle R, Sette A, Peters B. PMID: 19906713; PMCID: PMC2808938.
      View in: PubMed   Mentions: 322     Fields:    Translation:HumansAnimals
    368. Classification of the universe of immune epitope literature: representation and knowledge gaps. PLoS One. 2009 Sep 14; 4(9):e6948. Davies V, Vaughan K, Damle R, Peters B, Sette A. PMID: 19774228; PMCID: PMC2747625.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    369. Quantitating T cell cross-reactivity for unrelated peptide antigens. J Immunol. 2009 Oct 01; 183(7):4337-45. Ishizuka J, Grebe K, Shenderov E, Peters B, Chen Q, Peng Y, Wang L, Dong T, Pasquetto V, Oseroff C, Sidney J, Hickman H, Cerundolo V, Sette A, Bennink JR, McMichael A, Yewdell JW. PMID: 19734234; PMCID: PMC2762195.
      View in: PubMed   Mentions: 59     Fields:    Translation:HumansAnimalsCells
    370. Of mice and humans: how good are HLA transgenic mice as a model of human immune responses? Immunome Res. 2009 Jun 17; 5:3. Kotturi MF, Assarsson E, Peters B, Grey H, Oseroff C, Pasquetto V, Sette A. PMID: 19534819; PMCID: PMC2702351.
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    371. A protective role for dengue virus-specific CD8+ T cells. J Immunol. 2009 Apr 15; 182(8):4865-73. Yauch LE, Zellweger RM, Kotturi MF, Qutubuddin A, Sidney J, Peters B, Prestwood TR, Sette A, Shresta S. PMID: 19342665; PMCID: PMC2674070.
      View in: PubMed   Mentions: 211     Fields:    Translation:AnimalsCells
    372. Correlates of protection efficacy induced by vaccinia virus-specific CD8+ T-cell epitopes in the murine intranasal challenge model. Eur J Immunol. 2009 Mar; 39(3):717-22. Moutaftsi M, Salek-Ardakani S, Croft M, Peters B, Sidney J, Grey H, Sette A. PMID: 19224639; PMCID: PMC2759087.
      View in: PubMed   Mentions: 35     Fields:    Translation:AnimalsCellsPHPublic Health
    373. ElliPro: a new structure-based tool for the prediction of antibody epitopes. BMC Bioinformatics. 2008 Dec 02; 9:514. Ponomarenko J, Bui HH, Li W, Fusseder N, Bourne PE, Sette A, Peters B. PMID: 19055730; PMCID: PMC2607291.
      View in: PubMed   Mentions: 744     Fields:    Translation:HumansCells
    374. NetMHCpan, a method for MHC class I binding prediction beyond humans. Immunogenetics. 2009 Jan; 61(1):1-13. Hoof I, Peters B, Sidney J, Pedersen LE, Sette A, Lund O, Buus S, Nielsen M. PMID: 19002680; PMCID: PMC3319061.
      View in: PubMed   Mentions: 465     Fields:    Translation:HumansAnimalsCells
    375. Lymphocytic choriomeningitis virus infection yields overlapping CD4+ and CD8+ T-cell responses. J Virol. 2008 Dec; 82(23):11734-41. Dow C, Oseroff C, Peters B, Nance-Sotelo C, Sidney J, Buchmeier M, Sette A, Mothé BR. PMID: 18829752; PMCID: PMC2583689.
      View in: PubMed   Mentions: 27     Fields:    Translation:AnimalsCells
    376. Naive precursor frequencies and MHC binding rather than the degree of epitope diversity shape CD8+ T cell immunodominance. J Immunol. 2008 Aug 01; 181(3):2124-33. Kotturi MF, Scott I, Wolfe T, Peters B, Sidney J, Cheroutre H, von Herrath MG, Buchmeier MJ, Grey H, Sette A. PMID: 18641351; PMCID: PMC3319690.
      View in: PubMed   Mentions: 135     Fields:    Translation:AnimalsCells
    377. Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan. PLoS Comput Biol. 2008 Jul 04; 4(7):e1000107. Nielsen M, Lundegaard C, Blicher T, Peters B, Sette A, Justesen S, Buus S, Lund O. PMID: 18604266; PMCID: PMC2430535.
      View in: PubMed   Mentions: 161     Fields:    Translation:HumansCells
    378. A detailed analysis of the murine TAP transporter substrate specificity. PLoS One. 2008 Jun 11; 3(6):e2402. Burgevin A, Saveanu L, Kim Y, Barilleau E, Kotturi M, Sette A, van Endert P, Peters B. PMID: 18545702; PMCID: PMC2408963.
