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Transient Immune Activation in BCG-Vaccinated Infant Rhesus Macaques Is Not Sufficient to Influence Oral Simian Immunodeficiency Virus Infection.

Wood MP, Wood LF, Templeton M, Fisher B, Lippy A, Jones CI, Lindestam Arlehamn CS, Sette A, Fuller JT, Murapa P, Jaspan HB, Fuller DH, Sodora DL.

J Infect Dis. 2019 Oct 12. pii: jiz382. doi: 10.1093/infdis/jiz382. [Epub ahead of print]


Benchmark datasets of immune receptor-epitope structural complexes.

Mahajan S, Yan Z, Jespersen MC, Jensen KK, Marcatili P, Nielsen M, Sette A, Peters B.

BMC Bioinformatics. 2019 Oct 10;20(1):490. doi: 10.1186/s12859-019-3109-6.


Human T Cell Response to Dengue Virus Infection.

Tian Y, Grifoni A, Sette A, Weiskopf D.

Front Immunol. 2019 Sep 4;10:2125. doi: 10.3389/fimmu.2019.02125. eCollection 2019. Review.


Anti-HIV potency of T-cell responses elicited by dendritic cell therapeutic vaccination.

Surenaud M, Montes M, Lindestam Arlehamn CS, Sette A, Banchereau J, Palucka K, Lelièvre JD, Lacabaratz C, Lévy Y.

PLoS Pathog. 2019 Sep 9;15(9):e1008011. doi: 10.1371/journal.ppat.1008011. eCollection 2019 Sep.


A survey of known immune epitopes in the enteroviruses strains associated with acute flaccid myelitis.

Grifoni A, Mahajan S, Sidney J, Martini S, Scheuermann RH, Peters B, Sette A.

Hum Immunol. 2019 Aug 23. pii: S0198-8859(19)30608-1. doi: 10.1016/j.humimm.2019.08.004. [Epub ahead of print]


Roles for the adaptive immune system in Parkinson's and Alzheimer's diseases.

Lindestam Arlehamn CS, Garretti F, Sulzer D, Sette A.

Curr Opin Immunol. 2019 Aug;59:115-120. doi: 10.1016/j.coi.2019.07.004. Epub 2019 Aug 17. Review.


Recognition of Class II MHC Peptide Ligands That Contain β-Amino Acids.

Cheloha RW, Woodham AW, Bousbaine D, Wang T, Liu S, Sidney J, Sette A, Gellman SH, Ploegh HL.

J Immunol. 2019 Sep 15;203(6):1619-1628. doi: 10.4049/jimmunol.1900536. Epub 2019 Aug 7.


A Modified Injector and Sample Acquisition Protocol Can Improve Data Quality and Reduce Inter-Instrument Variability of the Helios Mass Cytometer.

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.

Cytometry A. 2019 Sep;95(9):1019-1030. doi: 10.1002/cyto.a.23866. Epub 2019 Jul 30.


Characterization of Magnitude and Antigen Specificity of HLA-DP, DQ, and DRB3/4/5 Restricted DENV-Specific CD4+ T Cell Responses.

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.

Front Immunol. 2019 Jul 5;10:1568. doi: 10.3389/fimmu.2019.01568. eCollection 2019.


Quantification of epitope abundance reveals the effect of direct and cross-presentation on influenza CTL responses.

Wu T, Guan J, Handel A, Tscharke DC, Sidney J, Sette A, Wakim LM, Sng XYX, Thomas PG, Croft NP, Purcell AW, La Gruta NL.

Nat Commun. 2019 Jun 28;10(1):2846. doi: 10.1038/s41467-019-10661-8.


Circulating T cell-monocyte complexes are markers of immune perturbations.

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.

Elife. 2019 Jun 25;8. pii: e46045. doi: 10.7554/eLife.46045.


Nontuberculous Mycobacteria and Heterologous Immunity to Tuberculosis.

Shah JA, Lindestam Arlehamn CS, Horne DJ, Sette A, Hawn TR.

J Infect Dis. 2019 Aug 30;220(7):1091-1098. doi: 10.1093/infdis/jiz285.


IEDB-AR: immune epitope database-analysis resource in 2019.

