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Michael E Birnbaum - Publications

Affiliations: 
Massachusetts Institute of Technology, Cambridge, MA, United States 
Area:
T cell recognition
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42 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Huisman BD, Guan N, Rückert T, Garner L, Singh NK, McMichael AJ, Gillespie GM, Romagnani C, Birnbaum ME. Publisher Correction: High-throughput characterization of HLA-E-presented CD94/NKG2x ligands reveals peptides which modulate NK cell activation. Nature Communications. 14: 5264. PMID 37644057 DOI: 10.1038/s41467-023-40946-y  0.658
2023 Huisman BD, Guan N, Rückert T, Garner L, Singh NK, McMichael AJ, Gillespie GM, Romagnani C, Birnbaum ME. High-throughput characterization of HLA-E-presented CD94/NKG2x ligands reveals peptides which modulate NK cell activation. Nature Communications. 14: 4809. PMID 37558657 DOI: 10.1038/s41467-023-40220-1  0.694
2023 Nguyen KB, Roerden M, Copeland CJ, Backlund CM, Klop-Packel NG, Remba T, Kim B, Singh NK, Birnbaum ME, Irvine DJ, Spranger S. Decoupled neoantigen cross-presentation by dendritic cells limits anti-tumor immunity against tumors with heterogeneous neoantigen expression. Elife. 12. PMID 37548358 DOI: 10.7554/eLife.85263  0.604
2023 Lagattuta KA, Nathan A, Rumker L, Birnbaum ME, Raychaudhuri S. The T cell receptor sequence influences the likelihood of T cell memory formation. Biorxiv : the Preprint Server For Biology. PMID 37502994 DOI: 10.1101/2023.07.20.549939  0.314
2023 Li X, Singh NK, Collins DR, Ng R, Zhang A, Lamothe-Molina PA, Shahinian P, Xu S, Tan K, Piechocka-Trocha A, Urbach JM, Weber JK, Gaiha GD, Takou Mbah OC, Huynh T, ... ... Birnbaum M, et al. Molecular basis of differential HLA class I-restricted T cell recognition of a highly networked HIV peptide. Nature Communications. 14: 2929. PMID 37217466 DOI: 10.1038/s41467-023-38573-8  0.707
2023 Huisman BD, Balivada PA, Birnbaum ME. Yeast display platform with expression of linear peptide epitopes for high-throughput assessment of peptide-MHC-II binding. The Journal of Biological Chemistry. 102913. PMID 36649909 DOI: 10.1016/j.jbc.2023.102913  0.409
2022 Grace BE, Backlund CM, Morgan DM, Kang BH, Singh NK, Huisman BD, Rappazzo CG, Moynihan KD, Maiorino L, Dobson CS, Kyung T, Gordon KS, Holec PV, Mbah OCT, Garafola D, ... ... Birnbaum ME, et al. Identification of Highly Cross-Reactive Mimotopes for a Public T Cell Response in Murine Melanoma. Frontiers in Immunology. 13: 886683. PMID 35812387 DOI: 10.3389/fimmu.2022.886683  0.666
2022 Huisman BD, Dai Z, Gifford DK, Birnbaum ME. A high-throughput yeast display approach to profile pathogen proteomes for MHC-II binding. Elife. 11. PMID 35781135 DOI: 10.7554/eLife.78589  0.412
2022 Holec PV, Camacho KV, Breuckman KC, Mou J, Birnbaum ME. Proteome-Scale Screening to Identify High-Expression Signal Peptides with Minimal N-Terminus Biases via Yeast Display. Acs Synthetic Biology. PMID 35687717 DOI: 10.1021/acssynbio.2c00101  0.319
