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Items: 37

1.

Response to Comment on "A subset of HLA-I peptides are not genomically templated: Evidence for cis- and trans-spliced peptide ligands".

Faridi P, Li C, Ramarathinam SH, Illing PT, Mifsud NA, Ayala R, Song J, Gearing LJ, Croft NP, Purcell AW.

Sci Immunol. 2019 Aug 16;4(38). pii: eaaw8457. doi: 10.1126/sciimmunol.aaw8457.

PMID:
31420321
2.

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.

3.

A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction.

Mei S, Li F, Leier A, Marquez-Lago TT, Giam K, Croft NP, Akutsu T, Smith AI, Li J, Rossjohn J, Purcell AW, Song J.

Brief Bioinform. 2019 Jun 14. pii: bbz051. doi: 10.1093/bib/bbz051. [Epub ahead of print]

PMID:
31204427
4.

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.

5.

HLA-B57 micropolymorphism defines the sequence and conformational breadth of the immunopeptidome.

Illing PT, Pymm P, Croft NP, Hilton HG, Jojic V, Han AS, Mendoza JL, Mifsud NA, Dudek NL, McCluskey J, Parham P, Rossjohn J, Vivian JP, Purcell AW.

Nat Commun. 2018 Nov 8;9(1):4693. doi: 10.1038/s41467-018-07109-w.

6.

A subset of HLA-I peptides are not genomically templated: Evidence for cis- and trans-spliced peptide ligands.

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.

Sci Immunol. 2018 Oct 12;3(28). pii: eaar3947. doi: 10.1126/sciimmunol.aar3947.

PMID:
30315122
7.

Employing proteomics in the study of antigen presentation: an update.

Ramarathinam SH, Croft NP, Illing PT, Faridi P, Purcell AW.

Expert Rev Proteomics. 2018 Aug;15(8):637-645. doi: 10.1080/14789450.2018.1509000. Epub 2018 Aug 13. Review.

PMID:
30080115
8.

Isolation of T cell receptors targeting recurrent neoantigens in hematological malignancies.

Tubb VM, Schrikkema DS, Croft NP, Purcell AW, Linnemann C, Freriks MR, Chen F, Long HM, Lee SP, Bendle GM.

J Immunother Cancer. 2018 Jul 13;6(1):70. doi: 10.1186/s40425-018-0386-y.

9.

The Use of CRISPR/Cas9 Gene Editing to Confirm Congenic Contaminations in Host-Pathogen Interaction Studies.

Ferrand J, Croft NP, Pépin G, Diener KR, Wu D, Mangan NE, Pedersen J, Behlke MA, Hayball JD, Purcell AW, Ferrero RL, Gantier MP.

Front Cell Infect Microbiol. 2018 Mar 19;8:87. doi: 10.3389/fcimb.2018.00087. eCollection 2018.

10.

In Immunopeptidomics We Need a Sniper Instead of a Shotgun.

Faridi P, Purcell AW, Croft NP.

Proteomics. 2018 Jun;18(12):e1700464. doi: 10.1002/pmic.201700464. Epub 2018 Mar 7.

PMID:
29377634
11.

Conserved Features in the Structure, Mechanism, and Biogenesis of the Inverse Autotransporter Protein Family.

Heinz E, Stubenrauch CJ, Grinter R, Croft NP, Purcell AW, Strugnell RA, Dougan G, Lithgow T.

Genome Biol Evol. 2016 Jun 13;8(6):1690-705. doi: 10.1093/gbe/evw112.

12.

Characterization of the Antigen Processing Machinery and Endogenous Peptide Presentation of a Bat MHC Class I Molecule.

Wynne JW, Woon AP, Dudek NL, Croft NP, Ng JH, Baker ML, Wang LF, Purcell AW.

J Immunol. 2016 Jun 1;196(11):4468-76. doi: 10.4049/jimmunol.1502062. Epub 2016 Apr 27.

13.

Immunology by numbers: quantitation of antigen presentation completes the quantitative milieu of systems immunology!

Purcell AW, Croft NP, Tscharke DC.

Curr Opin Immunol. 2016 Jun;40:88-95. doi: 10.1016/j.coi.2016.03.007. Epub 2016 Apr 6. Review.

PMID:
27060633
14.

Human Leukocyte Antigen (HLA) B27 Allotype-Specific Binding and Candidate Arthritogenic Peptides Revealed through Heuristic Clustering of Data-independent Acquisition Mass Spectrometry (DIA-MS) Data.

