By Dr Michael Jonathon Coffey

Journal articles

Hudson J; Akhand A; Nwe MT; Coffey MJ; van Dorst J; Chuang S; Ooi CY, 2026, 'Reply to “Correspondence regarding ‘Obstructive sleep apnea and primary snoring in children are associated with oropharyngeal dysbiosis and a mild compositional imbalance in the gastrointestinal tract’”', Journal of Clinical Sleep Medicine, 22, http://dx.doi.org/10.1007/s44470-026-00141-4

van Dorst J; Uthpala Pushpakumara BLD; Katz T; Hudson J; Ting Z; McKay I; Tam RY; Chan C; Coffey M; Ooi CY, 2026, 'Children with cystic fibrosis have an early-life disparity in fecal short chain fatty acid concentrations', Journal of Cystic Fibrosis, 25, pp. 513 - 520, http://dx.doi.org/10.1016/j.jcf.2026.01.002

Taylor NA; Sivam S; van Dorst J; Coffey MJ; Visser S; Haber P; Volovets A; Ooi CY, 2026, 'Stool and symptom testing in ColoREctal Evaluation for Neoplasia in Cystic Fibrosis (SCREEN-CF)', Journal of Cystic Fibrosis, 25, pp. 98 - 103, http://dx.doi.org/10.1016/j.jcf.2025.09.008

Coffey MJ; van Dorst J; Pushpakumara BU; Hudson J; Halim J; Day AS; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Thomas T; Jaffe A; Ooi CY, 2026, 'EPS6.06 Proton pump inhibitor exposure and gut microbiome development in early childhood cystic fibrosis: insights from the PEARL-CF Study', Journal of Cystic Fibrosis, 25, pp. s51, http://dx.doi.org/10.1016/s1569-1993(26)00291-2

Hudson J; Akhand A; Nwe MT; Coffey MJ; van Dorst J; Chuang S; Ooi CY, 2026, 'Obstructive sleep apnea and primary snoring in children are associated with oropharyngeal dysbiosis and a mild compositional imbalance in the gastrointestinal tract', Journal of Clinical Sleep Medicine, 22, pp. 76, http://dx.doi.org/10.1007/s44470-026-00058-y

Hudson J; Taylor N; Coffey MJ; Pushpakumara BU; Prentice B; Jaffe A; Visser S; Sivam S; Day AS; Oliver M; Ranganathan S; Selvadurai H; Wainwright C; Ooi CY; van Dorst J, 2026, 'P082 Evaluating the role of the gut as a reservoir for non-tuberculous mycobacteria in people with cystic fibrosis', Journal of Cystic Fibrosis, 25, pp. s94, http://dx.doi.org/10.1016/s1569-1993(26)00419-4

Pushpakumara BU; van Dorst J; Coffey MJ; Hudson J; Halim J; Chuang S; Prentice B; Jaffe A; Edwards R; Day AS; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Ooi CY, 2026, 'WS08.5 Quantifying CF gut dysbiosis: a reproducible and treatmentresponsive microbiome index', Journal of Cystic Fibrosis, 25, pp. s17, http://dx.doi.org/10.1016/s1569-1993(26)00184-0

Murphy CE; Coffey MJ; Chen Q; Adams S; Ooi CY; van Dorst J, 2025, 'Altered Development of Gut Microbiota and Gastrointestinal Inflammation in Children with Post-Operative Hirschsprung’s Disease', International Journal of Molecular Sciences, 26, http://dx.doi.org/10.3390/ijms262110570

Smith JS; Coffey MJ; Jaffe A; Chuang S; Prentice B; van Dorst J; Ooi CY, 2025, 'Disorders of Gut−Brain Interaction in a Pediatric Cystic Fibrosis Cohort', Pediatric Pulmonology, 60, http://dx.doi.org/10.1002/ppul.71214

Chan C; Coffey M; Murphy C; McKay I; Abdu J; Paida K; Tam RY; Wrigley-Carr H; Prentice B; Owens L; Belessis Y; Chuang S; Jaffe A; van Dorst J; Ooi CY, 2025, 'The Prevalence of Polyketide Synthase-Positive E. coli in Cystic Fibrosis', Microorganisms, 13, http://dx.doi.org/10.3390/microorganisms13030681

Perron JE; Uther P; Coffey MJ; Lovell-Simons A; Bartlett AW; McKay A; Garg M; Lucas S; Cichero J; Dobrescu I; Motta A; Taylor S; Kennedy SE; Ooi CY, 2025, 'Are serious games seriously good at preparing students for clinical practice?: A randomized controlled trial', Medical Teacher, 47, pp. 126 - 133, http://dx.doi.org/10.1080/0142159X.2024.2323179

