Select Publications

Journal articles

Carrera Montoya J; Collett S; Fernandez Ruiz D; Earnest L; Edeling MA; Yap AHY; Wong CY; Cooney JP; Davidson KC; Roberts J; Rockman S; Tran BM; McAuley JL; Deliyannis G; Grimley SL; Purcell DFJ; Waters SA; Godfrey DI; Hans D; Pellegrini M; Mackenzie JM; Vincan E; Heath WR; Torresi J, 2024, 'Human Nasal Epithelium Organoids for Assessing Neutralizing Antibodies to a Protective SARS-CoV-2 Virus-like Particle Vaccine', Organoids, 3, pp. 18 - 31,

Poursani EM; Mercatelli D; Raninga P; Bell JL; Saletta F; Kohane FV; Neumann DP; Zheng Y; Rouaen JRC; Jue TR; Michniewicz FT; Schadel P; Kasiou E; Tsoli M; Cirillo G; Waters S; Shai-Hee T; Cazzoli R; Brettle M; Slapetova I; Kasherman M; Whan R; Souza-Fonseca-Guimaraes F; Vahdat L; Ziegler D; Lock JG; Giorgi FM; Khanna KK; Vittorio O, 2023, 'Copper chelation suppresses epithelial-mesenchymal transition by inhibition of canonical and non-canonical TGF-β signaling pathways in cancer', Cell and Bioscience, 13,

Nguyen AK; Molley TG; Kardia E; Ganda S; Chakraborty S; Wong SL; Ruan J; Yee BE; Mata J; Vijayan A; Kumar N; Tilley RD; Waters SA; Kilian KA, 2023, 'Hierarchical assembly of tryptophan zipper peptides into stress-relaxing bioactive hydrogels', Nature Communications, 14,

Fawcett LK; Turgutoglu N; Allan KM; Belessis Y; Widger J; Jaffe A; Waters SA, 2023, 'Comparing Cytology Brushes for Optimal Human Nasal Epithelial Cell Collection: Implications for Airway Disease Diagnosis and Research', Journal of Personalized Medicine, 13, pp. 864,

Molley TG; Jiang S; Ong L; Kopecky C; Ranaweera CD; Jalandhra GK; Milton L; Kardia E; Zhou Z; Rnjak-Kovacina J; Waters SA; Toh YC; Kilian KA, 2023, 'Gas-modulating microcapsules for spatiotemporal control of hypoxia', Proceedings of the National Academy of Sciences of the United States of America, 120, pp. e2217557120,

Westhaus A; Cabanes-Creus M; Dilworth KL; Zhu E; Salas Gómez D; Navarro RG; Amaya AK; Scott S; Kwiatek M; McCorkindale AL; Hayman TE; Frahm S; Perocheau DP; Tran BM; Vincan E; Wong SL; Waters SA; Riddiough GE; Perini MV; Wilson LOW; Baruteau J; Diecke S; González-Aseguinolaza G; Santilli G; Thrasher AJ; Alexander IE; Lisowski L, 2023, 'Assessment of Pre-Clinical Liver Models Based on Their Ability to Predict the Liver-Tropism of Adeno-Associated Virus Vectors', Human Gene Therapy, 34, pp. 273 - 288,

Wong SL; Kardia E; Vijayan A; Umashankar B; Pandzic E; Zhong L; Jaffe A; Waters SA, 2023, 'Molecular and Functional Characteristics of Airway Epithelium under Chronic Hypoxia', International Journal of Molecular Sciences, 24,

Allan KM; Astore MA; Kardia E; Wong SL; Fawcett LK; Bell JL; Visser S; Chen PC; Griffith R; Jaffe A; Sivam S; Vittorio O; Kuyucak S; Waters SA, 2023, 'Q1291H-CFTR molecular dynamics simulations and ex vivo theratyping in nasal epithelial models and clinical response to elexacaftor/tezacaftor/ivacaftor in a Q1291H/F508del patient', Frontiers in Molecular Biosciences, 10,

Fawcett LK; Jaffe A; Waters SA, 2023, 'WS14.02 Cystic fibrosis personalised medicine; paediatric in vitro airway cell models to predict CFTR modulator patient outcomes', Journal of Cystic Fibrosis, 22, pp. S28 - S28,

Allan KM; Astore MA; Fawcett LK; Wong SL; Chen PC; Griffith R; Jaffe A; Kuyucak S; Waters SA, 2022, 'S945L-CFTR molecular dynamics, functional characterization and tezacaftor/ivacaftor efficacy in vivo and in vitro in matched pediatric patient-derived cell models', Frontiers in Pediatrics, 10, pp. 1062766,