Schittenhelm RB, Sivaneswaran S, Lim Kam Sian TC, Croft NP, Purcell AW.

Mol Cell Proteomics. 2016 Jun;15(6):1867-76. doi: 10.1074/mcp.M115.056358. Epub 2016 Feb 29.

15.

A Systems Approach to Understand Antigen Presentation and the Immune Response.

Dudek NL, Croft NP, Schittenhelm RB, Ramarathinam SH, Purcell AW.

Methods Mol Biol. 2016;1394:189-209. doi: 10.1007/978-1-4939-3341-9_14.

PMID:
26700050
16.

Sizing up the key determinants of the CD8(+) T cell response.

Tscharke DC, Croft NP, Doherty PC, La Gruta NL.

Nat Rev Immunol. 2015 Nov;15(11):705-16. doi: 10.1038/nri3905. Epub 2015 Oct 9. Review.

PMID:
26449178
17.

Quantifying epitope presentation using mass spectrometry.

Croft NP, Purcell AW, Tscharke DC.

Mol Immunol. 2015 Dec;68(2 Pt A):77-80. doi: 10.1016/j.molimm.2015.06.010. Epub 2015 Jun 25. Review.

PMID:
26118903
18.

A comprehensive analysis of peptides presented by HLA-A1.

Giam K, Ayala-Perez R, Illing PT, Schittenhelm RB, Croft NP, Purcell AW, Dudek NL.

Tissue Antigens. 2015 Jun;85(6):492-6. doi: 10.1111/tan.12565. Epub 2015 Apr 16.

PMID:
25880248
19.

T Cell Cross-Reactivity between a Highly Immunogenic EBV Epitope and a Self-Peptide Naturally Presented by HLA-B*18:01+ Cells.

Rist MJ, Hibbert KM, Croft NP, Smith C, Neller MA, Burrows JM, Miles JJ, Purcell AW, Rossjohn J, Gras S, Burrows SR.

J Immunol. 2015 May 15;194(10):4668-75. doi: 10.4049/jimmunol.1500233. Epub 2015 Apr 8.

20.

Simultaneous Quantification of Viral Antigen Expression Kinetics Using Data-Independent (DIA) Mass Spectrometry.

Croft NP, de Verteuil DA, Smith SA, Wong YC, Schittenhelm RB, Tscharke DC, Purcell AW.

Mol Cell Proteomics. 2015 May;14(5):1361-72. doi: 10.1074/mcp.M114.047373. Epub 2015 Mar 9.

21.

mRNA Structural constraints on EBNA1 synthesis impact on in vivo antigen presentation and early priming of CD8+ T cells.

Tellam JT, Zhong J, Lekieffre L, Bhat P, Martinez M, Croft NP, Kaplan W, Tellam RL, Khanna R.

PLoS Pathog. 2014 Oct 9;10(10):e1004423. doi: 10.1371/journal.ppat.1004423. eCollection 2014 Oct.

22.

The cellular redox environment alters antigen presentation.

Trujillo JA, Croft NP, Dudek NL, Channappanavar R, Theodossis A, Webb AI, Dunstone MA, Illing PT, Butler NS, Fett C, Tscharke DC, Rossjohn J, Perlman S, Purcell AW.

J Biol Chem. 2014 Oct 3;289(40):27979-91. doi: 10.1074/jbc.M114.573402. Epub 2014 Aug 18.

23.

Structural and functional correlates of enhanced antiviral immunity generated by heteroclitic CD8 T cell epitopes.

Trujillo JA, Gras S, Twist KA, Croft NP, Channappanavar R, Rossjohn J, Purcell AW, Perlman S.

J Immunol. 2014 Jun 1;192(11):5245-56. doi: 10.4049/jimmunol.1400111. Epub 2014 May 2.

24.

A comprehensive analysis of constitutive naturally processed and presented HLA-C*04:01 (Cw4)-specific peptides.

Schittenhelm RB, Dudek NL, Croft NP, Ramarathinam SH, Purcell AW.

Tissue Antigens. 2014 Mar;83(3):174-9. doi: 10.1111/tan.12282. Epub 2014 Jan 7.

PMID:
24397554
25.

Discovery of novel disease-specific and membrane-associated candidate markers in a mouse model of multiple sclerosis.

Dagley LF, Croft NP, Isserlin R, Olsen JB, Fong V, Emili A, Purcell AW.

Mol Cell Proteomics. 2014 Mar;13(3):679-700. doi: 10.1074/mcp.M113.033340. Epub 2013 Dec 20.

