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MIRUReader - Fast in-silico MIRU-VNTR typing directly from long sequencing reads.

Tang CY, Ong RT.

Bioinformatics. 2019 Oct 11. pii: btz771. doi: 10.1093/bioinformatics/btz771. [Epub ahead of print]


Candida auris in Singapore: Genomic Epidemiology, Antifungal Drug Resistance and Identification using the updated 8.01 VITEK®2 System.

Tan YE, Teo JQ, Rahman NBA, Ng OT, Kalisvar M, Tan AL, Koh TH, Ong RTH.

Int J Antimicrob Agents. 2019 Oct 7. pii: S0924-8579(19)30267-5. doi: 10.1016/j.ijantimicag.2019.09.016. [Epub ahead of print]


Factors associated with muscle mass in community-dwelling older people in Singapore: Findings from the SHIELD study.

Tey SL, Chew STH, How CH, Yalawar M, Baggs G, Chow WL, Cheong M, Ong RHS, Husain FS, Kwan SC, Tan CYL, Low YL, Tan NC, Huynh DTT.

PLoS One. 2019 Oct 9;14(10):e0223222. doi: 10.1371/journal.pone.0223222. eCollection 2019.


Simultaneous analysis of 29 synthetic cannabinoids and metabolites, amphetamines and cannabinoids in human whole blood by LC-MS/MS - A New Zealand perspective of use in 2018.

Ong RS, Kappatos DC, Russell SGG, Poulsen HA, Banister SD, Gerona RR, Glass M, Johnson CS, McCarthy MJ.

Drug Test Anal. 2019 Oct 9. doi: 10.1002/dta.2697. [Epub ahead of print]


Treatment Patterns in Patients with Incident Parkinson's Disease in the United States.

Houghton R, Boess F, Verselis L, Ding Y, Freitas R, Constantinovici N, Ong R.

J Parkinsons Dis. 2019 Aug 16. doi: 10.3233/JPD-191636. [Epub ahead of print]


Study protocol of a multicentre cohort pilot study implementing an expanded preconception carrier-screening programme in metropolitan and regional Western Australia.

Ong R, Edwards S, Howting D, Kamien B, Harrop K, Ravenscroft G, Davis M, Fietz M, Pachter N, Beilby J, Laing N.

BMJ Open. 2019 Jun 16;9(6):e028209. doi: 10.1136/bmjopen-2018-028209.


Taurolidine-citrate lock solution for the prevention of central line-associated bloodstream infection in paediatric haematology-oncology and gastrointestinal failure patients with high baseline central-line associated bloodstream infection rates.

Chong CY, Ong RY, Seah VX, Tan NW, Chan MY, Soh SY, Ong C, Lim AS, Thoon KC.

J Paediatr Child Health. 2019 May 30. doi: 10.1111/jpc.14506. [Epub ahead of print]


Comparisons of whole-genome sequencing and phenotypic drug susceptibility testing for Mycobacterium tuberculosis causing MDR-TB and XDR-TB in Thailand.

Faksri K, Kaewprasert O, Ong RT, Suriyaphol P, Prammananan T, Teo YY, Srilohasin P, Chaiprasert A.

Int J Antimicrob Agents. 2019 Aug;54(2):109-116. doi: 10.1016/j.ijantimicag.2019.04.004. Epub 2019 Apr 11.


Risk factors and outcomes associated with the isolation of polymyxin B and carbapenem-resistant Enterobacteriaceae spp.: A case-control study.

Teo JQ, Chang CW, Leck H, Tang CY, Lee SJ, Cai Y, Ong RT, Koh TH, Tan TT, Kwa AL.

Int J Antimicrob Agents. 2019 May;53(5):657-662. doi: 10.1016/j.ijantimicag.2019.03.011. Epub 2019 Mar 14.


Relating knowledge, attitude and practice of antibiotic use to extended-spectrum beta-lactamase-producing Enterobacteriaceae carriage: results of a cross-sectional community survey.

Mo Y, Seah I, Lye PSP, Kee XLJ, Wong KYM, Ko KKK, Ong RT, Tambyah PA, Cook AR.

BMJ Open. 2019 Mar 5;9(3):e023859. doi: 10.1136/bmjopen-2018-023859.


Sorafenib/MEK inhibitor combination inhibits tumor growth and the Wnt/β‑catenin pathway in xenograft models of hepatocellular carcinoma.

Huynh H, Ong R, Goh KY, Lee LY, Puehler F, Scholz A, Politz O, Mumberg D, Ziegelbauer K.

Int J Oncol. 2019 Mar;54(3):1123-1133. doi: 10.3892/ijo.2019.4693. Epub 2019 Jan 23.


