My Bibliography

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Iwasaki H, Suwanai H, Yakou F, Sakai H, Ishii K, Hara N, Buckle AM, Kanekura K, Miyagi T, Narumi S, Suzuki R. Disulfide Bonds of Thyroid Peroxidase Are Critical Elements for Subcellular Localization, Proteasome-Dependent Degradation, and Enzyme Activity. Thyroid. 2024 Apr 11;. doi: 10.1089/thy.2023.0514. [Epub ahead of print] PubMed PMID: 38482822.

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Chan ED, King PT, Bai X, Schoffstall AM, Sandhaus RA, Buckle AM. The Inhibition of Serine Proteases by Serpins Is Augmented by Negatively Charged Heparin: A Concise Review of Some Clinically Relevant Interactions. Int J Mol Sci. 2024 Feb 2;25(3). doi: 10.3390/ijms25031804. Review. PubMed PMID: 38339082; PubMed Central PMCID: PMC10855260.

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Bai X, Schountz T, Buckle AM, Talbert JL, Sandhaus RA, Chan ED. Alpha-1-antitrypsin antagonizes COVID-19: a review of the epidemiology, molecular mechanisms, and clinical evidence. Biochem Soc Trans. 2023 Jun 28;51(3):1361-1375. doi: 10.1042/BST20230078. Review. PubMed PMID: 37294003; PubMed Central PMCID: PMC10317171.

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Bai X, Bai A, Tomasicchio M, Hagman JR, Buckle AM, Gupta A, Kadiyala V, Bevers S, Serban KA, Kim K, Feng Z, Spendier K, Hagen G, Fornis L, Griffith DE, Dzieciatkowska M, Sandhaus RA, Gerber AN, Chan ED. α1-Antitrypsin Binds to the Glucocorticoid Receptor with Anti-Inflammatory and Antimycobacterial Significance in Macrophages. J Immunol. 2022 Nov 1;209(9):1746-1759. doi: 10.4049/jimmunol.2200227. Epub 2022 Sep 26. PubMed PMID: 36162872; PubMed Central PMCID: PMC10829398.

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Webb CT, Yang W, Riley BT, Hayes BK, Sivaraman KK, Malcolm TR, Harrop S, Atkinson SC, Kass I, Buckle AM, Drinkwater N, McGowan S. A metal ion-dependent conformational switch modulates activity of the Plasmodium M17 aminopeptidase. J Biol Chem. 2022 Jul;298(7):102119. doi: 10.1016/j.jbc.2022.102119. Epub 2022 Jun 9. PubMed PMID: 35691342; PubMed Central PMCID: PMC9270245.

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Bai X, Buckle AM, Vladar EK, Janoff EN, Khare R, Ordway D, Beckham D, Fornis LB, Majluf-Cruz A, Fugit RV, Freed BM, Kim S, Sandhaus RA, Chan ED. Enoxaparin augments alpha-1-antitrypsin inhibition of TMPRSS2, a promising drug combination against COVID-19. Sci Rep. 2022 Mar 25;12(1):5207. doi: 10.1038/s41598-022-09133-9. PubMed PMID: 35338216; PubMed Central PMCID: PMC8953970.

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Ayurini M, Chandler PG, O'Leary PD, Wang R, Rudd D, Milewska KD, Malins LR, Buckle AM, Hooper JF. Polymer End Group Control through a Decarboxylative Cobalt-Mediated Radical Polymerization: New Avenues for Synthesizing Peptide, Protein, and Nanomaterial Conjugates. JACS Au. 2022 Jan 24;2(1):169-177. doi: 10.1021/jacsau.1c00453. eCollection 2022 Jan 24. PubMed PMID: 35098233; PubMed Central PMCID: PMC8790747.

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Crowther JM, Gilmour LH, Porebski BT, Heath SG, Pattinson NR, Owen MC, Fredericks R, Buckle AM, Fee CJ, Göbl C, Dobson RCJ. Molecular basis of a redox switch: molecular dynamics simulations and surface plasmon resonance provide insight into reduced and oxidised angiotensinogen. Biochem J. 2021 Sep 17;478(17):3319-3330. doi: 10.1042/BCJ20210476. PubMed PMID: 34424335; PubMed Central PMCID: PMC7612104.