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.

Nucleic Acids Res. 2019 Jul 2;47(W1):W502-W506. doi: 10.1093/nar/gkz452.


Longitudinal Analysis of the Human B Cell Response to Ebola Virus Infection.

Davis CW, Jackson KJL, McElroy AK, Halfmann P, Huang J, Chennareddy C, Piper AE, Leung Y, Albariño CG, Crozier I, Ellebedy AH, Sidney J, Sette A, Yu T, Nielsen SCA, Goff AJ, Spiropoulou CF, Saphire EO, Cavet G, Kawaoka Y, Mehta AK, Glass PJ, Boyd SD, Ahmed R.

Cell. 2019 May 30;177(6):1566-1582.e17. doi: 10.1016/j.cell.2019.04.036. Epub 2019 May 16.


Widespread Tau-Specific CD4 T Cell Reactivity in the General Population.

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.

J Immunol. 2019 Jul 1;203(1):84-92. doi: 10.4049/jimmunol.1801506. Epub 2019 May 13.


The association of allergic sensitization patterns in early childhood with disease manifestations and immunological reactivity at 10 years of age.

Schulten V, Frazier A, Calatroni A, Kattan M, Bacharier LB, O'Connor GT, Sandel MT, Wood RA, Wheatley LM, Togias A, Visness CM, Dresen A, Gern JE, Sette A.

Clin Exp Allergy. 2019 Aug;49(8):1087-1094. doi: 10.1111/cea.13406. Epub 2019 May 29.


Characterization and epitope identification of the T cell response in non-allergic individuals exposed to mouse allergen.

Grifoni A, da Silva Antunes R, Westernberg L, Pham J, Birrueta G, Peters B, Sette A, Schulten V.

World Allergy Organ J. 2019 Apr 20;12(4):100026. doi: 10.1016/j.waojou.2019.100026. eCollection 2019.


Genome-Wide Approach to the CD4 T-Cell Response to Human Herpesvirus 6B.

Hanson DJ, Tsvetkova O, Rerolle GF, Greninger AL, Sette A, Jing L, Campbell VL, Koelle DM.

J Virol. 2019 Jun 28;93(14). pii: e00321-19. doi: 10.1128/JVI.00321-19. Print 2019 Jul 15.


Naturally processed HLA-DR3-restricted HHV-6B peptides are recognized broadly with polyfunctional and cytotoxic CD4 T-cell responses.

Becerra-Artiles A, Cruz J, Leszyk JD, Sidney J, Sette A, Shaffer SA, Stern LJ.

Eur J Immunol. 2019 Aug;49(8):1167-1185. doi: 10.1002/eji.201948126. Epub 2019 May 2.


Comprehensive Review of Human Plasmodium falciparum-Specific CD8+ T Cell Epitopes.

Heide J, Vaughan KC, Sette A, Jacobs T, Schulze Zur Wiesch J.

Front Immunol. 2019 Mar 21;10:397. doi: 10.3389/fimmu.2019.00397. eCollection 2019. Review.


Variability in German Cockroach Extract Composition Greatly Impacts T Cell Potency in Cockroach-Allergic Donors.

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.

Front Immunol. 2019 Feb 27;10:313. doi: 10.3389/fimmu.2019.00313. eCollection 2019.


Dengue-specific CD8+ T cell subsets display specialized transcriptomic and TCR profiles.

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.

J Clin Invest. 2019 Mar 18;130:1727-1741. doi: 10.1172/JCI123726. eCollection 2019 Mar 18.


New epitopes in ovalbumin provide insights for cancer neoepitopes.

Karandikar SH, Sidney J, Sette A, Selby MJ, Korman AJ, Srivastava PK.

JCI Insight. 2019 Mar 14;5. pii: 127882. doi: 10.1172/jci.insight.127882.


Autoimmunity in Parkinson's Disease: The Role of α-Synuclein-Specific T Cells.

Garretti F, Agalliu D, Lindestam Arlehamn CS, Sette A, Sulzer D.

Front Immunol. 2019 Feb 25;10:303. doi: 10.3389/fimmu.2019.00303. eCollection 2019. Review.