Infigratinib Mediates Vascular Normalization, Impairs Metastasis, and Improves Chemotherapy in Hepatocellular Carcinoma.

Huynh H, Lee LY, Goh KY, Ong R, Hao HX, Huang A, Wang Y, Graus Porta D, Chow P, Chung A.

Hepatology. 2019 Mar;69(3):943-958. doi: 10.1002/hep.30481.


Effects of chronic diseases on health-related quality of life and self-rated health among three adult age groups.

Ge L, Ong R, Yap CW, Heng BH.

Nurs Health Sci. 2019 Jun;21(2):214-222. doi: 10.1111/nhs.12585. Epub 2018 Dec 10.


ARGDIT: a validation and integration toolkit for Antimicrobial Resistance Gene Databases.

Chiu JKH, Ong RT.

Bioinformatics. 2019 Jul 15;35(14):2466-2474. doi: 10.1093/bioinformatics/bty987.


Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.

CRyPTIC Consortium and the 100,000 Genomes Project, Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, Golubchik T, Gonzalo X, Grandjean L, He G, Guthrie JL, Hoosdally S, Hunt M, Iqbal Z, Ismail N, Johnston J, Khanzada FM, Khor CC, Kohl TA, Kong C, Lipworth S, Liu Q, Maphalala G, Martinez E, Mathys V, Merker M, Miotto P, Mistry N, Moore DAJ, Murray M, Niemann S, Omar SV, Ong RT, Peto TEA, Posey JE, Prammananan T, Pym A, Rodrigues C, Rodrigues M, Rodwell T, Rossolini GM, Sánchez Padilla E, Schito M, Shen X, Shendure J, Sintchenko V, Sloutsky A, Smith EG, Snyder M, Soetaert K, Starks AM, Supply P, Suriyapol P, Tahseen S, Tang P, Teo YY, Thuong TNT, Thwaites G, Tortoli E, van Soolingen D, Walker AS, Walker TM, Wilcox M, Wilson DJ, Wyllie D, Yang Y, Zhang H, Zhao Y, Zhu B.

N Engl J Med. 2018 Oct 11;379(15):1403-1415. doi: 10.1056/NEJMoa1800474. Epub 2018 Sep 26.


Bi-allelic mutations in MYL1 cause a severe congenital myopathy.

Ravenscroft G, Zaharieva IT, Bortolotti CA, Lambrughi M, Pignataro M, Borsari M, Sewry CA, Phadke R, Haliloglu G, Ong R, Goullée H, Whyte T, Consortium UK, Manzur A, Talim B, Kaya U, Osborn DPS, Forrest ARR, Laing NG, Muntoni F.

Hum Mol Genet. 2018 Dec 15;27(24):4263-4272. doi: 10.1093/hmg/ddy320.


The impact of intergenerational financial transfers on health and wellbeing outcomes: A longitudinal study.

Ong R, Nguyen T, Kendall G.

Soc Sci Med. 2018 Oct;214:179-186. doi: 10.1016/j.socscimed.2018.08.028. Epub 2018 Aug 25.


Prediction of solar irradiance using ray-tracing techniques for coral macro- and micro-habitats.

Ong RH, King AJC, Caley MJ, Mullins BJ.

Mar Environ Res. 2018 Oct;141:75-87. doi: 10.1016/j.marenvres.2018.08.004. Epub 2018 Aug 11.


Measuring the impact of genetic knowledge on intentions and attitudes of the community towards expanded preconception carrier screening.

Ong R, Howting D, Rea A, Christian H, Charman P, Molster C, Ravenscroft G, Laing NG.

J Med Genet. 2018 Nov;55(11):744-752. doi: 10.1136/jmedgenet-2018-105362. Epub 2018 Aug 1.


Clofazimine drug susceptibility testing for Mycobacterium tuberculosis: the case of using the right diluent.

Sng LH, Peh JWL, Kee MTL, Ya'akob NBM, Ong RT, Wong CW, Chee CBE, Wang YT.

Pathology. 2018 Aug;50(5):549-553. doi: 10.1016/j.pathol.2018.01.006. Epub 2018 Jun 8. Erratum in: Pathology. 2018 Oct;50(6):698.


A Unique Case of Metastatic, Functional, Hereditary Paraganglioma Associated With an SDHC Germline Mutation.

Ong RKS, Flores SK, Reddick RL, Dahia PLM, Shawa H.

J Clin Endocrinol Metab. 2018 Aug 1;103(8):2802-2806. doi: 10.1210/jc.2017-01302.


Association of injury pattern and entrapment location inside damaged buildings in the 2016 Taiwan earthquake.

Pan ST, Cheng YY, Wu CL, Chang RH, Chiu C, Foo NP, Chen PT, Wang TY, Chen LH, Chen CJ, Ong R, Tsai CC, Hsu CC, Hsieh LW, Chi CH, Lin CH.

