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Items: 1 to 50 of 223

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.

Downregulation of MHC Class I Expression by Influenza A and B Viruses.

Koutsakos M, McWilliam HEG, Aktepe TE, Fritzlar S, Illing PT, Mifsud NA, Purcell AW, Rockman S, Reading PC, Vivian JP, Rossjohn J, Brooks AG, Mackenzie JM, Mintern JD, Villadangos JA, Nguyen THO, Kedzierska K.

Front Immunol. 2019 May 29;10:1158. doi: 10.3389/fimmu.2019.01158. eCollection 2019.

5.

Improved peptide-MHC class II interaction prediction through integration of eluted ligand and peptide affinity data.

Garde C, Ramarathinam SH, Jappe EC, Nielsen M, Kringelum JV, Trolle T, Purcell AW.

Immunogenetics. 2019 Jul;71(7):445-454. doi: 10.1007/s00251-019-01122-z. Epub 2019 Jun 10.

PMID:
31183519
6.

Mass spectrometry-based identification of MHC-bound peptides for immunopeptidomics.

Purcell AW, Ramarathinam SH, Ternette N.

Nat Protoc. 2019 Jun;14(6):1687-1707. doi: 10.1038/s41596-019-0133-y. Epub 2019 May 15.

PMID:
31092913
7.

The Evolving Landscape of Autoantigen Discovery and Characterization in Type 1 Diabetes.

Purcell AW, Sechi S, DiLorenzo TP.

Diabetes. 2019 May;68(5):879-886. doi: 10.2337/dbi18-0066.

PMID:
31010879
8.

The three-dimensional structure of an H-superfamily conotoxin reveals a granulin fold arising from a common ICK cysteine framework.

Nielsen LD, Foged MM, Albert A, Bertelsen AB, Søltoft CL, Robinson SD, Petersen SV, Purcell AW, Olivera BM, Norton RS, Vasskog T, Safavi-Hemami H, Teilum K, Ellgaard L.

J Biol Chem. 2019 May 31;294(22):8745-8759. doi: 10.1074/jbc.RA119.007491. Epub 2019 Apr 11.

PMID:
30975904
9.

Amyloid Self-Assembly of hIAPP8-20 via the Accumulation of Helical Oligomers, α-Helix to β-Sheet Transition, and Formation of β-Barrel Intermediates.

Sun Y, Kakinen A, Xing Y, Faridi P, Nandakumar A, Purcell AW, Davis TP, Ke PC, Ding F.

Small. 2019 May;15(18):e1805166. doi: 10.1002/smll.201805166. Epub 2019 Mar 25.

PMID:
30908844
10.

HLA-associated antiepileptic drug-induced cutaneous adverse reactions.

Mullan KA, Anderson A, Illing PT, Kwan P, Purcell AW, Mifsud NA.

HLA. 2019 Jun;93(6):417-435. doi: 10.1111/tan.13530. Epub 2019 Apr 9. Review.

PMID:
30895730
11.

Positive-unlabelled learning of glycosylation sites in the human proteome.

Li F, Zhang Y, Purcell AW, Webb GI, Chou KC, Lithgow T, Li C, Song J.

BMC Bioinformatics. 2019 Mar 6;20(1):112. doi: 10.1186/s12859-019-2700-1.

12.

Human CD8+ T cell cross-reactivity across influenza A, B and C viruses.

Koutsakos M, Illing PT, Nguyen THO, Mifsud NA, Crawford JC, Rizzetto S, Eltahla AA, Clemens EB, Sant S, Chua BY, Wong CY, Allen EK, Teng D, Dash P, Boyd DF, Grzelak L, Zeng W, Hurt AC, Barr I, Rockman S, Jackson DC, Kotsimbos TC, Cheng AC, Richards M, Westall GP, Loudovaris T, Mannering SI, Elliott M, Tangye SG, Wakim LM, Rossjohn J, Vijaykrishna D, Luciani F, Thomas PG, Gras S, Purcell AW, Kedzierska K.

Nat Immunol. 2019 May;20(5):613-625. doi: 10.1038/s41590-019-0320-6. Epub 2019 Feb 18.

PMID:
30778243
13.

