Key Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction

Autor: Zhiqin Huang, Pramod K. Srivastava, Song Liu, Jason A. Greenbaum, Dirk Jäger, Jiaqian Wang, Ognjen Milicevic, Willem-Jan Krebber, Barbara Schrörs, Sean Michael Boyle, Michal Bassani-Sternberg, Ana M. Mijalkovic Lazic, Amit A. Lugade, Kristen K. Dang, Han Si, Alessandro Sette, Jeffrey P. Ward, Irsan Kooi, Michael F. Princiotta, Begonya Comin-Anduix, Thierry Schuepbach, Pia Kvistborg, Julia Kodysh, William Chour, Vladimir B. Kovacevic, Jan H. Kessler, Ariella Sasson, Antoni Ribas, Brian Stevenson, Sriram Sridhar, Prateek Tanden, Robert D. Schreiber, Jason Perera, Kathleen C. F. Sheehan, Hira Rizvi, Sachet A. Shukla, Baikang Pei, Han Chang, Bo Li, Ion I. Mandoiu, Cristina Puig-Saus, Beatriz M. Carreno, Si Qiu, Jennifer M. Shelton, Patrick Jongeneel, Qiang Hu, Taha Merghoub, Matthew D. Hellmann, James P. Conway, Francisco Arcila, Ton N. Schumacher, Mathias Vormehr, Christopher A. Morehouse, Patrice Manning, Jonathon Blake, Pornpimol Charoentong, Angela Frentzen, Christopher A. Miller, Michael A. Kuziora, Bin Song, Lei Wei, Martin Löwer, Gabor Bartha, Justin Guinney, Niels Halama, Rolf Hilker, Yinong Sebastian, Veliborka Josipovic, Jason Harris, Geng Liu, Guilhem Richard, Arjun A. Rao, Nikola M. Skundric, Markus Mueller, Daniel K. Wells, Tatiana Shcheglova, Inka Zörnig, Weixuan Fu, John Sidney, Nadine Defranoux, Gabriela Steiner, Joseph D. Szustakowski, Arbel D. Tadmor, Maxim N. Artyomov, Jianmin Wang, George Coukos, Brandon W. Higgs, Milica R. Kojicic, Siranush Sarkizova, Daphne van Beek, Naibo Yang, Robert Ziman, Mignonette H. Macabali, Thomas Yu, Nicolas Guex, Nina Bhardwaj, Lorenzo F. Fanchi, Bjoern Peters, Christian Iseli, Song Wu, Maren Lang, Juliet Forman, Marit M. van Buuren, David Balli, Steven L. C. Ketelaars, Nir Hacohen, Ekaterina Esaulova, Maarten Slagter, Todd Creasy, Robert A. Petit, Yi-Hsiang Hsu, Ravi Gupta, Katie M. Campbell, Pascal Gellert, David Haussler, Jesse M. Zaretsky, Sofie R. Salama, Vanessa M. Hubbard-Lucey, Joel Greshock, Zeynep Kosaloglu Yalcin, Cornelis J. M. Melief, Priyanka Shah, Ioannis Xenarios, Nevena M. Ilic Raicevic, Andrew Lamb, Suchit Jhunjhunwala, Aly A. Khan, David Gfeller, James R. Heath, Richard Chen, Jia M. Chen, Alphonsus H. C. Ng, Elham Sherafat, Ana Belen Blazquez, Leo J. Lee, Beata Berent-Maoz, Cheryl Selinsky, Jasreet Hundal, Eduardo Cortes, Xengie Doan, Sahar Al Seesi, Adam Kolom, Fred Ramsdell, Nicolas Robine, Andrew J. Rech

Many approaches to identify therapeutically relevant neoantigens couple tumor sequencing with bioinformatic algorithms and inferred rules of tumor epitope immunogenicity. However, there are no reference data to compare these approaches, and the param

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5b788124c42a6ace5b9cb5efa2f3572c
https://resolver.caltech.edu/CaltechAUTHORS:20201019-121956456

Novel insights into the HLA class I immunopeptidome and T-cell immunosurveillance

