Select Publications

Journal articles

McIntyre KL; Waters SA; Zhong L; Hart-Smith G; Raftery M; Chew ZA; Patel HR; Graves JAM; Waters PD, 2024, 'Identification of the RSX interactome in a marsupial shows functional coherence with the Xist interactome during X inactivation', Genome Biology, 25,

Mercier C; Thies D; Zhong L; Raftery MJ; Erdmann S, 2023, 'Characterization of an archaeal virus-host system reveals massive genomic rearrangements in a laboratory strain', Frontiers in Microbiology, 14,

Poljak A; Raftery M; Polly P, 2023, 'Evaluating Cellular Viability by iTRAQ Proteomic Profiling', , 2644, pp. 193 - 209,

Suyama H; Luu LDW; Zhong L; Raftery MJ; Lan R, 2023, 'Integrating proteomic data with metabolic modeling provides insight into key pathways of Bordetella pertussis biofilms', Frontiers in Microbiology, 14,

Truong P; Shen S; Joshi S; Afrasiabi A; Zhong L; Raftery MJ; Larsson J; Lock RB; Walkley CR; Rokny HA; Thoms JAI; Jolly CJ; Pimanda JE, 2022, 'Genome-Wide CRISPR-Cas9 Screening Identifies a Synergy between Hypomethylating Agents and Sumoylation Blockade in Myelodysplastic Syndromes and Acute Myeloid Leukemia', BLOOD, 140,

Bӧhm JW; Sia KCS; Jones C; Evans K; Mariana A; Pang I; Failes T; Zhong L; Mayoh C; Landman R; Collins R; Erickson SW; Arndt G; Raftery MJ; Wilkins MR; Norris MD; Haber M; Marshall GM; Lock RB, 2021, 'Combination efficacy of ruxolitinib with standard-of-care drugs in CRLF2-rearranged Ph-like acute lymphoblastic leukemia', Leukemia, 35, pp. 3101 - 3112,

Santiago FS; Li Y; Zhong L; Raftery MJ; Lins L; Khachigian LM, 2021, 'Truncated YY1 interacts with BASP1 through a 339KLK341motif in YY1 and suppresses vascular smooth muscle cell growth and intimal hyperplasia after vascular injury', Cardiovascular Research, 117, pp. 2395 - 2406,

Luu LDW; Zhong L; Kaur S; Raftery MJ; Lan R, 2021, 'Comparative Phosphoproteomics of Classical Bordetellae Elucidates the Potential Role of Serine, Threonine and Tyrosine Phosphorylation in Bordetella Biology and Virulence', Frontiers in Cellular and Infection Microbiology, 11,

Kaur G; Poljak A; Ali SA; Zhong L; Raftery MJ; Sachdev P, 2021, 'Extending the Depth of Human Plasma Proteome Coverage Using Simple Fractionation Techniques', Journal of Proteome Research, 20, pp. 1261 - 1279,

Capraro A; Wong S; Adhikari A; Allan K; Patel H; Zhong L; Raftery M; Jaffe A; Yeang M; Aggarwal A; Wu L; Pandzic E; Whan R; Turville S; Vittorio O; Bull R; Kaakoush N; Rawlinson W; Tedla N; Vafaee F; Waters S, 2021, 'Ageing impairs the airway epithelium defence response to SARS-CoV-2', ,

Verma A; Meitei NS; Gajbhiye PU; Raftery MJ; Ambatipudi K, 2020, 'Comparative analysis of milk triglycerides profile between jaffarabadi buffalo and holstein friesian cow', Metabolites, 10, pp. 1 - 27,

Sia KCS; Zhong L; Mayoh C; Norris MD; Haber M; Marshall GM; Raftery MJ; Lock RB, 2020, 'Targeting TSLP-induced tyrosine kinase signaling pathways in CRLF2-Rearranged Ph-like ALL', Molecular Cancer Research, 18, pp. 1767 - 1776,