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.

14.

Physical and Toxicological Profiles of Human IAPP Amyloids and Plaques.

Kakinen A, Sun Y, Javed I, Faridi A, Pilkington EH, Faridi P, Purcell AW, Zhou R, Ding F, Lin S, Chun Ke P, Davis TP.

Sci Bull (Beijing). 2019 Jan 15;64(1):26-35. doi: 10.1016/j.scib.2018.11.012. Epub 2018 Nov 22.

PMID:
30662791
15.

The use of proteomics to understand antiviral immunity.

Woon AP, Purcell AW.

Semin Cell Dev Biol. 2018 Dec;84:22-29. doi: 10.1016/j.semcdb.2017.12.002. Epub 2018 Oct 8. Review.

PMID:
30449533
16.

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.

17.

Mitigating Human IAPP Amyloidogenesis In Vivo with Chiral Silica Nanoribbons.

Faridi A, Sun Y, Okazaki Y, Peng G, Gao J, Kakinen A, Faridi P, Zhao M, Javed I, Purcell AW, Davis TP, Lin S, Oda R, Ding F, Ke PC.

Small. 2018 Nov;14(47):e1802825. doi: 10.1002/smll.201802825. Epub 2018 Oct 7.

PMID:
30369028
18.

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
19.

Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods.

Li F, Wang Y, Li C, Marquez-Lago TT, Leier A, Rawlings ND, Haffari G, Revote J, Akutsu T, Chou KC, Purcell AW, Pike RN, Webb GI, Ian Smith A, Lithgow T, Daly RJ, Whisstock JC, Song J.

Brief Bioinform. 2018 Aug 29. doi: 10.1093/bib/bby077. [Epub ahead of print]

PMID:
30184176
20.

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
21.

Viral regulation of host cell biology by hijacking of the nucleolar DNA-damage response.

Rawlinson SM, Zhao T, Rozario AM, Rootes CL, McMillan PJ, Purcell AW, Woon A, Marsh GA, Lieu KG, Wang LF, Netter HJ, Bell TDM, Stewart CR, Moseley GW.

Nat Commun. 2018 Aug 3;9(1):3057. doi: 10.1038/s41467-018-05354-7.

22.

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.

23.

Immunopeptidomics Special Issue.

Ternette N, Purcell AW.

Proteomics. 2018 Jun;18(12):e1800145. doi: 10.1002/pmic.201800145. No abstract available.

PMID:
29949244
24.

Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome.

Li F, Li C, Marquez-Lago TT, Leier A, Akutsu T, Purcell AW, Ian Smith A, Lithgow T, Daly RJ, Song J, Chou KC.

Bioinformatics. 2018 Dec 15;34(24):4223-4231. doi: 10.1093/bioinformatics/bty522.

PMID:
29947803
25.

Inability To Detect Cross-Reactive Memory T Cells Challenges the Frequency of Heterologous Immunity among Common Viruses.

Rowntree LC, Nguyen THO, Halim H, Purcell AW, Rossjohn J, Gras S, Kotsimbos TC, Mifsud NA.

J Immunol. 2018 Jun 15;200(12):3993-4003. doi: 10.4049/jimmunol.1800010. Epub 2018 May 7.

26.

Reply to Roudier et al.: HLA-DRB1 polymorphism, anti-citrullinated protein antibodies, and rheumatoid arthritis.

Ting YT, Purcell AW, Reid HH, Rossjohn J.

J Biol Chem. 2018 May 4;293(18):7039. doi: 10.1074/jbc.RL118.003013. No abstract available.

27.

Tadpole-like Conformations of Huntingtin Exon 1 Are Characterized by Conformational Heterogeneity that Persists regardless of Polyglutamine Length.

Newcombe EA, Ruff KM, Sethi A, Ormsby AR, Ramdzan YM, Fox A, Purcell AW, Gooley PR, Pappu RV, Hatters DM.

J Mol Biol. 2018 May 11;430(10):1442-1458. doi: 10.1016/j.jmb.2018.03.031. Epub 2018 Apr 5.

28.

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.

29.

T cell autoreactivity directed toward CD1c itself rather than toward carried self lipids.