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Broendum SS, Williams DE, Hayes BK, Kraus F, Fodor J, Clifton BE, Geert Volbeda A, Codee JDC, Riley BT, Drinkwater N, Farrow KA, Tsyganov K, Heselpoth RD, Nelson DC, Jackson CJ, Buckle AM, McGowan S. High avidity drives the interaction between the streptococcal C1 phage endolysin, PlyC, with the cell surface carbohydrates of Group A Streptococcus. Mol Microbiol. 2021 Aug;116(2):397-415. doi: 10.1111/mmi.14719. Epub 2021 Apr 3. PubMed PMID: 33756056.

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Dousha L, Sharma R, Lim S, Ngui J, Buckle AM, King PT. Assessing Respiratory Immune Responses to Haemophilus Influenzae. J Vis Exp. 2021 Jun 29;(172). doi: 10.3791/62572. PubMed PMID: 34279491.

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Spence MA, Mortimer MD, Buckle AM, Minh BQ, Jackson CJ. A Comprehensive Phylogenetic Analysis of the Serpin Superfamily. Mol Biol Evol. 2021 Jun 25;38(7):2915-2929. doi: 10.1093/molbev/msab081. PubMed PMID: 33744972; PubMed Central PMCID: PMC8233489.

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Chandler PG, Tan LL, Porebski BT, Green JS, Riley BT, Broendum SS, Hoke DE, Falconer RJ, Munro TP, Buckle M, Jackson CJ, Buckle AM. Mutational and biophysical robustness in a prestabilized monobody. J Biol Chem. 2021 Jan-Jun;296:100447. doi: 10.1016/j.jbc.2021.100447. Epub 2021 Feb 20. PubMed PMID: 33617878; PubMed Central PMCID: PMC8010708.

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Szeto C, Bloom JI, Sloane H, Lobos CA, Fodor J, Jayasinghe D, Chatzileontiadou DSM, Grant EJ, Buckle AM, Gras S. Impact of HLA-DR Antigen Binding Cleft Rigidity on T Cell Recognition. Int J Mol Sci. 2020 Sep 25;21(19). doi: 10.3390/ijms21197081. PubMed PMID: 32992915; PubMed Central PMCID: PMC7582474.

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Burnett DL, Schofield P, Langley DB, Jackson J, Bourne K, Wilson E, Porebski BT, Buckle AM, Brink R, Goodnow CC, Christ D. Conformational diversity facilitates antibody mutation trajectories and discrimination between foreign and self-antigens. Proc Natl Acad Sci U S A. 2020 Sep 8;117(36):22341-22350. doi: 10.1073/pnas.2005102117. Epub 2020 Aug 27. PubMed PMID: 32855302; PubMed Central PMCID: PMC7486785.

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Fodor J, Brand M, Stones RJ, Buckle AM. Intrinsic limitations in mainstream methods of identifying network motifs in biology. BMC Bioinformatics. 2020 Apr 29;21(1):165. doi: 10.1186/s12859-020-3441-x. PubMed PMID: 32349657; PubMed Central PMCID: PMC7191746.

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Chandler PG, Buckle AM. Development and Differentiation in Monobodies Based on the Fibronectin Type 3 Domain. Cells. 2020 Mar 4;9(3). doi: 10.3390/cells9030610. Review. PubMed PMID: 32143310; PubMed Central PMCID: PMC7140400.

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Williams DE, Le SN, Hoke DE, Chandler PG, Gora M, Godlewska M, Banga JP, Buckle AM. Structural Studies of Thyroid Peroxidase Show the Monomer Interacting With Autoantibodies in Thyroid Autoimmune Disease. Endocrinology. 2020 Feb 1;161(2). doi: 10.1210/endocr/bqaa016. PubMed PMID: 32022847.

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Chandler PG, Broendum SS, Riley BT, Spence MA, Jackson CJ, McGowan S, Buckle AM. Strategies for Increasing Protein Stability. Methods Mol Biol. 2020;2073:163-181. doi: 10.1007/978-1-4939-9869-2_10. PubMed PMID: 31612442.

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Godlewska M, Gawel D, Buckle AM, Banga JP. Thyroid Peroxidase Revisited - What's New?. Horm Metab Res. 2019 Dec;51(12):765-769. doi: 10.1055/a-1057-9469. Epub 2019 Dec 11. Review. PubMed PMID: 31826271.

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Buckle AM, Buckle M. Ribosome Evolution and Structural Capacitance. Front Mol Biosci. 2019;6:123. doi: 10.3389/fmolb.2019.00123. eCollection 2019. PubMed PMID: 31803754; PubMed Central PMCID: PMC6872460.