Li Y; Alhendi AMN; Yeh MC; Elahy M; Santiago FS; Deshpande NP; Wu B; Chan E; Inam S; Prado-Lourenco L; Marchand J; Joyce RD; Wilkinson-White LE; Raftery MJ; Zhu M; Adamson SJ; Barnat F; Viaud-Quentric K; Sockler J; Mackay JP; Chang A; Mitchell P; Marcuccio SM; Khachigian LM, 2020, 'Thermostable small-molecule inhibitor of angiogenesis and vascular permeability that suppresses a pERK-FosB/ΔFosB-VCAM-1 axis', Science Advances, 6, pp. eaaz7815,

Luu LDW; Octavia S; Aitken C; Zhong L; Raftery MJ; Sintchenko V; Lan R, 2020, 'Surfaceome analysis of Australian epidemic Bordetella pertussis reveals potential vaccine antigens', Vaccine, 38, pp. 539 - 548,

Santiago FS; Sanchez-Guerrero E; Zhang G; Zhong L; Raftery MJ; Khachigian LM, 2019, 'Extracellular signal-regulated kinase-1 phosphorylates early growth response-1 at serine 26', Biochemical and Biophysical Research Communications, 510, pp. 345 - 351,

Williams TJ; Allen MA; Liao Y; Raftery MJ; Cavicchioli R, 2019, 'Sucrose metabolism in haloarchaea: Reassessment using genomics, proteomics, and metagenomics', Applied and Environmental Microbiology, 85,

Hamm JN; Erdmann S; Eloe-Fadrosh EA; Angeloni A; Zhong L; Brownlee C; Williams TJ; Barton K; Carswell S; Smith MA; Brazendale S; Hancock AM; Allen MA; Raftery MJ; Cavicchioli R, 2019, 'Unexpected host dependency of Antarctic Nanohaloarchaeota', Proceedings of the National Academy of Sciences of the United States of America, 116, pp. 14661 - 14670,

Wai Luu LD; Octavia S; Zhong L; Raftery MJ; Sintchenko V; Lan R, 2018, 'Comparison of the whole cell proteome and secretome of epidemic bordetella pertussis strains from the 2008–2012 Australian epidemic under sulfate-modulating conditions', Frontiers in Microbiology, 9,

Unnikrishnan A; Vo ANQ; Pickford R; Raftery MJ; Nunez AC; Verma A; Hesson LB; Pimanda JE, 2018, 'AZA-MS: A novel multiparameter mass spectrometry method to determine the intracellular dynamics of azacitidine therapy in vivo', Leukemia, 32, pp. 900 - 910,

Luu LDW; Octavia S; Zhong L; Raftery MJ; Sintchenko V; Lan R, 2018, 'Proteomic Adaptation of Australian Epidemic Bordetella pertussis', Proteomics, 18,

Erdmann S; Tschitschko B; Zhong L; Raftery MJ; Cavicchioli R, 2017, 'A plasmid from an Antarctic haloarchaeon uses specialized membrane vesicles to disseminate and infect plasmid-free cells', Nature Microbiology, 2, pp. 1446 - 1455,

Strbenac D; Zhong L; Raftery MJ; Wang P; Wilson SR; Armstrong NJ; Yang JYH, 2017, 'Quantitative Performance Evaluator for Proteomics (QPEP): Web-based Application for Reproducible Evaluation of Proteomics Preprocessing Methods', Journal of Proteome Research, 16, pp. 2359 - 2369,

Williams TJ; Liao Y; Ye J; Kuchel RP; Poljak A; Raftery MJ; Cavicchioli R, 2017, 'Cold adaptation of the Antarctic haloarchaea Halohasta litchfieldiae and Halorubrum lacusprofundi', Environmental Microbiology, 19, pp. 2210 - 2227,

Luu LDW; Octavia S; Zhong L; Raftery M; Sintchenko V; Lan R, 2017, 'Characterisation of the Bordetella pertussis secretome under different media', Journal of Proteomics, 158, pp. 43 - 51,

Unnikrishnan A; Guan YF; Huang Y; Beck D; Thoms JAI; Peirs S; Knezevic K; Ma S; De Walle IV; De Jong IDE; Ali Z; Zhong L; Raftery MJ; Taghon T; Larsson J; MacKenzie KL; Van Vlierberghe P; Wong JWH; Pimanda JE, 2016, 'A quantitative proteomics approach identifies ETV6 and IKZF1 as new regulators of an ERG-driven transcriptional network', Nucleic Acids Research, 44, pp. 10644 - 10661,

