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A Deep Learning Framework for Predicting Response to Therapy in Cancer.

Sakellaropoulos T, Vougas K, Narang S, Koinis F, Kotsinas A, Polyzos A, Moss TJ, Piha-Paul S, Zhou H, Kardala E, Damianidou E, Alexopoulos LG, Aifantis I, Townsend PA, Panayiotidis MI, Sfikakis P, Bartek J, Fitzgerald RC, Thanos D, Mills Shaw KR, Petty R, Tsirigos A, Gorgoulis VG.

Cell Rep. 2019 Dec 10;29(11):3367-3373.e4. doi: 10.1016/j.celrep.2019.11.017.


Role of TFF3 as an adjunct in the diagnosis of Barrett's esophagus using a minimally invasive esophageal sampling device-The CytospongeTM.

Paterson AL, Gehrung M, Fitzgerald RC, O'Donovan M.

Diagn Cytopathol. 2019 Dec 9. doi: 10.1002/dc.24354. [Epub ahead of print] Review.


Author Correction: Gastroesophageal reflux GWAS identifies risk loci that also associate with subsequent severe esophageal diseases.

An J, Gharahkhani P, Law MH, Ong JS, Han X, Olsen CM, Neale RE, Lai J, Vaughan TL, Gockel I, Thieme R, Böhmer AC, Jankowski J, Fitzgerald RC, Schumacher J, Palles C; BEACON; 23andMe Research Team, Whiteman DC, MacGregor S.

Nat Commun. 2019 Dec 4;10(1):5617. doi: 10.1038/s41467-019-13526-2.


Association Between Levels of Hormones and Risk of Esophageal Adenocarcinoma and Barrett's Esophagus.

Xie SH, Fang R, Huang M, Dai J, Thrift AP, Anderson LA, Chow WH, Bernstein L, Gammon MD, Risch HA, Shaheen NJ, Reid BJ, Wu AH, Iyer PG, Liu G, Corley DA, Whiteman DC, Caldas C, Pharoah PD, Hardie LJ, Fitzgerald RC, Shen H, Vaughan TL, Lagergren J.

Clin Gastroenterol Hepatol. 2019 Nov 19. pii: S1542-3565(19)31317-5. doi: 10.1016/j.cgh.2019.11.030. [Epub ahead of print]


Time to Challenge Current Strategies for Detection of Barrett's Esophagus and Esophageal Adenocarcinoma.

Katzka DA, Fitzgerald RC.

Dig Dis Sci. 2019 Nov 22. doi: 10.1007/s10620-019-05965-0. [Epub ahead of print] Review. No abstract available.


A Perspective on the Development of Gas-phase Chemical Mechanisms for Eulerian Air Quality Models.

Stockwell WR, Saunders E, Goliff WS, Fitzgerald RM.

J Air Waste Manag Assoc. 2019 Nov 21. doi: 10.1080/10962247.2019.1694605. [Epub ahead of print]


Shared genetic etiology of obesity-related traits and Barrett's esophagus/adenocarcinoma: Insights from genome-wide association studies.

Böhmer AC, Hecker J, Schröder J, Gharahkhani P, May A, Gerges C, Anders M, Becker J, Hess T, Kreuser N, Thieme R, Noder T, Venerito M, Veits L, Schmidt T, Fuchs C, Izbicki JR, Hölscher AH, Dietrich A, Moulla Y, Lyros O, Lang H, Lorenz D, Schumacher B, Meyershofer R, Vashist YK, Ott K, Vieth M, Weissmüller J, Moebus S, Knapp M, Neuhaus H, Rösch T, Ell C, Nöthen MM, Whiteman DC, Tomlinson I, Jankowski JA, Fitzgerald RC, Palles C, Vaughan TL, Gockel I, Thrift AP, Fier H, Schumacher J.

Cancer Epidemiol Biomarkers Prev. 2019 Nov 20. pii: cebp.0374.2019. doi: 10.1158/1055-9965.EPI-19-0374. [Epub ahead of print]


A cell-based evaluation of a non-essential amino acid formulation as a non-bioactive control for activation and stimulation of muscle protein synthesis using ex vivo human serum.

Patel B, Pauk M, Amigo-Benavent M, Nongonierma AB, Fitzgerald RJ, Jakeman PM, Carson BP.

PLoS One. 2019 Nov 19;14(11):e0220757. doi: 10.1371/journal.pone.0220757. eCollection 2019.


Comparison of Phenotypes and Risk Factors for Esophageal Adenocarcinoma at Present vs Prior Decades.