Battery longevity of neurostimulators in Parkinson disease: A historic cohort study.

Sette AL, Seigneuret E, Reymond F, Chabardes S, Castrioto A, Boussat B, Moro E, François P, Fraix V.

Brain Stimul. 2019 Jul - Aug;12(4):851-857. doi: 10.1016/j.brs.2019.02.006. Epub 2019 Feb 25.


Host Transcriptomics as a Tool to Identify Diagnostic and Mechanistic Immune Signatures of Tuberculosis.

Burel JG, Babor M, Pomaznoy M, Lindestam Arlehamn CS, Khan N, Sette A, Peters B.

Front Immunol. 2019 Feb 19;10:221. doi: 10.3389/fimmu.2019.00221. eCollection 2019. Review.


Counter-regulation of regulatory T cells by autoreactive CD8+ T cells in rheumatoid arthritis.

Cammarata I, Martire C, Citro A, Raimondo D, Fruci D, Melaiu O, D'Oria V, Carone C, Peruzzi G, Cerboni C, Santoni A, Sidney J, Sette A, Paroli M, Caccavale R, Milanetti E, Riminucci M, Timperi E, Piconese S, Manzo A, Montecucco C, Scrivo R, Valesini G, Cariani E, Barnaba V.

J Autoimmun. 2019 May;99:81-97. doi: 10.1016/j.jaut.2019.02.001. Epub 2019 Feb 16.


Recurrent group A Streptococcus tonsillitis is an immunosusceptibility disease involving antibody deficiency and aberrant TFH cells.

Dan JM, Havenar-Daughton C, Kendric K, Al-Kolla R, Kaushik K, Rosales SL, Anderson EL, LaRock CN, Vijayanand P, Seumois G, Layfield D, Cutress RI, Ottensmeier CH, Lindestam Arlehamn CS, Sette A, Nizet V, Bothwell M, Brigger M, Crotty S.

Sci Transl Med. 2019 Feb 6;11(478). pii: eaau3776. doi: 10.1126/scitranslmed.aau3776.


Most viral peptides displayed by class I MHC on infected cells are immunogenic.

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.

Proc Natl Acad Sci U S A. 2019 Feb 19;116(8):3112-3117. doi: 10.1073/pnas.1815239116. Epub 2019 Feb 4.


Poor Antigen Processing of Poxvirus Particles Limits CD4+ T Cell Recognition and Impacts Immunogenicity of the Inactivated Vaccine.

Forsyth KS, DeHaven B, Mendonca M, Paul S, Sette A, Eisenlohr LC.

J Immunol. 2019 Mar 1;202(5):1340-1349. doi: 10.4049/jimmunol.1801099. Epub 2019 Jan 30.


Circulating MiRNA-195-5p and -451a in Transient and Acute Ischemic Stroke Patients in an Emergency Department.

Giordano M, Ciarambino T, D'Amico M, Trotta MC, Di Sette AM, Marfella R, Malatino L, Paolisso G, Adinolfi LE.

J Clin Med. 2019 Jan 22;8(2). pii: E130. doi: 10.3390/jcm8020130.


Hepatitis D Virus-Specific CD8+ T Cells Have a Memory-Like Phenotype Associated With Viral Immune Escape in Patients With Chronic Hepatitis D Virus Infection.

Kefalakes H, Koh C, Sidney J, Amanakis G, Sette A, Heller T, Rehermann B.

Gastroenterology. 2019 May;156(6):1805-1819.e9. doi: 10.1053/j.gastro.2019.01.035. Epub 2019 Jan 18.


Investigation of Outbreak-Specific Nonsynonymous Mutations on Ebolavirus GP in the Context of Known Immune Reactivity.

Vaughan K, Xu X, Peters B, Sette A.

J Immunol Res. 2018 Nov 15;2018:1846207. doi: 10.1155/2018/1846207. eCollection 2018.


Human IFN-γ immunity to mycobacteria is governed by both IL-12 and IL-23.