Liao Y; Williams TJ; Ye J; Charlesworth J; Burns BP; Poljak A; Raftery MJ; Cavicchioli R, 2016, 'Morphological and proteomic analysis of biofilms from the Antarctic archaeon, Halorubrum lacusprofundi', Scientific Reports, 6, pp. 37454,

Jayasena T; Poljak A; Braidy N; Zhong L; Rowlands B; Muenchhoff J; Grant R; Smythe G; Teo C; Raftery M; Sachdev PS, 2016, 'Application of targeted mass spectrometry for the quantification of sirtuins in the central nervous system', Scientific Reports, 6, pp. 35391 - 35391,

Park M; Raftery MJ; Thomas PS; Geczy CL; Bryant K; Tedla N, 2016, 'Leukocyte immunoglobulin-like receptor B4 regulates key signalling molecules involved in FcγRI-mediated clathrin-dependent endocytosis and phagocytosis', Scientific Reports, 6, pp. 35085,

Muenchhoff J; Poljak A; Thalamuthu A; Gupta VB; Chatterjee P; Raftery M; Masters CL; Morris JC; Bateman RJ; Fagan AM; Martins RN; Sachdev PS, 2016, 'Changes in the plasma proteome at asymptomatic and symptomatic stages of autosomal dominant Alzheimer's disease', Scientific Reports, 6, pp. 29078 - 29078,

Dolai S; Sia KCS; Robbins AK; Zhong L; Heatley SL; Vincent TL; Hochgräfe F; Sutton R; Kurmasheva RT; Revesz T; White DL; Houghton PJ; Smith MA; Teachey DT; Daly RJ; Raftery MJ; Lock RB, 2016, 'Quantitative phosphotyrosine profiling of patient-derived xenografts identifies therapeutic targets in pediatric leukemia', Cancer Research, 76, pp. 2766 - 2777,

Richards SL; Cawley AT; Cavicchioli R; Suann CJ; Pickford R; Raftery MJ, 2016, 'Aptamer based peptide enrichment for quantitative analysis of gonadotropin-releasing hormone by LC-MS/MS', Talanta, 150, pp. 671 - 680,

Tschitschko B; Williams TJ; Allen MA; Zhong L; Raftery MJ; Cavicchioli R, 2016, 'Ecophysiological distinctions of haloarchaea from a hypersaline Antarctic lake determined using metaproteomics.', Appl Environ Microbiol, 82, pp. 3165 - 3173,

Lyons B; Friedrich M; Raftery M; Truscott R, 2016, 'Amyloid Plaque in the Human Brain Can Decompose from Aβ(1-40/1-42) by Spontaneous Nonenzymatic Processes', Analytical Chemistry, 88, pp. 2675 - 2684,

Alexova R; Dang TC; Fujii M; Raftery MJ; Waite TD; Ferrari BC; Neilan BA, 2016, 'Specific global responses to N and Fe nutrition in toxic and non-toxic Microcystis aeruginosa', Environmental Microbiology, 18, pp. 401 - 413,

Friedrich MG; Hancock SE; Raftery MJ; Truscott RJW, 2016, 'Isoaspartic acid is present at specific sites in myelin basic protein from multiple sclerosis patients: Could this represent a trigger for disease onset?', Acta Neuropathologica Communications, 4,

Percy AJ; Tamura-Wells J; Albar JP; Aloria K; Amirkhani A; Araujo GDT; Arizmendi JM; Blanco FJ; Canals F; Cho JY; Colomé-Calls N; Corrales FJ; Domont G; Espadas G; Fernandez-Puente P; Gil C; Haynes PA; Hernáez ML; Kim JY; Kopylov A; Marcilla M; McKay MJ; Mirzaei M; Molloy MP; Ohlund LB; Paik YK; Paradela A; Raftery M; Sabidó E; Sleno L; Wilffert D; Wolters JC; Yoo JS; Zgoda V; Parker CE; Borchers CH, 2015, 'Inter-laboratory evaluation of instrument platforms and experimental workflows for quantitative accuracy and reproducibility assessment', EuPA Open Proteomics, 8, pp. 6 - 15,