Sawas T, Azad N, Killcoyne S, Iyer PG, Wang KK, Fitzgerald RC, Katzka DA.

Clin Gastroenterol Hepatol. 2019 Nov 8. pii: S1542-3565(19)31269-8. doi: 10.1016/j.cgh.2019.11.014. [Epub ahead of print]


Sentencing, Domestic Violence, and the Overrepresentation of Indigenous Australians: Does Court Location Matter?

Fitzgerald R, Douglas H, Heybroek L.

J Interpers Violence. 2019 Nov 8:886260519885916. doi: 10.1177/0886260519885916. [Epub ahead of print]


Acidic Drug Concentrations in Postmortem Vitreous Humor and Peripheral Blood.

Hubbard JA, Navarrete AL, Fitzgerald RL, McIntyre IM.

J Anal Toxicol. 2019 Nov 6. pii: bkz076. doi: 10.1093/jat/bkz076. [Epub ahead of print]


Determination of the internal pair production branching ratio of 90Y.

Pibida L, Zimmerman BE, King L, Fitzgerald R, Bergeron DE, Napoli E, Cessna JT.

Appl Radiat Isot. 2019 Oct 15;156:108943. doi: 10.1016/j.apradiso.2019.108943. [Epub ahead of print]


A Dilution Method to Mitigate Biotin Interference in Cardiac Troponin T Testing.

Bevins NJ, Hubbard JA, Fitzgerald RL, Kelner MJ.

J Appl Lab Med. 2019 Nov;4(3):415-421. doi: 10.1373/jalm.2018.028589. Epub 2019 Aug 2.


Investigating the clinical factors and co-medications associated with circulating levels of atorvastatin and its major metabolites in secondary prevention.

Turner RM, Fontana V, FitzGerald R, Morris AP, Pirmohamed M.

Br J Clin Pharmacol. 2019 Oct 26. doi: 10.1111/bcp.14133. [Epub ahead of print]


Primary standardization of 224Ra activity by liquid scintillation counting.

Napoli E, Cessna JT, Fitzgerald R, Pibida L, Collé R, Laureano-Pérez L, Zimmerman BE, Bergeron DE.

Appl Radiat Isot. 2020 Jan;155:108933. doi: 10.1016/j.apradiso.2019.108933. Epub 2019 Oct 11.


Intake of Processed Meat and Association with Sociodemographic and Lifestyle Factors in a Representative Sample of the Swiss Population.

Sych J, Kaelin I, Gerlach F, Wróbel A, Le T, FitzGerald R, Pestoni G, Faeh D, Krieger JP, Rohrmann S.

Nutrients. 2019 Oct 23;11(11). pii: E2556. doi: 10.3390/nu11112556.


The landscape of somatic mutation in normal colorectal epithelial cells.

Lee-Six H, Olafsson S, Ellis P, Osborne RJ, Sanders MA, Moore L, Georgakopoulos N, Torrente F, Noorani A, Goddard M, Robinson P, Coorens THH, O'Neill L, Alder C, Wang J, Fitzgerald RC, Zilbauer M, Coleman N, Saeb-Parsy K, Martincorena I, Campbell PJ, Stratton MR.

Nature. 2019 Oct;574(7779):532-537. doi: 10.1038/s41586-019-1672-7. Epub 2019 Oct 23.


Homogentisic acid is not only eliminated by glomerular filtration and tubular secretion but also produced in the kidney in alkaptonuria.

Ranganath LR, Milan AM, Hughes AT, Khedr M, Davison AS, Shweihdi E, Norman BP, Hughes JH, Bygott H, Luangrath E, Fitzgerald R, Psarelli EE, van Kan C, Laan D, Olsson B, Rudebeck M, Mankowitz L, Sireau N, Arnoux JB, Le Quan Sang KH, Jarvis JC, Genovese F, Braconi D, Santucci A, Zatkova A, Glasova H, Stančík R, Imrich R, Rhodes NP, Gallagher JA.

J Inherit Metab Dis. 2019 Oct 14. doi: 10.1002/jimd.12181. [Epub ahead of print]


Gastroesophageal reflux GWAS identifies risk loci that also associate with subsequent severe esophageal diseases.

An J, Gharahkhani P, Law MH, Ong JS, Han X, Olsen CM, Neale RE, Lai J, Vaughan TL, Gockel I, Thieme R, Böhmer AC, Jankowski J, Fitzgerald RC, Schumacher J, Palles C; BEACON; 23andMe Research Team, Whiteman DC, MacGregor S.

Nat Commun. 2019 Sep 16;10(1):4219. doi: 10.1038/s41467-019-11968-2. Erratum in: Nat Commun. 2019 Dec 4;10(1):5617.