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Zammit NW, Siggs OM, Gray PE, Horikawa K, Langley DB, Walters SN, Daley SR, Loetsch C, Warren J, Yap JY, Cultrone D, Russell A, Malle EK, Villanueva JE, Cowley MJ, Gayevskiy V, Dinger ME, Brink R, Zahra D, Chaudhri G, Karupiah G, Whittle B, Roots C, Bertram E, Yamada M, Jeelall Y, Enders A, Clifton BE, Mabbitt PD, Jackson CJ, Watson SR, Jenne CN, Lanier LL, Wiltshire T, Spitzer MH, Nolan GP, Schmitz F, Aderem A, Porebski BT, Buckle AM, Abbott DW, Ziegler JB, Craig ME, Benitez-Aguirre P, Teo J, Tangye SG, King C, Wong M, Cox MP, Phung W, Tang J, Sandoval W, Wertz IE, Christ D, Goodnow CC, Grey ST. Denisovan, modern human and mouse TNFAIP3 alleles tune A20 phosphorylation and immunity. Nat Immunol. 2019 Oct;20(10):1299-1310. doi: 10.1038/s41590-019-0492-0. Epub 2019 Sep 18. PubMed PMID: 31534238; NIHMSID:NIHMS1666310.

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Riley BT, Hoke DE, McGowan S, Buckle AM. Crystal structure of the inhibitor-free form of the serine protease kallikrein-4. Acta Crystallogr F Struct Biol Commun. 2019 Aug 1;75(Pt 8):543-546. doi: 10.1107/S2053230X19009610. Epub 2019 Jul 16. PubMed PMID: 31397325; PubMed Central PMCID: PMC6688662.

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Fodor J, Riley BT, Kass I, Buckle AM, Borg NA. The Role of Conformational Dynamics in Abacavir-Induced Hypersensitivity Syndrome. Sci Rep. 2019 Jul 19;9(1):10523. doi: 10.1038/s41598-019-47001-1. PubMed PMID: 31324847; PubMed Central PMCID: PMC6642150.

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Islam J, Riley BT, Fercher C, Jones ML, Buckle AM, Howard CB, Cox RP, Bell TDM, Mahler S, Corrie SR. Wavelength-Dependent Fluorescent Immunosensors via Incorporation of Polarity Indicators near the Binding Interface of Antibody Fragments. Anal Chem. 2019 Jun 18;91(12):7631-7638. doi: 10.1021/acs.analchem.9b00445. Epub 2019 Jun 5. PubMed PMID: 31117403.

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Wilding M, Hong N, Spence M, Buckle AM, Jackson CJ. Protein engineering: the potential of remote mutations. Biochem Soc Trans. 2019 Apr 30;47(2):701-711. doi: 10.1042/BST20180614. Epub 2019 Mar 22. Review. PubMed PMID: 30902926.

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Marijanovic EM, Fodor J, Riley BT, Porebski BT, Costa MGS, Kass I, Hoke DE, McGowan S, Buckle AM. Reactive centre loop dynamics and serpin specificity. Sci Rep. 2019 Mar 7;9(1):3870. doi: 10.1038/s41598-019-40432-w. PubMed PMID: 30846766; PubMed Central PMCID: PMC6405850.

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Chen X, Riley BT, de Veer SJ, Hoke DE, Van Haeften J, Leahy D, Swedberg JE, Brattsand M, Hartfield PJ, Buckle AM, Harris JM. Potent, multi-target serine protease inhibition achieved by a simplified β-sheet motif. PLoS One. 2019;14(1):e0210842. doi: 10.1371/journal.pone.0210842. eCollection 2019. PubMed PMID: 30668585; PubMed Central PMCID: PMC6342301.

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Srinivasan S, Stephens C, Wilson E, Panchadsaram J, DeVoss K, Koistinen H, Stenman UH, Brook MN, Buckle AM, Klein RJ, Lilja H, Clements J, Batra J. Prostate Cancer Risk-Associated Single-Nucleotide Polymorphism Affects Prostate-Specific Antigen Glycosylation and Its Function. Clin Chem. 2019 Jan;65(1):e1-e9. doi: 10.1373/clinchem.2018.295790. Epub 2018 Dec 11. PubMed PMID: 30538125; PubMed Central PMCID: PMC6643286.

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Buckle AM, Borg NA. Integrating Experiment and Theory to Understand TCR-pMHC Dynamics. Front Immunol. 2018;9:2898. doi: 10.3389/fimmu.2018.02898. eCollection 2018. Review. PubMed PMID: 30581442; PubMed Central PMCID: PMC6293202.