Tschitschko B; Williams TJ; Allen MA; Páez-Espino D; Kyrpides N; Zhong L; Raftery MJ; Cavicchioli R, 2015, 'Antarctic archaea–virus interactions: metaproteome-led analysis of invasion, evasion and adaptation', The ISME Journal, 9, pp. 2094 - 2107,

Jayasena T; Poljak A; Braidy N; Smythe G; Raftery M; Hill M; Brodaty H; Trollor J; Kochan N; Sachdev P, 2015, 'Upregulation of glycolytic enzymes, mitochondrial dysfunction and increased cytotoxicity in glial cells treated with Alzheimer's disease plasma', PLoS ONE, 10, pp. e0116092,

Alexova R; Dang TC; Fujii M; Raftery MJ; Waite TD; Ferrari BC; Neilan BA, 2015, 'Specific global responses to N and Fe nutrition in toxic and non-toxic Microcystis aeruginosa', Environmental Microbiology,

Kaakoush NO; Deshpande NP; Man SM; Burgos-Portugal JA; Khattak FA; Raftery MJ; Wilkins MR; Mitchell HM, 2015, 'Transcriptomic and proteomic analyses reveal key innate immune signatures in the host response to the gastrointestinal pathogen Campylobacter concisus', Infection and Immunity, 83, pp. 832 - 845,

Gardiner M; Fernandes ND; Nowakowski D; Raftery M; Kjelleberg S; Zhong L; Thomas T; Egan S, 2015, 'VarR controls colonization and virulence in the marine macroalgal pathogen Nautella italica R11', Frontiers in Microbiology, 6,

Muenchhoff J; Poljak A; Song F; Raftery M; Brodaty H; Duncan M; McEvoy M; Attia J; Schofield PW; Sachdev PS; Smythe G, 2015, 'Plasma protein profiling of mild cognitive impairment and Alzheimer's disease across two independent cohorts', Journal of Alzheimer's Disease, 43, pp. 1355 - 1373,

Hou X; McMillan M; Coumans JVF; Poljak A; Raftery MJ; Pereg L, 2014, 'Cellular responses during morphological transformation in Azospirillum brasilense and its flcA knockout mutant', PLoS ONE, 9,

Liao BM; Raddatz K; Zhong L; Parker BL; Raftery MJ; Schmitz-Peiffer C, 2014, 'Proteomic analysis of livers from fat-fed mice deficient in either PKCδ or PKCε identifies Htatip2 as a regulator of lipid metabolism', Proteomics, 14, pp. 2578 - 2587,

Song F; Poljak A; Kochan N; Raftery M; Brodaty H; Smythe GA; Sachdev PS, 2014, 'Plasma protein profiling of Mild Cognitive Impairment and Alzheimer’s disease using iTRAQ quantitative proteomics', Proteome Science, 12, pp. 5,

Masoudi S; Zhong L; Raftery MJ; Stapleton FJ; Willcox MD, 2014, 'Method development for quantification of five tear proteins using selected reaction monitoring (SRM) mass spectrometry', Investigative Ophthalmology and Visual Science, 55, pp. 767 - 775,

Raftery MJ, 2014, 'Determination of oxidative protein modifications using mass spectrometry', Redox Report, 19, pp. 140 - 147,

Lee H; Ma R; Grimm MC; Riordan SM; Lan R; Zhong L; Raftery M; Zhang L, 2014, 'Examination of the anaerobic growth of Campylobacter concisus strains', International Journal of Microbiology, 2014,

Caplan GA; Poljak A; Hill MA; Hall R; MacLullich A; Raftery M; Tai J; Yan S, 2014, 'Quantitative Proteomics of Delirium Cerebrospinal Fluid', Translational Psychiatry, 4, pp. e477 - e477,

Richards SL; Cawley AT; Raftery MJ, 2013, 'Detection and quantification of dermorphin and selected analogs in equine urine', Bioanalysis, 5, pp. 2995 - 3007,

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