Validation of a liquid chromatography tandem mass spectrometry (LC-MS/MS) method to detect cannabinoids in whole blood and breath.

Hubbard JA, Smith BE, Sobolesky PM, Kim S, Hoffman MA, Stone J, Huestis MA, Grelotti DJ, Grant I, Marcotte TS, Fitzgerald RL.

Clin Chem Lab Med. 2019 Sep 17. pii: /j/cclm.ahead-of-print/cclm-2019-0600/cclm-2019-0600.xml. doi: 10.1515/cclm-2019-0600. [Epub ahead of print]


Teaching orthodontic emergencies using the "flipped classroom" method of teaching-A mixed methods RCT.

Isherwood G, Taylor K, Burnside G, Fitzgerald R, Flannigan N.

Eur J Dent Educ. 2019 Sep 13. doi: 10.1111/eje.12467. [Epub ahead of print]


Standardization of I-124 by three liquid scintillation-based methods.

Bergeron DE, Cessna JT, Fitzgerald R, Pibida L, Zimmerman BE.

Appl Radiat Isot. 2019 Dec;154:108849. doi: 10.1016/j.apradiso.2019.108849. Epub 2019 Aug 9.


Machine learning and data mining frameworks for predicting drug response in cancer: An overview and a novel in silico screening process based on association rule mining.

Vougas K, Sakellaropoulos T, Kotsinas A, Foukas GP, Ntargaras A, Koinis F, Polyzos A, Myrianthopoulos V, Zhou H, Narang S, Georgoulias V, Alexopoulos L, Aifantis I, Townsend PA, Sfikakis P, Fitzgerald R, Thanos D, Bartek J, Petty R, Tsirigos A, Gorgoulis VG.

Pharmacol Ther. 2019 Nov;203:107395. doi: 10.1016/j.pharmthera.2019.107395. Epub 2019 Jul 30. Review.


Features of dipeptidyl peptidase IV (DPP-IV) inhibitory peptides from dietary proteins.

Nongonierma AB, FitzGerald RJ.

J Food Biochem. 2019 Jan;43(1):e12451. doi: 10.1111/jfbc.12451. Epub 2017 Nov 1. Review.


Corrigendum to Recommendation on test readiness criteria for new approach methods in toxicology: exemplified for developmental neurotoxicity.

Bal-Price A, Hogberg HT, Crofton KM, Daneshian M, FitzGerald RE, Fritsche E, Heinonen T, Hougaard Bennekou S, Klima S, Piersma AH, Sachana M, Shafer TJ, Terron A, Monnet-Tschudi F, Viviani B, Waldmann T, Westerink RHS, Wilks MF, Witters H, Zurich MG, Leist M.

ALTEX. 2019;36(3):506. doi: 10.14573/altex.1904112.


Patient-specific cancer genes contribute to recurrently perturbed pathways and establish therapeutic vulnerabilities in esophageal adenocarcinoma.

Mourikis TP, Benedetti L, Foxall E, Temelkovski D, Nulsen J, Perner J, Cereda M, Lagergren J, Howell M, Yau C, Fitzgerald RC, Scaffidi P; Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium, Ciccarelli FD.

Nat Commun. 2019 Jul 15;10(1):3101. doi: 10.1038/s41467-019-10898-3.


Feasibility of combined screening for upper gastrointestinal adenocarcinoma risk by serology and Cytosponge testing: the SUGAR study.

Xu Y, Miremadi A, Link A, Malfertheiner P, Fitzgerald RC, Bornschein J.

J Clin Pathol. 2019 Dec;72(12):825-829. doi: 10.1136/jclinpath-2019-205700. Epub 2019 Jun 24.


Analytical performance evaluation of the Elecsys® Troponin T Gen 5 STAT assay.

Fitzgerald RL, Hollander JE, Peacock WF, Limkakeng AT, Breitenbeck N, Blechschmidt K, Laimighofer M, deFilippi C.

Clin Chim Acta. 2019 Aug;495:522-528. doi: 10.1016/j.cca.2019.05.026. Epub 2019 May 30.


Peptide identification from a Porphyra dioica protein hydrolysate with antioxidant, angiotensin converting enzyme and dipeptidyl peptidase IV inhibitory activities.

Cermeño M, Stack J, Tobin PR, O'Keeffe MB, Harnedy PA, Stengel DB, FitzGerald RJ.

Food Funct. 2019 Jun 19;10(6):3421-3429. doi: 10.1039/c9fo00680j.


Barrett oesophagus.