2022 Huisman BD, Grace BE, Holec PV, Birnbaum ME. Yeast Display for the Identification of Peptide-MHC Ligands of Immune Receptors. Methods in Molecular Biology (Clifton, N.J.). 2491: 263-291. PMID 35482196 DOI: 10.1007/978-1-0716-2285-8_15  0.485
2022 Dobson CS, Reich AN, Gaglione S, Smith BE, Kim EJ, Dong J, Ronsard L, Okonkwo V, Lingwood D, Dougan M, Dougan SK, Birnbaum ME. Antigen identification and high-throughput interaction mapping by reprogramming viral entry. Nature Methods. 19: 449-460. PMID 35396484 DOI: 10.1038/s41592-022-01436-z  0.308
2021 Lin X, George JT, Schafer NP, Chau KN, Birnbaum ME, Clementi C, Onuchic JN, Levine H. Rapid Assessment of T-Cell Receptor Specificity of the Immune Repertoire. Nature Computational Science. 1: 362-373. PMID 36090450 DOI: 10.1038/s43588-021-00076-1  0.437
2021 Kaseke C, Park RJ, Singh NK, Koundakjian D, Bashirova A, Garcia Beltran WF, Takou Mbah OC, Ma J, Senjobe F, Urbach JM, Nathan A, Rossin EJ, Tano-Menka R, Khatri A, Piechocka-Trocha A, ... ... Birnbaum ME, et al. HLA class-I-peptide stability mediates CD8 T cell immunodominance hierarchies and facilitates HLA-associated immune control of HIV. Cell Reports. 36: 109378. PMID 34260940 DOI: 10.1016/j.celrep.2021.109378  0.758
2021 Dai Z, Huisman BD, Zeng H, Carter B, Jain S, Birnbaum ME, Gifford DK. Machine learning optimization of peptides for presentation by class II MHCs. Bioinformatics (Oxford, England). PMID 33705522 DOI: 10.1093/bioinformatics/btab131  0.385
2020 Rappazzo CG, Huisman BD, Birnbaum ME. Repertoire-scale determination of class II MHC peptide binding via yeast display improves antigen prediction. Nature Communications. 11: 4414. PMID 32887877 DOI: 10.1038/S41467-020-18204-2  0.504
2020 Fernandes RA, Li C, Wang G, Yang X, Savvides CS, Glassman CR, Dong S, Luxenberg E, Sibener LV, Birnbaum ME, Benoist C, Mathis D, Garcia KC. Discovery of surrogate agonists for visceral fat Treg cells that modulate metabolic indices . Elife. 9. PMID 32773038 DOI: 10.7554/Elife.58463  0.623
2020 Mendoza JL, Fischer S, Gee MH, Lam LH, Brackenridge S, Powrie FM, Birnbaum M, McMichael AJ, Garcia KC, Gillespie GM. Interrogating the recognition landscape of a conserved HIV-specific TCR reveals distinct bacterial peptide cross-reactivity. Elife. 9. PMID 32716298 DOI: 10.7554/Elife.58128  0.743
2020 Fernandes RA, Li C, Wang G, Yang X, Savvides CS, Glassman CR, Dong S, Luxenberg E, Sibener LV, Birnbaum ME, Benoist C, Mathis D, Garcia KC. Author response: Discovery of surrogate agonists for visceral fat Treg cells that modulate metabolic indices in vivo Elife. DOI: 10.7554/Elife.58463.Sa2  0.449
2020 Mendoza JL, Fischer S, Gee MH, Lam LH, Brackenridge S, Powrie FM, Birnbaum M, McMichael AJ, Garcia KC, Gillespie GM. Author response: Interrogating the recognition landscape of a conserved HIV-specific TCR reveals distinct bacterial peptide cross-reactivity Elife. DOI: 10.7554/Elife.58128.Sa2  0.685
2019 Li A, Herbst RH, Canner D, Schenkel JM, Smith OC, Kim JY, Hillman M, Bhutkar A, Cuoco MS, Rappazzo CG, Rogers P, Dang C, Jerby-Arnon L, Rozenblatt-Rosen O, Cong L, ... Birnbaum M, et al. IL-33 Signaling Alters Regulatory T Cell Diversity in Support of Tumor Development. Cell Reports. 29: 2998-3008.e8. PMID 31801068 DOI: 10.1016/J.Celrep.2019.10.120  0.382