Wong SL; Pandzic E; Kardia E; Allan KM; Whan RM; Waters SA, 2022, 'Quantifying Intracellular Viral Pathogen: Specimen Preparation, Visualization and Quantification of Multiple Immunofluorescent Signals in Fixed Human Airway Epithelium Cultured at Air-Liquid Interface', Journal of Personalized Medicine, 12,

Wong SL; Awatade NT; Astore MA; Allan KM; Carnell MJ; Slapetova I; Chen PC; Setiadi J; Pandzic E; Fawcett LK; Widger JR; Whan RM; Griffith R; Ooi CY; Kuyucak S; Jaffe A; Waters SA, 2022, 'Molecular Dynamics and Theratyping in Airway and Gut Organoids Reveal R352Q-CFTR Conductance Defect', American Journal of Respiratory Cell and Molecular Biology, 67, pp. 99 - 111,

Astore MA; Chen P-C; Waters S; Kuyucak S, 2022, 'Computer modelling the root cause of cystic fibrosis', BIOPHYSICAL JOURNAL, 121, pp. 506A - 506A,

Wong SL; Awatade NT; Astore MA; Allan KM; Carnell MJ; Slapetova I; Chen PC; Capraro A; Fawcett LK; Whan RM; Griffith R; Ooi CY; Kuyucak S; Jaffe A; Waters SA, 2022, 'Molecular dynamics and functional characterization of I37R-CFTR lasso mutation provide insights into channel gating activity', iScience, 25, pp. 103710,

Tran BM; Grimley SL; McAuley JL; Hachani A; Earnest L; Wong SL; Caly L; Druce J; Purcell DFJ; Jackson DC; Catton M; Nowell CJ; Leonie L; Deliyannis G; Waters SA; Torresi J; Vincan E, 2022, 'Air-Liquid-Interface Differentiated Human Nose Epithelium: A Robust Primary Tissue Culture Model of SARS-CoV-2 Infection', International Journal of Molecular Sciences, 23,

Dunnet MJ; Ortega-Recalde OJ; Waters SA; Weeks RJ; Morison IM; Hore TA, 2022, 'Leukocyte-specific DNA methylation biomarkers and their implication for pathological epigenetic analysis', Epigenetics Communications, 2,

Deshpande NP; Riordan SM; Gorman CJ; Nielsen S; Russell TL; Correa-Ospina C; Fernando BSM; Waters SA; Castaño-Rodríguez N; Man SM; Tedla N; Wilkins MR; Kaakoush NO, 2021, 'Multi-omics of the esophageal microenvironment identifies signatures associated with progression of Barrett’s esophagus', Genome Medicine, 13, pp. 133,

Allan KM; Wong SL; Fawcett LK; Capraro A; Jaffe A; Herbert C; Pandzic E; Waters SA, 2021, 'Collection, Expansion, and Differentiation of Primary Human Nasal Epithelial Cell Models for Quantification of Cilia Beat Frequency', Journal of Visualized Experiments,

Allan KM; Wong SL; Fawcett LK; Capraro A; Jaffe A; Herbert C; Pandzic E; Waters SA, 2021, 'Collection, expansion, and differentiation of primary human nasal epithelial cell models for quantification of cilia beat frequency', Journal of Visualized Experiments,

Prentice BJ; Jaffe A; Hameed S; Verge CF; Waters S; Widger J, 2021, 'Cystic fibrosis-related diabetes and lung disease: An update', European Respiratory Review, 30, pp. 200293,

Allen K; Jaffe A; Waters S; Allan K, 2021, 'Treatment of Cystic Fibrosis: From Gene- to Cell-Based Therapies', Frontiers in Pharmacology, 12, pp. 639475,

Awatade N; Wong S; Capraro A; Pandzic E; Slapetova I; Zhong L; Fawcett L; Whan R; Jaffe A; Waters S, 2021, 'Significant functional differences in differentiated Conditionally Reprogrammed (CRC)- and Feeder-free Dual SMAD inhibited-expanded human nasal epithelial cells', Journal of Cystic Fibrosis, 20, pp. 364 - 371,

Fawcett LK; Wakefield CE; Sivam S; Middleton PG; Wark P; Widger J; Jaffe A; Waters SA, 2021, 'Avatar acceptability: Views from the australian cystic fibrosis community on the use of personalised organoid technology to guide treatment decisions', ERJ Open Research, 7, pp. 1 - 10,

Azad AKM; Fatima S; Capraro A; Waters SA; Vafaee F, 2021, 'Integrative resource for network-based investigation of COVID-19 combinatorial drug repositioning and mechanism of action', Patterns, 2, pp. 100325,