Peters Y, Al-Kaabi A, Shaheen NJ, Chak A, Blum A, Souza RF, Di Pietro M, Iyer PG, Pech O, Fitzgerald RC, Siersema PD.

Nat Rev Dis Primers. 2019 May 23;5(1):35. doi: 10.1038/s41572-019-0086-z. Review.


Characterisation of the bioactive properties and microstructure of chickpea protein-based oil in water emulsions.

Felix M, Cermeño M, Romero A, FitzGerald RJ.

Food Res Int. 2019 Jul;121:577-585. doi: 10.1016/j.foodres.2018.12.022. Epub 2018 Dec 22.


Characterisation of the in vitro bioactive properties of alkaline and enzyme extracted brewers' spent grain protein hydrolysates.

Connolly A, Cermeño M, Crowley D, O'Callaghan Y, O'Brien NM, FitzGerald RJ.

Food Res Int. 2019 Jul;121:524-532. doi: 10.1016/j.foodres.2018.12.008. Epub 2018 Dec 5.


Ingested asbestos in filtered beer, in addition to occupational exposure, as a causative factor in oesophageal adenocarcinoma.

Fitzgerald RC, Rhodes JM.

Br J Cancer. 2019 Jun;120(12):1099-1104. doi: 10.1038/s41416-019-0467-9. Epub 2019 May 9. Review.


Transcriptomic profiling reveals three molecular phenotypes of adenocarcinoma at the gastroesophageal junction.

Bornschein J, Wernisch L, Secrier M, Miremadi A, Perner J, MacRae S, O'Donovan M, Newton R, Menon S, Bower L, Eldridge MD, Devonshire G, Cheah C, Turkington R, Hardwick RH, Selgrad M, Venerito M, Malfertheiner P; OCCAMS Consortium, Fitzgerald RC.

Int J Cancer. 2019 Dec 15;145(12):3389-3401. doi: 10.1002/ijc.32384. Epub 2019 May 17.


A clinically translatable hyperspectral endoscopy (HySE) system for imaging the gastrointestinal tract.

Yoon J, Joseph J, Waterhouse DJ, Luthman AS, Gordon GSD, di Pietro M, Januszewicz W, Fitzgerald RC, Bohndiek SE.

Nat Commun. 2019 Apr 23;10(1):1902. doi: 10.1038/s41467-019-09484-4.


High-Fat Diet Accelerates Carcinogenesis in a Mouse Model of Barrett's Esophagus via Interleukin 8 and Alterations to the Gut Microbiome.

Münch NS, Fang HY, Ingermann J, Maurer HC, Anand A, Kellner V, Sahm V, Wiethaler M, Baumeister T, Wein F, Einwächter H, Bolze F, Klingenspor M, Haller D, Kavanagh M, Lysaght J, Friedman R, Dannenberg AJ, Pollak M, Holt PR, Muthupalani S, Fox JG, Whary MT, Lee Y, Ren TY, Elliot R, Fitzgerald R, Steiger K, Schmid RM, Wang TC, Quante M.

Gastroenterology. 2019 Aug;157(2):492-506.e2. doi: 10.1053/j.gastro.2019.04.013. Epub 2019 Apr 15.


Prevalence and Characteristics of Autism Spectrum Disorder Among Children Aged 4 Years - Early Autism and Developmental Disabilities Monitoring Network, Seven Sites, United States, 2010, 2012, and 2014.

Christensen DL, Maenner MJ, Bilder D, Constantino JN, Daniels J, Durkin MS, Fitzgerald RT, Kurzius-Spencer M, Pettygrove SD, Robinson C, Shenouda J, White T, Zahorodny W, Pazol K, Dietz P.

MMWR Surveill Summ. 2019 Apr 12;68(2):1-19. doi: 10.15585/mmwr.ss6802a1.


Excluding indigenous bioethical concerns when regulating frozen embryo storage: An Aotearoa New Zealand case study.

Fitzgerald RP, Legge M, Rewi P, Robinson EJ.

Reprod Biomed Soc Online. 2019 Feb 14;8:10-22. doi: 10.1016/j.rbms.2019.01.001. eCollection 2019 Jun.


A sinister black finding in the stomach.

Januszewicz W, Corrie P, Liu H, Chan J, Fitzgerald RC, di Pietro M.

Lancet. 2019 Mar 16;393(10176):1149. doi: 10.1016/S0140-6736(19)30423-4. Epub 2019 Mar 14. No abstract available.


Immune activation by DNA damage predicts response to chemotherapy and survival in oesophageal adenocarcinoma.