Coffey M; van Dorst J; Pushpakumara B; Hudson J; Halim J; Day A; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Thomas T; Jaffe A; Ooi C, 2025, '121 Probiotics and the EARly Life effects on intestinal bacteria and inflammation in children with cystic fibrosis (PEARL-CF) study', Journal of Cystic Fibrosis, 24, pp. s70 - s71, http://dx.doi.org/10.1016/s1569-1993(25)01740-0

Pushpakumara B; Becirovic R; van Dorst J; Coffey M; Halim J; Beheshti B; Argha A; Alinejad-Rokny H; Ooi C, 2025, '16 Artificial intelligence integrating gut microbiome multi-omics to predict clinical outcomes in children with cystic fibrosis', Journal of Cystic Fibrosis, 24, pp. s9, http://dx.doi.org/10.1016/s1569-1993(25)01636-4

van Dorst J; Katz T; Coffey M; Pushpakumara B; Ooi C, 2025, '585 Children with cystic fibrosis have an early-life disparity in fecal SCFA concentrations', Journal of Cystic Fibrosis, 24, pp. s344a - ss345, http://dx.doi.org/10.1016/s1569-1993(25)02201-5

h JSS; van Dorst J; Coffey M; Katz T; Jaffe A; Chuang S; Prentice B; Ooi C, 2025, '587 Disorders of gut brain interaction in a pediatric cystic fibrosis cohort', Journal of Cystic Fibrosis, 24, pp. s345a - ss345, http://dx.doi.org/10.1016/s1569-1993(25)02203-9

Smith JS; van Dorst J; Coffey MJ; Ooi CY, 2025, 'Anxiety in the Pediatric Cystic Fibrosis Population: Evaluation of a Younger Cohort', Pediatric Pulmonology, 60, pp. e71181, http://dx.doi.org/10.1002/ppul.71181

Goh S; Coffey M; Jiwane A; Lemberg D; Fivelman B, 2025, 'Neuromuscular and vascular hamartoma-like lesion in a 16-year-old girl with Crohn disease', Pathology, 57, pp. s52, http://dx.doi.org/10.1016/j.pathol.2024.12.213

van Dorst J; Coffey M; Pushpakumara UB; Anderson D; Hudson J; Halim J; Ooi CY, 2025, 'P266 Microbes, metabolites and inflammation in children with cystic fibrosis', Journal of Cystic Fibrosis, 24, pp. s151, http://dx.doi.org/10.1016/j.jcf.2025.03.1152

Taylor N; Sivam S; van Dorst J; Coffey MJ; Visser S; Haber P; Volovets A; Ooi CY, 2025, 'WS04.03Stool and symptom testing in colorectal evaluation for neoplasia in cystic fibrosis (SCREEN-CF)', Journal of Cystic Fibrosis, 24, pp. s8, http://dx.doi.org/10.1016/j.jcf.2025.03.512

Coffey MJ; van Dorst J; Pushpakumara BU; Hudson J; Halim J; Day AS; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Thomas T; Jaffe A; Team TP-C; Ooi CY, 2025, 'WS19.06 Probiotics and the EARly Life effects on intestinal bacteria and inflammation in children with Cystic Fibrosis (PEARL-CF) Study', Journal of Cystic Fibrosis, 24, pp. s35 - s36, http://dx.doi.org/10.1016/j.jcf.2025.03.676

Krishnan U; Tang TC; Coffey MJ; Leach ST, 2024, 'Reply to “Proton pump inhibitors and esophageal atresia: Too early to change clinical practice”', Journal of Pediatric Gastroenterology and Nutrition, 79, pp. 1218 - 1220, http://dx.doi.org/10.1002/jpn3.12374

Ooi CY; Terlizzi V; Coffey MJ, 2024, 'Cystic fibrosis transmembrane conductance regulator (CFTR) variants and CFTR function in patients with pancreatitis', Pancreatology, 24, pp. 969 - 970, http://dx.doi.org/10.1016/j.pan.2024.07.009

Traini I; Chan SY; Menzies J; Hughes J; Coffey MJ; McKay IR; Ooi CY; Leach ST; Krishnan U, 2024, 'Intestinal dysbiosis and inflammation in children with repaired esophageal atresia', Journal of Pediatric Gastroenterology and Nutrition, 78, pp. 43 - 51, http://dx.doi.org/10.1002/jpn3.12053

Tan SMJ; Coffey MJ; Blazek K; Sitaram N; Dobrescu I; Motta A; Chuang S; Ooi CY, 2024, 'Serious games vs. traditional tutorials in the pandemic: a randomised controlled trial', Frontiers in Medicine, 11, http://dx.doi.org/10.3389/fmed.2024.1424024