Martínez-Barricarte R, Markle JG, Ma CS, Deenick EK, Ramírez-Alejo N, Mele F, Latorre D, Mahdaviani SA, Aytekin C, Mansouri D, Bryant VL, Jabot-Hanin F, Deswarte C, Nieto-Patlán A, Surace L, Kerner G, Itan Y, Jovic S, Avery DT, Wong N, Rao G, Patin E, Okada S, Bigio B, Boisson B, Rapaport F, Seeleuthner Y, Schmidt M, Ikinciogullari A, Dogu F, Tanir G, Tabarsi P, Bloursaz MR, Joseph JK, Heer A, Kong XF, Migaud M, Lazarov T, Geissmann F, Fleckenstein B, Arlehamn CL, Sette A, Puel A, Emile JF, van de Vosse E, Quintana-Murci L, Di Santo JP, Abel L, Boisson-Dupuis S, Bustamante J, Tangye SG, Sallusto F, Casanova JL.

Sci Immunol. 2018 Dec 21;3(30). pii: eaau6759. doi: 10.1126/sciimmunol.aau6759.


A Review on T Cell Epitopes Identified Using Prediction and Cell-Mediated Immune Models for Mycobacterium tuberculosis and Bordetella pertussis.

Tian Y, da Silva Antunes R, Sidney J, Lindestam Arlehamn CS, Grifoni A, Dhanda SK, Paul S, Peters B, Weiskopf D, Sette A.

Front Immunol. 2018 Nov 29;9:2778. doi: 10.3389/fimmu.2018.02778. eCollection 2018. Review.


Epitope Specific Antibodies and T Cell Receptors in the Immune Epitope Database.

Mahajan S, Vita R, Shackelford D, Lane J, Schulten V, Zarebski L, Jespersen MC, Marcatili P, Nielsen M, Sette A, Peters B.

Front Immunol. 2018 Nov 20;9:2688. doi: 10.3389/fimmu.2018.02688. eCollection 2018.


Footprints of antigen processing boost MHC class II natural ligand predictions.

Barra C, Alvarez B, Paul S, Sette A, Peters B, Andreatta M, Buus S, Nielsen M.

Genome Med. 2018 Nov 16;10(1):84. doi: 10.1186/s13073-018-0594-6.


Mapping the MHC Class I-Spliced Immunopeptidome of Cancer Cells.

Liepe J, Sidney J, Lorenz FKM, Sette A, Mishto M.

Cancer Immunol Res. 2019 Jan;7(1):62-76. doi: 10.1158/2326-6066.CIR-18-0424. Epub 2018 Nov 13.


Cutting Edge: Transcriptional Profiling Reveals Multifunctional and Cytotoxic Antiviral Responses of Zika Virus-Specific CD8+ T Cells.

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.

J Immunol. 2018 Dec 15;201(12):3487-3491. doi: 10.4049/jimmunol.1801090. Epub 2018 Nov 9.


Generation and characterization of novel recombinant anti-hERG1 scFv antibodies for cancer molecular imaging.

Duranti C, Carraresi L, Sette A, Stefanini M, Lottini T, Crescioli S, Crociani O, Iamele L, De Jonge H, Gherardi E, Arcangeli A.

Oncotarget. 2018 Oct 9;9(79):34972-34989. doi: 10.18632/oncotarget.26200. eCollection 2018 Oct 9.


Predicting T cell recognition of MHC class I restricted neoepitopes.

Koşaloğlu-Yalçın Z, Lanka M, Frentzen A, Logandha Ramamoorthy Premlal A, Sidney J, Vaughan K, Greenbaum J, Robbins P, Gartner J, Sette A, Peters B.

Oncoimmunology. 2018 Aug 27;7(11):e1492508. doi: 10.1080/2162402X.2018.1492508. eCollection 2018.


The Immune Epitope Database (IEDB): 2018 update.

Vita R, Mahajan S, Overton JA, Dhanda SK, Martini S, Cantrell JR, Wheeler DK, Sette A, Peters B.

Nucleic Acids Res. 2019 Jan 8;47(D1):D339-D343. doi: 10.1093/nar/gky1006.


Peanut-specific T cell responses in patients with different clinical reactivity.

Birrueta G, Tripple V, Pham J, Manohar M, James EA, Kwok WW, Nadeau KC, Sette A, Peters B, Schulten V.