      View in: PubMed   Mentions: 18     Fields:    Translation:AnimalsCells
    379. Selective CD4+ T cell help for antibody responses to a large viral pathogen: deterministic linkage of specificities. Immunity. 2008 Jun; 28(6):847-58. Sette A, Moutaftsi M, Moyron-Quiroz J, McCausland MM, Davies DH, Johnston RJ, Peters B, Rafii-El-Idrissi Benhnia M, Hoffmann J, Su HP, Singh K, Garboczi DN, Head S, Grey H, Felgner PL, Crotty S. PMID: 18549802; PMCID: PMC2504733.
      View in: PubMed   Mentions: 131     Fields:    Translation:AnimalsCells
    380. Dissociation between epitope hierarchy and immunoprevalence in CD8 responses to vaccinia virus western reserve. J Immunol. 2008 Jun 01; 180(11):7193-202. Oseroff C, Peters B, Pasquetto V, Moutaftsi M, Sidney J, Panchanathan V, Tscharke DC, Maillere B, Grey H, Sette A. PMID: 18490718; PMCID: PMC2533852.
      View in: PubMed   Mentions: 55     Fields:    Translation:AnimalsCellsPHPublic Health
    381. Immune epitope database analysis resource (IEDB-AR). Nucleic Acids Res. 2008 Jul 01; 36(Web Server issue):W513-8. Zhang Q, Wang P, Kim Y, Haste-Andersen P, Beaver J, Bourne PE, Bui HH, Buus S, Frankild S, Greenbaum J, Lund O, Lundegaard C, Nielsen M, Ponomarenko J, Sette A, Zhu Z, Peters B. PMID: 18515843; PMCID: PMC2447801.
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    382. Cutting edge: murine cytomegalovirus induces a polyfunctional CD4 T cell response. J Immunol. 2008 May 15; 180(10):6472-6. Arens R, Wang P, Sidney J, Loewendorf A, Sette A, Schoenberger SP, Peters B, Benedict CA. PMID: 18453564; PMCID: PMC2587066.
      View in: PubMed   Mentions: 77     Fields:    Translation:AnimalsCells
    383. A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach. PLoS Comput Biol. 2008 Apr 04; 4(4):e1000048. Wang P, Sidney J, Dow C, Mothé B, Sette A, Peters B. PMID: 18389056; PMCID: PMC2267221.
      View in: PubMed   Mentions: 444     Fields:    Translation:Cells
    384. Kinetic analysis of a complete poxvirus transcriptome reveals an immediate-early class of genes. Proc Natl Acad Sci U S A. 2008 Feb 12; 105(6):2140-5. 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. PMID: 18245380; PMCID: PMC2542872.
      View in: PubMed   Mentions: 123     Fields:    Translation:HumansCells
    385. Analysis of epitope information related to Bacillus anthracis and Clostridium botulinum. Expert Rev Vaccines. 2008 Feb; 7(1):55-74. Zarebski LM, Vaughan K, Sidney J, Peters B, Grey H, Janda KD, Casadevall A, Sette A. PMID: 18251694; PMCID: PMC3319117.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
    386. Quantitative peptide binding motifs for 19 human and mouse MHC class I molecules derived using positional scanning combinatorial peptide libraries. Immunome Res. 2008 Jan 25; 4:2. Sidney J, Assarsson E, Moore C, Ngo S, Pinilla C, Sette A, Peters B. PMID: 18221540; PMCID: PMC2248166.
      View in: PubMed   Mentions: 207  
    387. HLA class I supertypes: a revised and updated classification. BMC Immunol. 2008 Jan 22; 9:1. Sidney J, Peters B, Frahm N, Brander C, Sette A. PMID: 18211710; PMCID: PMC2245908.
      View in: PubMed   Mentions: 423     Fields:    Translation:HumansCells
    388. An analysis of the epitope knowledge related to Mycobacteria. Immunome Res. 2007 Dec 14; 3:10. Blythe MJ, Zhang Q, Vaughan K, de Castro R, Salimi N, Bui HH, Lewinsohn DM, Ernst JD, Peters B, Sette A. PMID: 18081934; PMCID: PMC2228276.
      View in: PubMed   Mentions: 40  
    389. NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence. PLoS One. 2007 Aug 29; 2(8):e796. Nielsen M, Lundegaard C, Blicher T, Lamberth K, Harndahl M, Justesen S, Røder G, Peters B, Sette A, Lund O, Buus S. PMID: 17726526; PMCID: PMC1949492.