Villamizar O; Waters SA; Scott T; Grepo N; Jaffe A; Morris KV, 2021, 'Mesenchymal Stem Cell exosome delivered Zinc Finger Protein activation of cystic fibrosis transmembrane conductance regulator', Journal of Extracellular Vesicles, 10, pp. e12053,

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', ,

Capraro A; O‘Meally D; Waters SA; Patel HR; Georges A; Waters PD, 2020, 'MicroRNA dynamics during hibernation of the Australian central bearded dragon (Pogona vitticeps)', Scientific Reports, 10, pp. 17854,

Capraro A; Whan R; Thomas S; Jaffe A; Bridge W; Waters S; Hart-Smith G; Zhong L; Pandzic E; Fernando BSM; Awatade N; Wong S, 2020, 'Novel Antioxidant Therapy with the Immediate Precursor to Glutathione, -Glutamylcysteine (GGC), Ameliorates LPS-Induced Cellular Stress in In Vitro 3D-Differentiated Airway Model from Primary Cystic Fibrosis Human Bronchial Cells', Antioxidants, 9, pp. 1 - 19,

Coffey MJ; Mckay IR; Doumit M; Chuang S; Adams S; Stelzer-Braid S; Waters SA; Kasparian NA; Thomas T; Jaffe A; Katz T; Ooi CY, 2020, 'Evaluating the Alimentary and Respiratory Tracts in Health and disease (EARTH) research programme: a protocol for prospective, longitudinal, controlled, observational studies in children with chronic disease at an Australian tertiary paediatric hospital', BMJ Open, 10, pp. e033916,

Hewson C; Capraro A; Wong S; Pandzic E; Fernando BSM; Awatade N; Zhong L; Hart-Smith G; Whan R; Thomas S; Jaffe A; Bridge W; Waters S, 2020, 'Novel antioxidant therapy with the immediate precursor to glutathione, γ-glutamylcysteine (GGC), ameliorates LPS-induced cellular stress in an in vitro cystic fibrosis model', ,

Awatade N; Wong S; Pandzic E; Slapetova I; Capraro A; Zhong L; Turgutoglu N; Fawcett L; Whan R; Jaffe A; Waters S, 2020, 'Significant functional differences despite morphological and molecular similarity in fully differentiated matched Conditionally Reprogrammed (CRC) and Feeder free dual SMAD inhibited expanded human nasal epithelial cells', ,

Prentice BJ; Ooi CY; Strachan RE; Hameed S; Ebrahimkhani S; Waters SA; Verge CF; Widger J, 2019, 'Early glucose abnormalities are associated with pulmonary inflammation in young children with cystic fibrosis', Journal of Cystic Fibrosis, 18, pp. 869 - 873,

Villamizar O; Waters SA; Scott T; Saayman S; Grepo N; Urak R; Davis A; Jaffe A; Morris KV, 2019, 'Targeted Activation of Cystic Fibrosis Transmembrane Conductance Regulator', Molecular Therapy, 27, pp. 1737 - 1748,

Waters S; Waters P; Capraro A, 2019, 'Waking the sleeping dragon: gene expression profiling reveals adaptive strategies of the hibernating reptile Pogona vitticeps', BMC Genomics, 20, pp. 460,

Sprague D; Waters SA; Kirk JM; Wang JR; Samollow PB; Waters PD; Calabrese JM, 2019, 'Nonlinear sequence similarity between the Xist and Rsx long noncoding RNAs suggests shared functions of tandem repeat domains', RNA, 25, pp. 1004 - 1019,

Coffey MJ; Zhong L; Jaffe A; Ooi CY; Waters S, 2019, 'Tu1872 – The Human Intestinal Proteome in Children with Cystic Fibrosis', Gastroenterology, 156, pp. S - 1153,

Awatade N; Wong S; Jaffe A; Waters S; Fawcett L, 2018, 'Human Primary Epithelial Cell Models: Promising Tools in the Era of Cystic Fibrosis Personalized Medicine', Frontiers in Pharmacology, 9, pp. 1429,

Johnson RN; O’Meally D; Chen Z; Etherington GJ; Ho SYW; Nash WJ; Grueber CE; Cheng Y; Whittington CM; Dennison S; Peel E; Haerty W; O’Neill RJ; Colgan D; Russell TL; Alquezar-Planas DE; Attenbrow V; Bragg JG; Brandies PA; Chong AYY; Deakin JE; Di Palma F; Duda Z; Eldridge MDB; Ewart KM; Hogg CJ; Frankham GJ; Georges A; Gillett AK; Govendir M; Greenwood AD; Hayakawa T; Helgen KM; Hobbs M; Holleley CE; Heider TN; Jones EA; King A; Madden D; Graves JAM; Morris KM; Neaves LE; Patel HR; Polkinghorne A; Renfree MB; Robin C; Salinas R; Tsangaras K; Waters PD; Waters SA; Wright B; Wilkins MR; Timms P; Belov K, 2018, 'Adaptation and conservation insights from the koala genome', Nature Genetics, 50, pp. 1102 - 1111,