Dissanayake RY; Yuan H; Coffey MJ; Traini I; Chan SY; Menzies J; Hughes J; McKay I; van Dorst JM; Leach ST; Chee OY; Krishnan U, 2024, '343 ARE AIRWAY MICROBIOTA AND INFLAMMATION IN CHILDREN WITH ESOPHAGEAL ATRESIA RELATED TO REFLUX ASPIRATION?', Gastroenterology, 166, pp. s - 80, http://dx.doi.org/10.1016/s0016-5085(24)00681-4

McKay I; van Dorst J; Katz T; Doumit M; Prentice B; Owens L; Belessis Y; Chuang S; Jaffe A; Thomas T; Coffey M; Ooi CY, 2023, 'Diet and the gut-lung axis in cystic fibrosis – direct & indirect links', Gut Microbes, 15, pp. 2156254, http://dx.doi.org/10.1080/19490976.2022.2156254

Traini I; Chan SY; Menzies J; Hughes J; Coffey MJ; Katz T; McKay IR; Ooi CY; Leach ST; Krishnan U, 2022, 'Evaluating the Dietary Intake of Children with Esophageal Atresia: A Prospective, Controlled, Observational Study', Journal of Pediatric Gastroenterology and Nutrition, 75, pp. 221 - 226, http://dx.doi.org/10.1097/MPG.0000000000003498

Permain J; Appleton L; Ho SSC; Coffey M; Ooi CY; Keenan JI; Day AS, 2022, 'Children With Cystic Fibrosis Have Elevated Levels of Fecal Chitinase-3-like-1', Journal of Pediatric Gastroenterology and Nutrition, 75, pp. 48 - 51, http://dx.doi.org/10.1097/MPG.0000000000003477

Tam RY; van Dorst JM; McKay I; Coffey M; Ooi CY, 2022, 'Intestinal Inflammation and Alterations in the Gut Microbiota in Cystic Fibrosis: A Review of the Current Evidence, Pathophysiology and Future Directions', Journal of Clinical Medicine, 11, http://dx.doi.org/10.3390/jcm11030649

Coffey MJ; Garg M; Homaira N; Jaffe A; Ooi CY, 2021, 'A systematic cochrane review of probiotics for people with cystic fibrosis', Paediatric Respiratory Reviews, 39, pp. 61 - 64, http://dx.doi.org/10.1016/j.prrv.2020.06.020

Perron JE; Coffey MJ; Lovell-Simons A; Dominguez L; King ME; Ooi CY, 2021, 'Resuscitating cardiopulmonary resuscitation training in a virtual reality: Prospective interventional study', Journal of Medical Internet Research, 23, http://dx.doi.org/10.2196/22920

Coffey MJ; Ooi CY, 2020, 'Paediatric pancreatic diseases', Journal of Paediatrics and Child Health, 56, pp. 1694 - 1701, http://dx.doi.org/10.1111/jpc.14688

Ting A; Katz T; Sutherland R; Liu V; Tong CW; Gao Y; Lemberg DA; Krishnan U; Gupta N; Coffey MJ; Ooi CY, 2020, 'Evaluating the Dietary Intakes of Energy, Macronutrients, Sugar, Fiber, and Micronutrients in Children With Celiac Disease', Journal of Pediatric Gastroenterology and Nutrition, 71, pp. 246 - 251, http://dx.doi.org/10.1097/MPG.0000000000002743

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, http://dx.doi.org/10.1136/bmjopen-2019-033916

Coffey MJ; Garg M; Homaira N; Jaffe A; Ooi CY, 2020, 'Probiotics for people with cystic fibrosis', Cochrane Database of Systematic Reviews, 2020, pp. cd012949, http://dx.doi.org/10.1002/14651858.CD012949.pub2

Traini I; Menzies J; Hughes J; Katz T; Coffey MJ; Ooi CY; Leach ST; Krishnan U; behalf of the ERGO, 2020, '307 LOOKING BEYOND THE ESOPHAGUS: INVESTIGATING THE INTESTINAL MICROBIOTA AND INFLAMMATION IN CHILDREN WITH REPAIRED ESOPHAGEAL ATRESIA', Gastroenterology, 158, pp. s-1507-s-1508, http://dx.doi.org/10.1016/s0016-5085(20)34438-3

Singh H; Coffey MJ; Ooi CY, 2020, 'Cystic Fibrosis-related Liver Disease is Associated With Increased Disease Burden and Endocrine Comorbidities.', J Pediatr Gastroenterol Nutr, 70, pp. 796 - 800, http://dx.doi.org/10.1097/MPG.0000000000002694