      View in: PubMed   Mentions: 374     Fields:    Translation:HumansCells
    390. Characterization of the peptide-binding specificity of the chimpanzee class I alleles A 0301 and A 0401 using a combinatorial peptide library. Immunogenetics. 2007 Sep; 59(9):745-51. Sidney J, Peters B, Moore C, Pencille TJ, Ngo S, Masterman KA, Asabe S, Pinilla C, Chisari FV, Sette A. PMID: 17701407.
      View in: PubMed   Mentions: 18     Fields:    Translation:AnimalsCells
    391. Automating document classification for the Immune Epitope Database. BMC Bioinformatics. 2007 Jul 26; 8:269. Wang P, Morgan AA, Zhang Q, Sette A, Peters B. PMID: 17655769; PMCID: PMC1965490.
      View in: PubMed   Mentions: 27     Fields:    
    392. A quantitative analysis of the variables affecting the repertoire of T cell specificities recognized after vaccinia virus infection. J Immunol. 2007 Jun 15; 178(12):7890-901. Assarsson E, Sidney J, Oseroff C, Pasquetto V, Bui HH, Frahm N, Brander C, Peters B, Grey H, Sette A. PMID: 17548627.
      View in: PubMed   Mentions: 119     Fields:    Translation:AnimalsCells
    393. Vaccinia virus-specific CD4+ T cell responses target a set of antigens largely distinct from those targeted by CD8+ T cell responses. J Immunol. 2007 Jun 01; 178(11):6814-20. Moutaftsi M, Bui HH, Peters B, Sidney J, Salek-Ardakani S, Oseroff C, Pasquetto V, Crotty S, Croft M, Lefkowitz EJ, Grey H, Sette A. PMID: 17513729.
      View in: PubMed   Mentions: 75     Fields:    Translation:AnimalsCells
    394. Integrating epitope data into the emerging web of biomedical knowledge resources. Nat Rev Immunol. 2007 Jun; 7(6):485-90. Peters B, Sette A. PMID: 17479127; PMCID: PMC7097317.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansAnimalsCells
    395. Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools. J Mol Recognit. 2007 Mar-Apr; 20(2):75-82. 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, Raghava GP, van Regenmortel MH, Roggen EL, Sette A, Schlessinger A, Sollner J, Zand M, Peters B. PMID: 17205610.
      View in: PubMed   Mentions: 101     Fields:    Translation:HumansAnimalsCells
    396. The CD8+ T-cell response to lymphocytic choriomeningitis virus involves the L antigen: uncovering new tricks for an old virus. J Virol. 2007 May; 81(10):4928-40. Kotturi MF, Peters B, Buendia-Laysa F, Sidney J, Oseroff C, Botten J, Grey H, Buchmeier MJ, Sette A. PMID: 17329346; PMCID: PMC1900207.
      View in: PubMed   Mentions: 83     Fields:    Translation:AnimalsCells
    397. Ab and T cell epitopes of influenza A virus, knowledge and opportunities. Proc Natl Acad Sci U S A. 2007 Jan 02; 104(1):246-51. Bui HH, Peters B, Assarsson E, Mbawuike I, Sette A. PMID: 17200302; PMCID: PMC1765443.
      View in: PubMed   Mentions: 105     Fields:    Translation:HumansAnimalsCells
    398. Immune epitope mapping in the post-genomic era: lessons for vaccine development. Curr Opin Immunol. 2007 Feb; 19(1):106-10. Sette A, Peters B. PMID: 17113275.
      View in: PubMed   Mentions: 38     Fields:    Translation:HumansAnimals
    399. Identification of protective Lassa virus epitopes that are restricted by HLA-A2. J Virol. 2006 Sep; 80(17):8351-61. Botten J, Alexander J, Pasquetto V, Sidney J, Barrowman P, Ting J, Peters B, Southwood S, Stewart B, Rodriguez-Carreno MP, Mothe B, Whitton JL, Sette A, Buchmeier MJ. PMID: 16912286; PMCID: PMC1563871.
      View in: PubMed   Mentions: 43     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    400. Curation of complex, context-dependent immunological data. BMC Bioinformatics. 2006 Jul 12; 7:341. Vita R, Vaughan K, Zarebski L, Salimi N, Fleri W, Grey H, Sathiamurthy M, Mokili J, Bui HH, Bourne PE, Ponomarenko J, de Castro R, Chan RK, Sidney J, Wilson SS, Stewart S, Way S, Peters B, Sette A. PMID: 16836764; PMCID: PMC1534061.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansAnimals
    401. Detailed characterization of the peptide binding specificity of five common Patr class I MHC molecules. Immunogenetics. 2006 Jul; 58(7):559-70. Sidney J, Asabe S, Peters B, Purton KA, Chung J, Pencille TJ, Purcell R, Walker CM, Chisari FV, Sette A. PMID: 16791621.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    402. A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus. Nat Biotechnol. 2006 Jul; 24(7):817-9. Moutaftsi M, Peters B, Pasquetto V, Tscharke DC, Sidney J, Bui HH, Grey H, Sette A. PMID: 16767078.