2019 Chu ND, Bi HS, Emerson RO, Sherwood AM, Birnbaum ME, Robins HS, Alm EJ. Longitudinal immunosequencing in healthy people reveals persistent T cell receptors rich in highly public receptors. Bmc Immunology. 20: 19. PMID 31226930 DOI: 10.1186/S12865-019-0300-5  0.439
2019 D'Souza MP, Adams E, Altman JD, Birnbaum ME, Boggiano C, Casorati G, Chien YH, Conley A, Eckle SBG, Früh K, Gondré-Lewis T, Hassan N, Huang H, Jayashankar L, Kasmar AG, et al. Casting a wider net: Immunosurveillance by nonclassical MHC molecules. Plos Pathogens. 15: e1007567. PMID 30789961 DOI: 10.1371/Journal.Ppat.1007567  0.508
2019 Jan M, Castano A, Walker A, Guirguis AA, Gasser JA, Bouffard AA, Slabicki M, Tepper A, Grinshpun DE, Kyung T, Sievers Q, Birnbaum ME, Maus MV, Ebert BL. Exploiting the Zinc Finger Degrome Targeted By Lenalidomide to Engineer Reversible Off-Switch Degradable Chimeric Antigen Receptors Blood. 134: 866-866. DOI: 10.1182/Blood-2019-124210  0.375
2018 Clancy-Thompson E, Devlin CA, Tyler PM, Servos MM, Ali LR, Ventre KS, Bhuiyan MA, Bruck PT, Birnbaum M, Dougan SK. Altered binding of tumor antigenic peptides to MHC class I affects CD8 T cell effector responses. Cancer Immunology Research. PMID 30352798 DOI: 10.2210/Pdb6Mp0/Pdb  0.536
2018 Holec PV, Berleant J, Bathe M, Birnbaum ME. A Bayesian framework for high-throughput T cell receptor pairing. Bioinformatics (Oxford, England). PMID 30215679 DOI: 10.1093/Bioinformatics/Bty801  0.408
2018 Sibener LV, Fernandes RA, Kolawole EM, Carbone CB, Liu F, McAffee D, Birnbaum ME, Yang X, Su LF, Yu W, Dong S, Gee MH, Jude KM, Davis MM, Groves JT, et al. Isolation of a Structural Mechanism for Uncoupling T Cell Receptor Signaling from Peptide-MHC Binding. Cell. 174: 672-687.e27. PMID 30053426 DOI: 10.1016/J.Cell.2018.06.017  0.606
2018 Gee MH, Sibener LV, Birnbaum ME, Jude KM, Yang X, Fernandes RA, Mendoza JL, Glassman CR, Garcia KC. Stress-testing the relationship between T cell receptor/peptide-MHC affinity and cross-reactivity using peptide velcro. Proceedings of the National Academy of Sciences of the United States of America. PMID 30021852 DOI: 10.1073/Pnas.1802746115  0.727
2017 Gee MH, Han A, Lofgren SM, Beausang JF, Mendoza JL, Birnbaum ME, Bethune MT, Fischer S, Yang X, Gomez-Eerland R, Bingham DB, Sibener LV, Fernandes RA, Velasco A, Baltimore D, et al. Antigen Identification for Orphan T Cell Receptors Expressed on Tumor-Infiltrating Lymphocytes. Cell. PMID 29275860 DOI: 10.1016/J.Cell.2017.11.043  0.729
2017 Rappazzo CG, Birnbaum ME. Tuning up T-cell receptors. Nature Biotechnology. 35: 1145-1146. PMID 29106406 DOI: 10.1038/Nbt.4009  0.424
2017 Hilton HG, McMurtrey CP, Han AS, Djaoud Z, Guethlein LA, Blokhuis JH, Pugh JL, Goyos A, Horowitz A, Buchli R, Jackson KW, Bardet W, Bushnell DA, Robinson PJ, Mendoza JL, ... Birnbaum ME, et al. The Intergenic Recombinant HLA-B∗46:01 Has a Distinctive Peptidome that Includes KIR2DL3 Ligands. Cell Reports. 19: 1394-1405. PMID 28514659 DOI: 10.1016/J.Celrep.2017.04.059  0.67