Wun KS, Reijneveld JF, Cheng TY, Ladell K, Uldrich AP, Le Nours J, Miners KL, McLaren JE, Grant EJ, Haigh OL, Watkins TS, Suliman S, Iwany S, Jimenez J, Calderon R, Tamara KL, Leon SR, Murray MB, Mayfield JA, Altman JD, Purcell AW, Miles JJ, Godfrey DI, Gras S, Price DA, Van Rhijn I, Moody DB, Rossjohn J.

Nat Immunol. 2018 Apr;19(4):397-406. doi: 10.1038/s41590-018-0065-7. Epub 2018 Mar 12.

30.

Identification of Native and Posttranslationally Modified HLA-B*57:01-Restricted HIV Envelope Derived Epitopes Using Immunoproteomics.

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.

Proteomics. 2018 Jun;18(12):e1700253. doi: 10.1002/pmic.201700253. Epub 2018 Apr 10.

PMID:
29437277
31.

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
32.

The interplay between citrullination and HLA-DRB1 polymorphism in shaping peptide binding hierarchies in rheumatoid arthritis.

Ting YT, Petersen J, Ramarathinam SH, Scally SW, Loh KL, Thomas R, Suri A, Baker DG, Purcell AW, Reid HH, Rossjohn J.

J Biol Chem. 2018 Mar 2;293(9):3236-3251. doi: 10.1074/jbc.RA117.001013. Epub 2018 Jan 9.

33.

The SysteMHC Atlas project.

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.

Nucleic Acids Res. 2018 Jan 4;46(D1):D1237-D1247. doi: 10.1093/nar/gkx664.

34.

Comparative Transcriptomics Highlights the Role of the Activator Protein 1 Transcription Factor in the Host Response to Ebolavirus.

Wynne JW, Todd S, Boyd V, Tachedjian M, Klein R, Shiell B, Dearnley M, McAuley AJ, Woon AP, Purcell AW, Marsh GA, Baker ML.

J Virol. 2017 Nov 14;91(23). pii: e01174-17. doi: 10.1128/JVI.01174-17. Print 2017 Dec 1.

35.

The molecular basis for peptide repertoire selection in the human leucocyte antigen (HLA) C*06:02 molecule.

Mobbs JI, Illing PT, Dudek NL, Brooks AG, Baker DG, Purcell AW, Rossjohn J, Vivian JP.

J Biol Chem. 2017 Oct 20;292(42):17203-17215. doi: 10.1074/jbc.M117.806976. Epub 2017 Aug 30.

36.

The role of HLA genes in pharmacogenomics: unravelling HLA associated adverse drug reactions.

Illing PT, Purcell AW, McCluskey J.

Immunogenetics. 2017 Aug;69(8-9):617-630. doi: 10.1007/s00251-017-1007-5. Epub 2017 Jul 10. Review.

PMID:
28695285
37.

Structural and regulatory diversity shape HLA-C protein expression levels.

Kaur G, Gras S, Mobbs JI, Vivian JP, Cortes A, Barber T, Kuttikkatte SB, Jensen LT, Attfield KE, Dendrou CA, Carrington M, McVean G, Purcell AW, Rossjohn J, Fugger L.

Nat Commun. 2017 Jun 26;8:15924. doi: 10.1038/ncomms15924.

38.

Huntingtin Inclusions Trigger Cellular Quiescence, Deactivate Apoptosis, and Lead to Delayed Necrosis.

Ramdzan YM, Trubetskov MM, Ormsby AR, Newcombe EA, Sui X, Tobin MJ, Bongiovanni MN, Gras SL, Dewson G, Miller JML, Finkbeiner S, Moily NS, Niclis J, Parish CL, Purcell AW, Baker MJ, Wilce JA, Waris S, Stojanovski D, Böcking T, Ang CS, Ascher DB, Reid GE, Hatters DM.

Cell Rep. 2017 May 2;19(5):919-927. doi: 10.1016/j.celrep.2017.04.029.

39.

Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells.