Traini I; Menzies J; Hughes J; Katz T; Coffey MJ; Ooi CY; Leach ST; Krishnan U; Group ER, 2020, 'Mo2000 FOOD FOR THOUGHT: DIET, DYSPHAGIA AND GROWTH IN CHILDREN WITH REPAIRED ESOPHAGEAL ATRESIA', Gastroenterology, 158, pp. s - 1575, http://dx.doi.org/10.1016/s0016-5085(20)34618-7

Paida K; McKay IR; Coffey MJ; Kasparian N; Katz T; Ooi CY, 2020, 'P374 Evaluation of anxiety levels in a paediatric cystic fibrosis population', Journal of Cystic Fibrosis, 19, pp. s160 - s161, http://dx.doi.org/10.1016/s1569-1993(20)30702-5

Coffey MJ; Low I; Stelzer-Braid S; Wemheuer B; Garg M; Thomas T; Jaffe A; Rawlinson WD; Ooi CY, 2020, 'The intestinal virome in children with cystic fibrosis differs from healthy controls.', PLoS One, 15, pp. e0233557, http://dx.doi.org/10.1371/journal.pone.0233557

Coffey MJ; Nielsen S; Wemheuer B; Kaakoush NO; Garg M; Needham B; Pickford R; Jaffe A; Thomas T; Ooi CY, 2019, 'Gut Microbiota in Children With Cystic Fibrosis: A Taxonomic and Functional Dysbiosis', Scientific Reports, 9, pp. 18593, http://dx.doi.org/10.1038/s41598-019-55028-7

Tan SMJ; Coffey MJ; Ooi CY, 2019, 'Differences in clinical outcomes of paediatric cystic fibrosis patients with and without meconium ileus', Journal of Cystic Fibrosis, 18, pp. 857 - 862, http://dx.doi.org/10.1016/j.jcf.2019.09.008

Coffey MJ; Low I; Stelzer-Braid S; Rawlinson W; Thomas T; Jaffe A; Ooi CY, 2019, '1139 – The Intestinal Virome in Children with Cystic Fibrosis: A Pilot Study', Gastroenterology, 156, pp. s - 241, http://dx.doi.org/10.1016/s0016-5085(19)37406-2

Singh H; Coffey MJ; Ooi CY, 2019, '652 – Clinical Outcomes in Australian Children with Cystic Fibrosis Liver Disease: A Nationwide Retrospective Review with Matched Controls', Gastroenterology, 156, pp. s-136-s-137, http://dx.doi.org/10.1016/s0016-5085(19)37132-x

Coffey MJ; Nielsen S; Wemheuer B; Garg M; Needham B; Jaffe A; Thomas T; Ooi CY, 2019, 'Mo1947 – Taxonomic and Functional Intestinal Dysbiosis in Children with Cystic Fibrosis', Gastroenterology, 156, pp. s - 895, http://dx.doi.org/10.1016/s0016-5085(19)39210-8

Coffey MJ; Garg M; Homaira N; Jaffe A; Ooi CY, 2018, 'Probiotics for people with cystic fibrosis', Cochrane Database of Systematic Reviews, 2018, http://dx.doi.org/10.1002/14651858.CD012949

Garg M; Leach ST; Pang T; Needham B; Coffey MJ; Katz T; Strachan R; Widger J; Field P; Belessis Y; Chuang S; Day AS; Jaffe A; Ooi CY, 2018, 'Age-related levels of fecal M2-pyruvate kinase in children with cystic fibrosis and healthy children 0 to 10 years old', Journal of Cystic Fibrosis, 17, pp. 109 - 113, http://dx.doi.org/10.1016/j.jcf.2017.07.011

Coffey MJ; Low I; Stelzer-Braid S; Rawlinson W; Thomas T; Jaffe A; Ooi CY, 2018, 'EPS4.04 Characterising the intestinal virome in cystic fibrosis', Journal of Cystic Fibrosis, 17, pp. s44, http://dx.doi.org/10.1016/s1569-1993(18)30256-x

Cone S; Ooi CY; Coffey M; Larkin G; Leach ST; Poulton C, 2018, 'Mo2024 - Functional Dysbiosis in Children with Irritable Bowel Syndrome', Gastroenterology, 154, pp. s - 883, http://dx.doi.org/10.1016/s0016-5085(18)32985-8

Coffey MJ; Nielsen S; Wemheuer B; Needham B; Jaffe A; Thomas T; Ooi CY, 2018, 'P071 Predicting the functional intestinal profiles in cystic fibrosis', Journal of Cystic Fibrosis, 17, pp. s79, http://dx.doi.org/10.1016/s1569-1993(18)30368-0

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