Turkington RC, Knight LA, Blayney JK, Secrier M, Douglas R, Parkes EE, Sutton EK, Stevenson L, McManus D, Halliday S, McCavigan AM, Logan GE, Walker SM, Steele CJ, Perner J, Bornschein J, MacRae S, Miremadi A, McCarron E, McQuaid S, Arthur K, James JA, Eatock MM, O'Neill R, Noble F, Underwood TJ, Harkin DP, Salto-Tellez M, Fitzgerald RC, Kennedy RD; Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Study Group.

Gut. 2019 Nov;68(11):1918-1927. doi: 10.1136/gutjnl-2018-317624. Epub 2019 Mar 9.


Will a Proton Pump Inhibitor and an Aspirin Keep the Doctor Away for Patients With Barrett's Esophagus?

Fitzgerald RC, Corley DA.

Gastroenterology. 2019 Apr;156(5):1228-1231. doi: 10.1053/j.gastro.2019.03.001. Epub 2019 Mar 5. No abstract available.


Reply to: anaesthesia and endovascular therapy in patients with acute ischaemic stroke.

Lamperti M, Hinkelbein J, Fuchs-Buder T, Fitzgerald R.

Eur J Anaesthesiol. 2019 Apr;36(4):306-307. doi: 10.1097/EJA.0000000000000962. No abstract available.


An approach to structural facial rejuvenation with fillers in women.

Fitzgerald R, Carqueville J, Yang PT.

Int J Womens Dermatol. 2018 Dec 13;5(1):52-67. doi: 10.1016/j.ijwd.2018.08.011. eCollection 2019 Feb. Review.


The landscape of selection in 551 esophageal adenocarcinomas defines genomic biomarkers for the clinic.

Frankell AM, Jammula S, Li X, Contino G, Killcoyne S, Abbas S, Perner J, Bower L, Devonshire G, Ococks E, Grehan N, Mok J, O'Donovan M, MacRae S, Eldridge MD, Tavaré S; Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium, Fitzgerald RC.

Nat Genet. 2019 Mar;51(3):506-516. doi: 10.1038/s41588-018-0331-5. Epub 2019 Feb 4.


No Association Between Vitamin D Status and Risk of Barrett's Esophagus or Esophageal Adenocarcinoma: A Mendelian Randomization Study.

Dong J, Gharahkhani P, Chow WH, Gammon MD, Liu G, Caldas C, Wu AH, Ye W, Onstad L, Anderson LA, Bernstein L, Pharoah PD, Risch HA, Corley DA, Fitzgerald RC; Stomach and Esophageal Cancer Study Consortium, Iyer PG, Reid BJ, Lagergren J, Shaheen NJ, Vaughan TL, MacGregor S, Love S, Palles C, Tomlinson I, Gockel I, May A, Gerges C, Anders M, Böhmer AC, Becker J, Kreuser N, Thieme R, Noder T, Venerito M, Veits L, Schmidt T, Schmidt C, Izbicki JR, Hölscher AH, Lang H, Lorenz D, Schumacher B, Mayershofer R, Vashist Y, Ott K, Vieth M, Weismüller J, Nöthen MM, Moebus S, Knapp M, Peters WHM, Neuhaus H, Rösch T, Ell C, Jankowski J, Schumacher J, Neale RE, Whiteman DC, Thrift AP.

Clin Gastroenterol Hepatol. 2019 Oct;17(11):2227-2235.e1. doi: 10.1016/j.cgh.2019.01.041. Epub 2019 Feb 1.


Early detection and therapeutics.

Januszewicz W, Fitzgerald RC.

Mol Oncol. 2019 Mar;13(3):599-613. doi: 10.1002/1878-0261.12458. Epub 2019 Feb 20. Review.


Author Correction: Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1.

Garcia E, Hayden A, Birts C, Britton E, Rogerson C, Bleaney CW, Cowie A, Pickard K, Mellone M, Choh C, Derouet M, Duriez P, Noble F, White MJ, Primrose JN, Strefford JC, Rose-Zerilli M, Thomas GJ, Ang Y, Sharrocks AD, Fitzgerald RC, Underwood TJ; OCCAMS consortium.

Sci Rep. 2019 Jan 22;9(1):318. doi: 10.1038/s41598-018-37591-7.


Validation of a liquid chromatography-tandem mass spectrometry method for analyzing cannabinoids in oral fluid.

Sobolesky PM, Smith BE, Hubbard JA, Stone J, Marcotte TD, Grelotti DJ, Grant I, Fitzgerald RL.

Clin Chim Acta. 2019 Apr;491:30-38. doi: 10.1016/j.cca.2019.01.002. Epub 2019 Jan 4.


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