Waters SA; Capraro A; McIntyre KL; Graves JAM; Waters PD, 2018, 'The methylome of vertebrate sex chromosomes', Genes, 9, pp. 230,

Waters SA; Livernois AM; Patel H; O’Meally D; Craig JM; Marshall Graves JA; Suter CM; Waters PD, 2018, 'Landscape of DNA methylation on the marsupial x', Molecular Biology and Evolution, 35, pp. 431 - 439,

Waters SA; McAteer SP; Kudla G; Pang I; Deshpande NP; Amos TG; Leong KW; Wilkins MR; Strugnell R; Gally DL; Tollervey D; Tree JJ, 2017, 'Small RNA interactome of pathogenic E. coli revealed through crosslinking of RNase E', EMBO Journal, 36, pp. 374 - 387,

Alinejad-Rokny H; Anwar F; Waters SA; Davenport MP; Ebrahimi D, 2016, 'Source of CpG depletion in the HIV-1 genome', Molecular Biology and Evolution, 33, pp. 3205 - 3212,

Waters SA; Waters PD, 2015, 'Imprinted X chromosome inactivation: evolution of mechanisms in distantly related mammals', AIMS GENETICS, 2, pp. 110 - 126,

Rodríguez-Delgado CL; Waters SA; Waters DP; Waters P, 2014, 'Paternal X inactivation does not correlate with X chromosome evolutionary strata in marsupials', BMC Evolutionary Biology, 14, pp. 267,

Livernois AM; Waters SA; Deakin JE; Marshall Graves JA; Waters PD, 2013, 'Independent Evolution of Transcriptional Inactivation on Sex Chromosomes in Birds and Mammals', PLoS Genetics, 9, pp. e1003635,

Royds JA; Al Nadaf S; Wiles AK; Chen YJ; Ahn A; Shaw A; Bowie S; Lam F; Baguley BC; Braithwaite AW; MacFarlane MR; Hung NA; Slatter TL, 2011, 'The cdkn2a g500 allele is more frequent in gbm patients with no defined telomere maintenance mechanism tumors and is associated with poorer survival', PLoS ONE, 6, pp. e26737,

Renfree MB; Papenfuss AT; Deakin JE; Lindsay J; Heider T; Belov K; Rens W; Waters PD; Pharo EA; Shaw G; Wong ESW; Lefèvre CM; Nicholas KR; Kuroki Y; Wakefield MJ; Zenger KR; Wang C; Ferguson-Smith M; Nicholas FW; Hickford D; Yu H; Short KR; Siddle HV; Frankenberg SR; Chew KY; Menzies BR; Stringer JM; Suzuki S; Hore TA; Delbridge ML; Mohammadi A; Schneider NY; Hu Y; O'Hara W; Al Nadaf S; Wu C; Feng ZP; Cocks BG; Wang J; Flicek P; Searle SMJ; Fairley S; Beal K; Herrero J; Carone DM; Suzuki Y; Sugano S; Toyoda A; Sakaki Y; Kondo S; Nishida Y; Tatsumoto S; Mandiou I; Hsu A; McColl KA; Lansdell B; Weinstock G; Kuczek E; McGrath A; Wilson P; Men A; Hazar-Rethinam M; Hall A; Davis J; Wood D; Williams S; Sundaravadanam Y; Muzny DM; Jhangiani SN; Lewis LR; Morgan MB; Okwuonu GO; Ruiz SJ; Santibanez J; Nazareth L; Cree A; Fowler G; Kovar CL; Dinh HH; Joshi V; Jing C; Lara F; Thornton R; Chen L; Deng J; Liu Y; Shen JY; Song XZ; Edson J; Troon C; Thomas D; Stephens A; Yapa L; Levchenko T; Gibbs RA; Cooper DW; Speed TP; Fujiyama A; M Graves JA; O'Neill RJ, 2011, 'Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development', Genome Biology, 12, pp. 414,

Al Nadaf S; Deakin JE; Gilbert C; Robinson TJ; Graves JA; Waters PD; Waters P, 2011, 'A cross-species comparison of escape from X inactivation in Eutheria: implications for evolution of X chromosome inactivation.', Chromosoma, 121, pp. 71 - 78,

Al Nadaf S; Waters PD; Koina E; Deakin JE; Jordan KS; Graves JAM; Waters P, 2010, 'Activity map of the tammar X chromosome shows that marsupial X inactivation is incomplete and escape is stochastic', Genome Biology, 11, pp. r122,

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