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Yang W, Riley BT, Lei X, Porebski BT, Kass I, Buckle AM, McGowan S. Mapping the Pathway and Dynamics of Bestatin Inhibition of the Plasmodium falciparum M1 Aminopeptidase PfA-M1. ChemMedChem. 2018 Dec 6;13(23):2504-2513. doi: 10.1002/cmdc.201800563. Epub 2018 Nov 9. PubMed PMID: 30318749.

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Broendum SS, Buckle AM, McGowan S. Catalytic diversity and cell wall binding repeats in the phage-encoded endolysins. Mol Microbiol. 2018 Dec;110(6):879-896. doi: 10.1111/mmi.14134. Epub 2018 Nov 13. Review. PubMed PMID: 30230642.

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Williams DE, Le SN, Godlewska M, Hoke DE, Buckle AM. Thyroid Peroxidase as an Autoantigen in Hashimoto's Disease: Structure, Function, and Antigenicity. Horm Metab Res. 2018 Dec;50(12):908-921. doi: 10.1055/a-0717-5514. Epub 2018 Oct 25. Review. PubMed PMID: 30360003.

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Li C, Clark LVT, Zhang R, Porebski BT, McCoey JM, Borg NA, Webb GI, Kass I, Buckle M, Song J, Woolfson A, Buckle AM. Structural Capacitance in Protein Evolution and Human Diseases. J Mol Biol. 2018 Sep 14;430(18 Pt B):3200-3217. doi: 10.1016/j.jmb.2018.06.051. Epub 2018 Jul 3. PubMed PMID: 30111491.

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Dagar V, Hutchison W, Muscat A, Krishnan A, Hoke D, Buckle A, Siswara P, Amor DJ, Mann J, Pinner J, Colley A, Wilson M, Sachdev R, McGillivray G, Edwards M, Kirk E, Collins F, Jones K, Taylor J, Hayes I, Thompson E, Barnett C, Haan E, Freckmann ML, Turner A, White S, Kamien B, Ma A, Mackenzie F, Baynam G, Kiraly-Borri C, Field M, Dudding-Byth T, Algar EM. Genetic variation affecting DNA methylation and the human imprinting disorder, Beckwith-Wiedemann syndrome. Clin Epigenetics. 2018 Aug 30;10(1):114. doi: 10.1186/s13148-018-0546-4. PubMed PMID: 30165906; PubMed Central PMCID: PMC6117921.

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Yang W, Riley BT, Lei X, Porebski BT, Kass I, Buckle AM, McGowan S. Generation of AMBER force field parameters for zinc centres of M1 and M17 family aminopeptidases. J Biomol Struct Dyn. 2018 Aug;36(10):2595-2604. doi: 10.1080/07391102.2017.1364669. Epub 2017 Aug 28. PubMed PMID: 28782419.

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Atkinson SC, Dogovski C, Wood K, Griffin MDW, Gorman MA, Hor L, Reboul CF, Buckle AM, Wuttke J, Parker MW, Dobson RCJ, Perugini MA. Substrate Locking Promotes Dimer-Dimer Docking of an Enzyme Antibiotic Target. Structure. 2018 Jul 3;26(7):948-959.e5. doi: 10.1016/j.str.2018.04.014. Epub 2018 May 24. PubMed PMID: 29804823.

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Fodor J, Riley BT, Borg NA, Buckle AM. Previously Hidden Dynamics at the TCR-Peptide-MHC Interface Revealed. J Immunol. 2018 Jun 15;200(12):4134-4145. doi: 10.4049/jimmunol.1800315. Epub 2018 May 4. PubMed PMID: 29728507.

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Mizutani H, Sugawara H, Buckle AM, Sangawa T, Miyazono KI, Ohtsuka J, Nagata K, Shojima T, Nosaki S, Xu Y, Wang D, Hu X, Tanokura M, Yura K. REFOLDdb: a new and sustainable gateway to experimental protocols for protein refolding. BMC Struct Biol. 2017 Apr 24;17(1):4. doi: 10.1186/s12900-017-0074-z. PubMed PMID: 28438161; PubMed Central PMCID: PMC5402662.

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Rouet R, Langley DB, Schofield P, Christie M, Roome B, Porebski BT, Buckle AM, Clifton BE, Jackson CJ, Stock D, Christ D. Structural reconstruction of protein ancestry. Proc Natl Acad Sci U S A. 2017 Apr 11;114(15):3897-3902. doi: 10.1073/pnas.1613477114. Epub 2017 Mar 29. PubMed PMID: 28356519; PubMed Central PMCID: PMC5393204.