26.

HLA peptide length preferences control CD8+ T cell responses.

Rist MJ, Theodossis A, Croft NP, Neller MA, Welland A, Chen Z, Sullivan LC, Burrows JM, Miles JJ, Brennan RM, Gras S, Khanna R, Brooks AG, McCluskey J, Purcell AW, Rossjohn J, Burrows SR.

J Immunol. 2013 Jul 15;191(2):561-71. doi: 10.4049/jimmunol.1300292. Epub 2013 Jun 7.

27.

Kinetics of antigen expression and epitope presentation during virus infection.

Croft NP, Smith SA, Wong YC, Tan CT, Dudek NL, Flesch IE, Lin LC, Tscharke DC, Purcell AW.

PLoS Pathog. 2013 Jan;9(1):e1003129. doi: 10.1371/journal.ppat.1003129. Epub 2013 Jan 31.

28.

Constitutive and inflammatory immunopeptidome of pancreatic β-cells.

Dudek NL, Tan CT, Gorasia DG, Croft NP, Illing PT, Purcell AW.

Diabetes. 2012 Nov;61(11):3018-25. doi: 10.2337/db11-1333. Epub 2012 Aug 7.

29.

Tracking protein aggregation and mislocalization in cells with flow cytometry.

Ramdzan YM, Polling S, Chia CP, Ng IH, Ormsby AR, Croft NP, Purcell AW, Bogoyevitch MA, Ng DC, Gleeson PA, Hatters DM.

Nat Methods. 2012 Mar 18;9(5):467-70. doi: 10.1038/nmeth.1930.

PMID:
22426490
30.

Direct quantitation of MHC-bound peptide epitopes by selected reaction monitoring.

Tan CT, Croft NP, Dudek NL, Williamson NA, Purcell AW.

Proteomics. 2011 Jun;11(11):2336-40. doi: 10.1002/pmic.201000531. Epub 2011 May 20.

PMID:
21598389
31.

Peptidomimetics: modifying peptides in the pursuit of better vaccines.

Croft NP, Purcell AW.

Expert Rev Vaccines. 2011 Feb;10(2):211-26. doi: 10.1586/erv.10.161. Review.

PMID:
21332270
32.

Epitope discovery and their use in peptide based vaccines.

Dudek NL, Perlmutter P, Aguilar MI, Croft NP, Purcell AW.

Curr Pharm Des. 2010;16(28):3149-57. Review.

PMID:
20687873
33.

Enhancing tumor vaccines: catalyzing MHC class II peptide exchange.

Croft NP, Purcell AW.

Expert Rev Vaccines. 2010 Feb;9(2):129-32. doi: 10.1586/erv.09.159. Review.

PMID:
20109023
34.

Stage-specific inhibition of MHC class I presentation by the Epstein-Barr virus BNLF2a protein during virus lytic cycle.

Croft NP, Shannon-Lowe C, Bell AI, Horst D, Kremmer E, Ressing ME, Wiertz EJ, Middeldorp JM, Rowe M, Rickinson AB, Hislop AD.

PLoS Pathog. 2009 Jun;5(6):e1000490. doi: 10.1371/journal.ppat.1000490. Epub 2009 Jun 26.

35.

Specific targeting of the EBV lytic phase protein BNLF2a to the transporter associated with antigen processing results in impairment of HLA class I-restricted antigen presentation.

Horst D, van Leeuwen D, Croft NP, Garstka MA, Hislop AD, Kremmer E, Rickinson AB, Wiertz EJ, Ressing ME.

J Immunol. 2009 Feb 15;182(4):2313-24. doi: 10.4049/jimmunol.0803218.

36.

An HLA-A2-restricted T-cell epitope mapped to the BNLF2a immune evasion protein of Epstein-Barr virus that inhibits TAP.

Bell MJ, Abbott RJ, Croft NP, Hislop AD, Burrows SR.

J Virol. 2009 Mar;83(6):2783-8. doi: 10.1128/JVI.01724-08. Epub 2009 Jan 7.

37.

A CD8+ T cell immune evasion protein specific to Epstein-Barr virus and its close relatives in Old World primates.

Hislop AD, Ressing ME, van Leeuwen D, Pudney VA, Horst D, Koppers-Lalic D, Croft NP, Neefjes JJ, Rickinson AB, Wiertz EJ.

J Exp Med. 2007 Aug 6;204(8):1863-73. Epub 2007 Jul 9.

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