Immunopeptidomics

Lead: Dr. Nicola Ternette, E-Mail: nicola.ternette@ndm.ox.ac.uk

 

Research Interest

The Immunopeptidomics group is focussing their work around T cell antigen discovery and the analysis of MHC-associated peptide ligands using LC-MS/MS. The group has broad expertise of deep sequencing of immunopeptidomes in multiple pathogen infection models, analysis of the antigenic landscape of solid tumours and haematological cancers and characterisation of antigens involved in autoimmune diseases.

The laboratory is based at the Centre for Cellular and Molecular Physiology (CCMP) in the Henry Wellcome Building for Molecular Physiology, and we currently run two state-of-the-art liquid chromatography mass spectrometry (LC-MS) systems: QE-HFX (Thermo Scientific), and a TripleTOF 5600 both coupled to Ultimate 3000 nano ultra performance liquid chromatography (nUPLC) systems.

 

ImmunopeptidomicsGroupPhoto1
Group Members

Dr. Yoanna Ariosa (Research Assistant)
Dr. Rebecca Powell-Doherty (visiting Postdoctoral Researcher Prof. Jack Satsangi’s group)
Dr. Annalisa Nicastri (Research Assistant)
Xu Peng (DPhil Candidate)
Dr. Nicola Ternette (Lead)
Dr Fergus Poynton (Postdococtoral Researcher)
Dr. Hanqing Liao (Bioinformatics)
Dr. Robert Parker (Postdoctoral Researcher)

 

Selected Publications

All publications listed here: https://www.ncbi.nlm.nih.gov/pubmed/?term=ternette

Chikata T, Paes W, Akahoshi T, Partridge T, Murakoshi H, Gatanaga H, Ternette N, Oka S, Borrow P, Takiguchi M. Identification of immunodominant HIV-1 epitopes presented by HLA-C*12:02, a protective allele, using an immunopeptidomics approach. J Virol. 2019 Jun 19. pii: JVI.00634-19. doi: 10.1128/JVI.00634-19.

Mohsen MO, Vogel M, Riether C, Muller J, Salatino S, Ternette N, Gomes AC, Cabral-Miranda G, El-Turabi A, Ruedl C, Kundig TM, Dermime S, Knuth A, Speiser DE, Bachmann MF. Targeting Mutated Plus Germline Epitopes Confers Pre-clinical Efficacy of an Instantly Formulated Cancer Nano-Vaccine. Front Immunol. 2019 May 15;10:1015. doi: 10.3389/fimmu.2019.01015.

Corridoni D, Shiraishi S, Chapman T, Steevels T, Muraro D, Thézénas ML, Prota G, Chen JL, Gileadi U, Ternette N, Cerundolo V, Simmons A. NOD2 and TLR2 Signal via TBK1 and PI31 to Direct Cross-Presentation and CD8 T Cell Responses. Front Immunol. 2019 Apr 30;10:958. doi: 10.3389/fimmu.2019.00958.

Purcell AW, Ramarathinam SH, Ternette N. Mass spectrometry-based identification of MHC-bound peptides for immunopeptidomics. Nat Prot. 2019 Jun;14(6):1687-1707. doi: 10.1038/s41596-019-0133-y. Epub 2019 May 15.

Andreatta M, Nicastri A, Peng X, Hancock G, Dorrell L, Ternette N, Nielsen M. MS-rescue: A Computational Pipeline to Increase the Quality and Yield of Immunopeptidomics Experiments. Proteomics. 2018 Dec 21:e1800357. doi: 10.1002/pmic.201800357

Faridi P, Li C, Ramarathinam SH, Vivian JP, Illing PT, Mifsud NA, Ayala R, Song J, Gearing LJ, Hertzog PJ, Ternette N, Rossjohn J, Croft NP, Purcell AW. A subset of HLA-I peptides are not genomically templated: Evidence for cis- and trans-spliced peptide ligands. Sci Immunol. 2018 Oct 12;3(28). pii: eaar3947. doi: 10.1126/sciimmunol.aar3947.

Ternette N, Purcell AW. Immunopeptidomics Special Issue. Proteomics. 2018 Jun;18(12):e1800145. doi: 10.1002/pmic.201800145.

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. Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE). Proteomics. 2018 Jun;18(12):e1800110. doi: 10.1002/pmic.201800110.

Ternette N, Olde Nordkamp, M*, Muller J, Anderson A, Nicastri A, Hill AVS, Kessler BM, Li D Immunopeptidomic profiling of triple-negative breast cancer patients identifies potential immunotherapy target antigens. Proteomics 2018,doi: 10.1002/pmic.201700465

Partridge T, Nicastri A, Kliszczak AE, Yindom LM, Kessler BM, Ternette N, and Borrow P. Discrimination between HLA class I-bound and co-purified HIV-derived peptides in immunopeptidomics workflows.Front. Immunol.2018 doi: 10.3389/fimmu.2018.00912

Ramarathinam SH, Gras S, Alcantara S, Yeung AWS, Mifsud NA, Sonza S, Illing PT, Glaros EN, Center RJ, Thomas SR, Kent SJ, Ternette N, Purcell DFJ, Rossjohn J, Purcell AW. Identification of Native and Posttranslationally Modified HLA-B*57:01-Restricted HIV Envelope Derived Epitopes Using Immunoproteomics. Proteomics. 2018 Jun;18(12):e1700253. doi: 10.1002/pmic.201700253.

Nielsen M, Connelley T, Ternette N. Improved prediction of Bovine Leucocyte Antigens (BoLA) presented ligands by use of mass spectrometry-determined ligand- and in-vitro binding data. J Proteome Res. 2017 Nov 8. doi: 10.1021/acs.jproteome.7b00675.

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. The SysteMHC Atlas project. Nucleic Acids Res. 2017 Jul 29. doi: 10.1093/nar/gkx664.

Ternette N, Yang H, Partridge T, Llano A, Cedeño S, Fischer R, Charles P, Dudek NL, Purcell AW, Borrow P, Mothe B, Crespo M, Dorrell L, Brander C, Kessler BM, Hanke T. Defining the HLA Class I-Associated Viral Antigen Repertoire from HIV-1-Infected Cells. European Journal of Immunology. 2016 Jan;46(1):60-9. doi: 10.1002/eji.201545890

 

Address and contact:

Immunopeptidomics
The Jenner Institute
University of Oxford
Henry Wellcome Building for Molecular Physiology
OXFORD,
OX37 7BN,
UK