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Keightley MC, Carradice DP, Layton JE, Pase L, Bertrand JY, Wittig JG, Dakic A, Badrock AP, Cole NJ, Traver D, Nutt SL, McCoey J, Buckle AM, Heath JK, Lieschke GJ. The Pu.1 target gene Zbtb11 regulates neutrophil development through its integrase-like HHCC zinc finger. Nat Commun. 2017 Apr 6;8:14911. doi: 10.1038/ncomms14911. PubMed PMID: 28382966; PubMed Central PMCID: PMC5384227.

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Porebski BT, Conroy PJ, Drinkwater N, Schofield P, Vazquez-Lombardi R, Hunter MR, Hoke DE, Christ D, McGowan S, Buckle AM. Circumventing the stability-function trade-off in an engineered FN3 domain. Protein Eng Des Sel. 2016 Nov 1;29(11):541-550. doi: 10.1093/protein/gzw046. PubMed PMID: 27578887; PubMed Central PMCID: PMC5081044.

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Campbell E, Kaltenbach M, Correy GJ, Carr PD, Porebski BT, Livingstone EK, Afriat-Jurnou L, Buckle AM, Weik M, Hollfelder F, Tokuriki N, Jackson CJ. The role of protein dynamics in the evolution of new enzyme function. Nat Chem Biol. 2016 Nov;12(11):944-950. doi: 10.1038/nchembio.2175. Epub 2016 Sep 12. PubMed PMID: 27618189.

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Riley BT, Ilyichova O, Costa MG, Porebski BT, de Veer SJ, Swedberg JE, Kass I, Harris JM, Hoke DE, Buckle AM. Direct and indirect mechanisms of KLK4 inhibition revealed by structure and dynamics. Sci Rep. 2016 Oct 21;6:35385. doi: 10.1038/srep35385. PubMed PMID: 27767076; PubMed Central PMCID: PMC5073354.

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Porebski BT, Keleher S, Hollins JJ, Nickson AA, Marijanovic EM, Borg NA, Costa MG, Pearce MA, Dai W, Zhu L, Irving JA, Hoke DE, Kass I, Whisstock JC, Bottomley SP, Webb GI, McGowan S, Buckle AM. Smoothing a rugged protein folding landscape by sequence-based redesign. Sci Rep. 2016 Sep 26;6:33958. doi: 10.1038/srep33958. PubMed PMID: 27667094; PubMed Central PMCID: PMC5036219.

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Porebski BT, Buckle AM. Consensus protein design. Protein Eng Des Sel. 2016 Jul;29(7):245-51. doi: 10.1093/protein/gzw015. Epub 2016 Jun 5. Review. PubMed PMID: 27274091; PubMed Central PMCID: PMC4917058.

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Li C, Nagel J, Androulakis S, Lupton CJ, Song J, Buckle AM. PolyQ 2.0: an improved version of PolyQ, a database of human polyglutamine proteins. Database (Oxford). 2016;2016. doi: 10.1093/database/baw050. Print 2016. PubMed PMID: 27189606; PubMed Central PMCID: PMC4869894.

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Li C, Androulakis S, Buckle AM, Song J. KinetochoreDB: a comprehensive online resource for the kinetochore and its related proteins. Database (Oxford). 2016;2016. doi: 10.1093/database/baw019. Print 2016. PubMed PMID: 26989151; PubMed Central PMCID: PMC4795933.

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Li C, Nagel J, Androulakis S, Song J, Buckle AM. PolyQ 2.0: an improved version of PolyQ, a database of human polyglutamine proteins. Database (Oxford). 2016;2016. doi: 10.1093/database/baw021. Print 2016. PubMed PMID: 26980520; PubMed Central PMCID: PMC4792530.

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Li C, Ching Han Chang C, Nagel J, Porebski BT, Hayashida M, Akutsu T, Song J, Buckle AM. Critical evaluation of in silico methods for prediction of coiled-coil domains in proteins. Brief Bioinform. 2016 Mar;17(2):270-82. doi: 10.1093/bib/bbv047. Epub 2015 Jul 15. Review. PubMed PMID: 26177815; PubMed Central PMCID: PMC6078162.

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Pharo EA, Cane KN, McCoey J, Buckle AM, Oosthuizen WH, Guinet C, Arnould JP. A colostrum trypsin inhibitor gene expressed in the Cape fur seal mammary gland during lactation. Gene. 2016 Mar 1;578(1):7-16. doi: 10.1016/j.gene.2015.11.042. Epub 2015 Nov 27. PubMed PMID: 26639991.