Ooi JD, Petersen J, Tan YH, Huynh M, Willett ZJ, Ramarathinam SH, Eggenhuizen PJ, Loh KL, Watson KA, Gan PY, Alikhan MA, Dudek NL, Handel A, Hudson BG, Fugger L, Power DA, Holt SG, Coates PT, Gregersen JW, Purcell AW, Holdsworth SR, La Gruta NL, Reid HH, Rossjohn J, Kitching AR.

Nature. 2017 May 11;545(7653):243-247. doi: 10.1038/nature22329. Epub 2017 May 3.

40.

HIVed, a knowledgebase for differentially expressed human genes and proteins during HIV infection, replication and latency.

Li C, Ramarathinam SH, Revote J, Khoury G, Song J, Purcell AW.

Sci Rep. 2017 Mar 30;7:45509. doi: 10.1038/srep45509.

41.

MHC-I peptides get out of the groove and enable a novel mechanism of HIV-1 escape.

Pymm P, Illing PT, Ramarathinam SH, O'Connor GM, Hughes VA, Hitchen C, Price DA, Ho BK, McVicar DW, Brooks AG, Purcell AW, Rossjohn J, Vivian JP.

Nat Struct Mol Biol. 2017 Apr;24(4):387-394. doi: 10.1038/nsmb.3381. Epub 2017 Feb 20.

PMID:
28218747
42.

Drugs and drug-like molecules can modulate the function of mucosal-associated invariant T cells.

Keller AN, Eckle SB, Xu W, Liu L, Hughes VA, Mak JY, Meehan BS, Pediongco T, Birkinshaw RW, Chen Z, Wang H, D'Souza C, Kjer-Nielsen L, Gherardin NA, Godfrey DI, Kostenko L, Corbett AJ, Purcell AW, Fairlie DP, McCluskey J, Rossjohn J.

Nat Immunol. 2017 Apr;18(4):402-411. doi: 10.1038/ni.3679. Epub 2017 Feb 6.

PMID:
28166217
43.

New Approaches to Investigate Drug-Induced Hypersensitivity.

Ogese MO, Ahmed S, Alferivic A, Betts CJ, Dickinson A, Faulkner L, French N, Gibson A, Hirschfield GM, Kammüller M, Meng X, Martin SF, Musette P, Norris A, Pirmohamed M, Park BK, Purcell AW, Spraggs CF, Whritenour J, Naisbitt DJ.

Chem Res Toxicol. 2017 Jan 17;30(1):239-259. doi: 10.1021/acs.chemrestox.6b00333. Epub 2016 Nov 15. Review.

PMID:
27806199
44.

Allotype specific interactions of drugs and HLA molecules in hypersensitivity reactions.

Illing PT, Mifsud NA, Purcell AW.

Curr Opin Immunol. 2016 Oct;42:31-40. doi: 10.1016/j.coi.2016.05.003. Epub 2016 Jun 2. Review.

PMID:
27261882
45.

CD1a on Langerhans cells controls inflammatory skin disease.

Kim JH, Hu Y, Yongqing T, Kim J, Hughes VA, Le Nours J, Marquez EA, Purcell AW, Wan Q, Sugita M, Rossjohn J, Winau F.

Nat Immunol. 2016 Oct;17(10):1159-66. doi: 10.1038/ni.3523. Epub 2016 Aug 22.

46.

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.

47.

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.

48.

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
49.

Rapid expansion of the protein disulfide isomerase gene family facilitates the folding of venom peptides.

Safavi-Hemami H, Li Q, Jackson RL, Song AS, Boomsma W, Bandyopadhyay PK, Gruber CW, Purcell AW, Yandell M, Olivera BM, Ellgaard L.

Proc Natl Acad Sci U S A. 2016 Mar 22;113(12):3227-32. doi: 10.1073/pnas.1525790113. Epub 2016 Mar 8.

50.

A prominent role of PDIA6 in processing of misfolded proinsulin.

Gorasia DG, Dudek NL, Safavi-Hemami H, Perez RA, Schittenhelm RB, Saunders PM, Wee S, Mangum JE, Hubbard MJ, Purcell AW.

Biochim Biophys Acta. 2016 Jun;1864(6):715-723. doi: 10.1016/j.bbapap.2016.03.002. Epub 2016 Mar 3.

PMID:
26947243

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