2015 Carrillo RA, Özkan E, Menon KP, Nagarkar-Jaiswal S, Lee PT, Jeon M, Birnbaum ME, Bellen HJ, Garcia KC, Zinn K. Control of Synaptic Connectivity by a Network of Drosophila IgSF Cell Surface Proteins. Cell. 163: 1770-82. PMID 26687361 DOI: 10.1016/J.Cell.2015.11.022  0.671
2015 Adams JJ, Narayanan S, Birnbaum ME, Sidhu SS, Blevins SJ, Gee MH, Sibener LV, Baker BM, Kranz DM, Garcia KC. Structural interplay between germline interactions and adaptive recognition determines the bandwidth of TCR-peptide-MHC cross-reactivity. Nature Immunology. PMID 26523866 DOI: 10.1038/Ni.3310  0.727
2015 Yu W, Jiang N, Ebert PJ, Kidd BA, Müller S, Lund PJ, Juang J, Adachi K, Tse T, Birnbaum ME, Newell EW, Wilson DM, Grotenbreg GM, Valitutti S, Quake SR, et al. Clonal Deletion Prunes but Does Not Eliminate Self-Specific αβ CD8(+) T Lymphocytes. Immunity. 42: 929-41. PMID 25992863 DOI: 10.1016/J.Immuni.2015.05.001  0.46
2015 Birnbaum ME, Garcia KC. Self-determination in the T cell repertoire. Immunity. 42: 8-10. PMID 25607452 DOI: 10.1016/J.Immuni.2014.12.025  0.579
2014 Birnbaum ME, Berry R, Hsiao YS, Chen Z, Shingu-Vazquez MA, Yu X, Waghray D, Fischer S, McCluskey J, Rossjohn J, Walz T, Garcia KC. Molecular architecture of the αβ T cell receptor-CD3 complex. Proceedings of the National Academy of Sciences of the United States of America. 111: 17576-81. PMID 25422432 DOI: 10.1073/Pnas.1420936111  0.518
2014 Birnbaum ME, Mendoza JL, Sethi DK, Dong S, Glanville J, Dobbins J, Ozkan E, Davis MM, Wucherpfennig KW, Garcia KC. Deconstructing the peptide-MHC specificity of T cell recognition. Cell. 157: 1073-87. PMID 24855945 DOI: 10.1016/J.Cell.2014.03.047  0.785
2013 Kim T, Vidal GS, Djurisic M, William CM, Birnbaum ME, Garcia KC, Hyman BT, Shatz CJ. Human LilrB2 is a β-amyloid receptor and its murine homolog PirB regulates synaptic plasticity in an Alzheimer's model. Science (New York, N.Y.). 341: 1399-404. PMID 24052308 DOI: 10.1126/Science.1242077  0.695
2012 Birnbaum ME, Dong S, Garcia KC. Diversity-oriented approaches for interrogating T-cell receptor repertoire, ligand recognition, and function. Immunological Reviews. 250: 82-101. PMID 23046124 DOI: 10.1111/Imr.12006  0.601
2012 Garcia KC, Gapin L, Adams JJ, Birnbaum ME, Scott-Browne JP, Kappler JW, Marrack P. A closer look at TCR germline recognition. Immunity. 36: 887-8. PMID 22705103 DOI: 10.1016/J.Immuni.2012.05.018  0.51
2011 Adams JJ, Narayanan S, Liu B, Birnbaum ME, Kruse AC, Bowerman NA, Chen W, Levin AM, Connolly JM, Zhu C, Kranz DM, Garcia KC. T cell receptor signaling is limited by docking geometry to peptide-major histocompatibility complex. Immunity. 35: 681-93. PMID 22101157 DOI: 10.1016/J.Immuni.2011.09.013  0.628
2010 Lupardus PJ, Birnbaum ME, Garcia KC. Molecular basis for shared cytokine recognition revealed in the structure of an unusually high affinity complex between IL-13 and IL-13Ralpha2. Structure (London, England : 1993). 18: 332-42. PMID 20223216 DOI: 10.1016/J.Str.2010.01.003  0.408
2010 Brudno Y, Birnbaum ME, Kleiner RE, Liu DR. An in vitro translation, selection and amplification system for peptide nucleic acids. Nature Chemical Biology. 6: 148-55. PMID 20081830 DOI: 10.1038/Nchembio.280  0.315
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