PLoS One. 2018 Oct 10;13(10):e0204620. doi: 10.1371/journal.pone.0204620. eCollection 2018.


Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 496 adults from San Diego, California, USA.

Moore E, Grifoni A, Weiskopf D, Schulten V, Arlehamn CSL, Angelo M, Pham J, Leary S, Sidney J, Broide D, Frazier A, Phillips E, Mallal S, Mack SJ, Sette A.

Hum Immunol. 2018 Dec;79(12):821-822. doi: 10.1016/j.humimm.2018.09.008. Epub 2018 Sep 29.


Detection of a Broad Range of Low-Level Major Histocompatibility Complex Class II-Restricted, Hepatitis Delta Virus (HDV)-Specific T-Cell Responses Regardless of Clinical Status.

Landahl J, Bockmann JH, Scheurich C, Ackermann C, Matzat V, Heide J, Nuurei T, D'Antonio G, von Felden J, Sette A, Peine S, Lohse AW, Luetgehetmann M, Marget M, Sidney J, Schulze Zur Wiesch J.

J Infect Dis. 2019 Jan 29;219(4):568-577. doi: 10.1093/infdis/jiy549.


Host resistance to pulmonary Mycobacterium tuberculosis infection requires CD153 expression.

Sallin MA, Kauffman KD, Riou C, Du Bruyn E, Foreman TW, Sakai S, Hoft SG, Myers TG, Gardina PJ, Sher A, Moore R, Wilder-Kofie T, Moore IN, Sette A, Lindestam Arlehamn CS, Wilkinson RJ, Barber DL.

Nat Microbiol. 2018 Nov;3(11):1198-1205. doi: 10.1038/s41564-018-0231-6. Epub 2018 Sep 10.


Limited Pulmonary Mucosal-Associated Invariant T Cell Accumulation and Activation during Mycobacterium tuberculosis Infection in Rhesus Macaques.

Kauffman KD, Sallin MA, Hoft SG, Sakai S, Moore R, Wilder-Kofie T, Moore IN, Sette A, Arlehamn CSL, Barber DL.

Infect Immun. 2018 Nov 20;86(12). pii: e00431-18. doi: 10.1128/IAI.00431-18. Print 2018 Dec.


Allergen content in German cockroach extracts and sensitization profiles to a new expanded set of cockroach allergens determine in vitro extract potency for IgE reactivity.

Glesner J, Filep S, Vailes LD, Wünschmann S, Chapman MD, Birrueta G, Frazier A, Jeong KY, Schal C, Bacharier L, Beigelman A, Busse P, Schulten V, Sette A, Pomés A.

J Allergy Clin Immunol. 2019 Apr;143(4):1474-1481.e8. doi: 10.1016/j.jaci.2018.07.036. Epub 2018 Aug 28.


Determination of a Predictive Cleavage Motif for Eluted Major Histocompatibility Complex Class II Ligands.

Paul S, Karosiene E, Dhanda SK, Jurtz V, Edwards L, Nielsen M, Sette A, Peters B.

Front Immunol. 2018 Aug 6;9:1795. doi: 10.3389/fimmu.2018.01795. eCollection 2018.


Disruption of an antimycobacterial circuit between dendritic and helper T cells in human SPPL2a deficiency.

Kong XF, Martinez-Barricarte R, Kennedy J, Mele F, Lazarov T, Deenick EK, Ma CS, Breton G, Lucero KB, Langlais D, Bousfiha A, Aytekin C, Markle J, Trouillet C, Jabot-Hanin F, Arlehamn CSL, Rao G, Picard C, Lasseau T, Latorre D, Hambleton S, Deswarte C, Itan Y, Abarca K, Moraes-Vasconcelos D, Ailal F, Ikinciogullari A, Dogu F, Benhsaien I, Sette A, Abel L, Boisson-Dupuis S, Schröder B, Nussenzweig MC, Liu K, Geissmann F, Tangye SG, Gros P, Sallusto F, Bustamante J, Casanova JL.

Nat Immunol. 2018 Sep;19(9):973-985. doi: 10.1038/s41590-018-0178-z. Epub 2018 Aug 20.

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