      View in: PubMed   Mentions: 336     Fields:    Translation:AnimalsCells
    403. A community resource benchmarking predictions of peptide binding to MHC-I molecules. PLoS Comput Biol. 2006 Jun 09; 2(6):e65. Peters B, Bui HH, Frankild S, Nielson M, Lundegaard C, Kostem E, Basch D, Lamberth K, Harndahl M, Fleri W, Wilson SS, Sidney J, Lund O, Buus S, Sette A. PMID: 16789818; PMCID: PMC1475712.
      View in: PubMed   Mentions: 143     Fields:    Translation:HumansAnimals
    404. The high frequency Indian rhesus macaque MHC class I molecule, Mamu-B*01, does not appear to be involved in CD8+ T lymphocyte responses to SIVmac239. J Immunol. 2005 Nov 01; 175(9):5986-97. Loffredo JT, Sidney J, Piaskowski S, Szymanski A, Furlott J, Rudersdorf R, Reed J, Peters B, Hickman-Miller HD, Bardet W, Rehrauer WM, O'Connor DH, Wilson NA, Hildebrand WH, Sette A, Watkins DI. PMID: 16237093.
      View in: PubMed   Mentions: 29     Fields:    Translation:AnimalsCells
    405. HLA-A*0201, HLA-A*1101, and HLA-B*0702 transgenic mice recognize numerous poxvirus determinants from a wide variety of viral gene products. J Immunol. 2005 Oct 15; 175(8):5504-15. Pasquetto V, Bui HH, Giannino R, Banh C, Mirza F, Sidney J, Oseroff C, Tscharke DC, Irvine K, Bennink JR, Peters B, Southwood S, Cerundolo V, Grey H, Yewdell JW, Sette A. PMID: 16210659.
      View in: PubMed   Mentions: 61     Fields:    Translation:HumansAnimalsCells
    406. An ontology for immune epitopes: application to the design of a broad scope database of immune reactivities. Immunome Res. 2005 Sep 20; 1(1):2. Sathiamurthy M, Peters B, Bui HH, Sidney J, Mokili J, Wilson SS, Fleri W, McGuinness DL, Bourne PE, Sette A. PMID: 16305755; PMCID: PMC1287064.
      View in: PubMed   Mentions: 19  
    407. HLA class I-restricted responses to vaccinia recognize a broad array of proteins mainly involved in virulence and viral gene regulation. Proc Natl Acad Sci U S A. 2005 Sep 27; 102(39):13980-5. Oseroff C, Kos F, Bui HH, Peters B, Pasquetto V, Glenn J, Palmore T, Sidney J, Tscharke DC, Bennink JR, Southwood S, Grey HM, Yewdell JW, Sette A. PMID: 16172378; PMCID: PMC1236582.
      View in: PubMed   Mentions: 89     Fields:    Translation:HumansCellsPHPublic Health
    408. Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method. BMC Bioinformatics. 2005 May 31; 6:132. Peters B, Sette A. PMID: 15927070; PMCID: PMC1173087.
      View in: PubMed   Mentions: 286     Fields:    Translation:Cells
    409. The design and implementation of the immune epitope database and analysis resource. Immunogenetics. 2005 Jun; 57(5):326-36. Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger SP, Stewart S, Surko P, Way S, Wilson S, Sette A. PMID: 15895191; PMCID: PMC4780685.
      View in: PubMed   Mentions: 53     Fields:    Translation:HumansAnimalsCells
    410. Automated generation and evaluation of specific MHC binding predictive tools: ARB matrix applications. Immunogenetics. 2005 Jun; 57(5):304-14. Bui HH, Sidney J, Peters B, Sathiamurthy M, Sinichi A, Purton KA, Mothé BR, Chisari FV, Watkins DI, Sette A. PMID: 15868141.
      View in: PubMed   Mentions: 138     Fields:    Translation:HumansAnimalsCells
    411. The immune epitope database and analysis resource: from vision to blueprint. PLoS Biol. 2005 Mar; 3(3):e91. Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger S, Stewart S, Surko P, Way S, Wilson S, Sette A. PMID: 15760272; PMCID: PMC1065705.
      View in: PubMed   Mentions: 202     Fields:    
    412. A roadmap for the immunomics of category A-C pathogens. Immunity. 2005 Feb; 22(2):155-61. Sette A, Fleri W, Peters B, Sathiamurthy M, Bui HH, Wilson S. PMID: 15773067.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansAnimalsCells
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