Autor: Jan H. Kessler, Cornelis J. M. Melief

Publikováno v: Genome Medicine, Vol 9, Iss 1, Pp 1-3 (2017)
Genome Medicine

Editorial summary Advances in mass spectrometry have allowed the high-throughput quantitative identification of human leukocyte antigen (HLA) class I ligands, and recent studies have reported on the breadth and diversity of the HLA class I immunopept

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::47952e35601b71cab6bfc11ad57cb94b
http://link.springer.com/article/10.1186/s13073-017-0439-8

Competition-based cellular peptide binding assays for 13 prevalent HLA class I alleles using fluorescein-labeled synthetic peptides

Autor: Sjoerd H. van der Burg, Jan W. Drijfhout, Willemien E. Benckhuijsen, Bregje Mommaas, Jan H. Kessler, Tuna Mutis, Ivo Huijbers, Els Goulmy, Debby C.J. Vissers, Cornelis J. M. Melief, Rienk Offringa, Geziena M.Th. Schreuder

Publikováno v: Kessler, J H, Mommaas, B, Mutis, T, Huijbers, I, Vissers, D, Benckhuijsen, W E, Schreuder, G M T, Offringa, R, Goulmy, E, Melief, C J M, Van der Burg, S H & Drijfhout, J W 2003, ' Competition-based cellular peptide binding assays for 13 prevalent HLA class I alleles using fluorescein-labeled synthetic peptides ', Human Immunology, vol. 64, no. 2, pp. 245-255 . https://doi.org/10.1016/S0198-8859(02)00787-5
Human Immunology, 64(2), 245-255. Elsevier Inc.

We report the development, validation, and application of competition-based peptide binding assays for 13 prevalent human leukocyte antigen (HLA) class I alleles. The assays are based on peptide binding to HLA molecules on living cells carrying the p

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2be1b85f782a67612f7ecd8fed600996
https://doi.org/10.1016/s0198-8859(02)00787-5

A BCR-ABL Oncoprotein p210b2a2 Fusion Region Sequence Is Recognized by HLA-DR2a Restricted Cytotoxic T Lymphocytes and Presented by HLA-DR Matched Cells Transfected With an Iib2a2 Construct

Autor: Onno C. Leeksma, Annemieke Geluk, Barbara C. Godthelp, George J.A. ten Bosch, Cornelis J. M. Melief, Jan H. Kessler, Alexandra A. Bres-Vloemans, Jeroen van Bergen, Antonia M. Joosten

Publikováno v: Blood. 94:1038-1045

Peptides corresponding to the fusion site in 210 kD BCR-ABL protein b3a2 (p210b3a2) were previously shown to bind to several HLA class I and II alleles. We have found that b3a2 peptide-specific CD4-positive T-helper cells were able to recognize p210b

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::ef2f3a5d8fa5df56b625411a87078577
https://doi.org/10.1182/blood.v94.3.1038.415k22_1038_1045

Tyrosine phosphorylation-dependent activation of phosphatidylinositide 3-kinase occurs upstream of CA2+-signalling induced by Fcgamma receptor cross-linking in human neutrophils

Autor: Dirk Roos, Paula J.M. Vossebeld, Arthur J. Verhoeven, Jan H. Kessler, Christa H. E. Homburg, Leo Koenderman, Iñaki Ibarrola, René C. Schweizer

Publikováno v: Biochemical Journal, 323, 87-94. Portland Press Ltd.

The effect of wortmannin on IgG-receptor (FcgammaR)-mediated stimulation of human neutrophils was investigated. The Ca2+ influx induced by clustering of both Fcgamma receptors was inhibited by wortmannin, as was the release of Ca2+ from intracellular

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::00e7f04336c62309603c0f7b9d41a983
https://dare.uva.nl/personal/pure/en/publications/tyrosine-phosphorylationdependent-activation-of-phosphatidylinositide-3kinase-occurs-upstream-of-ca2signalling-induced-by-fcgamma-receptor-crosslinking-in-human-neutrophils(ca68f728-2a3a-40a7-94c8-30bf407da323).html