J Formos Med Assoc. 2019 Jan;118(1 Pt 2):311-323. doi: 10.1016/j.jfma.2018.05.012. Epub 2018 May 30.


Variants in ACTG2 underlie a substantial number of Australasian patients with primary chronic intestinal pseudo-obstruction.

Ravenscroft G, Pannell S, O'Grady G, Ong R, Ee HC, Faiz F, Marns L, Goel H, Kumarasinghe P, Sollis E, Sivadorai P, Wilson M, Magoffin A, Nightingale S, Freckmann ML, Kirk EP, Sachdev R, Lemberg DA, Delatycki MB, Kamm MA, Basnayake C, Lamont PJ, Amor DJ, Jones K, Schilperoort J, Davis MR, Laing NG.

Neurogastroenterol Motil. 2018 Sep;30(9):e13371. doi: 10.1111/nmo.13371. Epub 2018 May 21.


Comparative whole-genome sequence analysis of Mycobacterium tuberculosis isolated from tuberculous meningitis and pulmonary tuberculosis patients.

Faksri K, Xia E, Ong RT, Tan JH, Nonghanphithak D, Makhao N, Thamnongdee N, Thanormchat A, Phurattanakornkul A, Rattanarangsee S, Ratanajaraya C, Suriyaphol P, Prammananan T, Teo YY, Chaiprasert A.

Sci Rep. 2018 Mar 20;8(1):4910. doi: 10.1038/s41598-018-23337-y.


Genetic relatedness of indigenous ethnic groups in northern Borneo to neighboring populations from Southeast Asia, as inferred from genome-wide SNP data.

Yew CW, Hoque MZ, Pugh-Kitingan J, Minsong A, Voo CLY, Ransangan J, Lau STY, Wang X, Saw WY, Ong RT, Teo YY, Xu S, Hoh BP, Phipps ME, Kumar SV.

Ann Hum Genet. 2018 Jul;82(4):216-226. doi: 10.1111/ahg.12246. Epub 2018 Mar 9.


Mutations in ATP1A1 Cause Dominant Charcot-Marie-Tooth Type 2.

Lassuthova P, Rebelo AP, Ravenscroft G, Lamont PJ, Davis MR, Manganelli F, Feely SM, Bacon C, Brožková DŠ, Haberlova J, Mazanec R, Tao F, Saghira C, Abreu L, Courel S, Powell E, Buglo E, Bis DM, Baxter MF, Ong RW, Marns L, Lee YC, Bai Y, Isom DG, Barro-Soria R, Chung KW, Scherer SS, Larsson HP, Laing NG, Choi BO, Seeman P, Shy ME, Santoro L, Zuchner S.

Am J Hum Genet. 2018 Mar 1;102(3):505-514. doi: 10.1016/j.ajhg.2018.01.023.


Genomic structure of the native inhabitants of Peninsular Malaysia and North Borneo suggests complex human population history in Southeast Asia.

Yew CW, Lu D, Deng L, Wong LP, Ong RT, Lu Y, Wang X, Yunus Y, Aghakhanian F, Mokhtar SS, Hoque MZ, Voo CL, Abdul Rahman T, Bhak J, Phipps ME, Xu S, Teo YY, Kumar SV, Hoh BP.

Hum Genet. 2018 Feb;137(2):161-173. doi: 10.1007/s00439-018-1869-0. Epub 2018 Jan 30.


Antibody-mediated enhancement aggravates chikungunya virus infection and disease severity.

Lum FM, Couderc T, Chia BS, Ong RY, Her Z, Chow A, Leo YS, Kam YW, Rénia L, Lecuit M, Ng LFP.

Sci Rep. 2018 Jan 30;8(1):1860. doi: 10.1038/s41598-018-20305-4.


Author Correction: Long-term carbon sink in Borneo's forests halted by drought and vulnerable to edges.

Qie L, Lewis SL, Sullivan MJP, Lopez-Gonzalez G, Pickavance GC, Sunderland T, Ashton P, Hubau W, Abu Salim K, Aiba SI, Banin LF, Berry N, Brearley FQ, Burslem DFRP, Dančák M, Davies SJ, Fredriksson G, Hamer KC, Hédl R, Kho LK, Kitayama K, Krisnawati H, Lhota S, Malhi Y, Maycock C, Metali F, Mirmanto E, Nagy L, Nilus R, Ong R, Pendry CA, Poulsen AD, Primack RB, Rutishauser E, Samsoedin I, Saragih B, Sist P, Ferry Slik JW, Sukri RS, Svátek M, Tan S, Tjoa A, van Nieuwstadt M, Vernimmen RRE, Yassir I, Kidd PS, Fitriadi M, Ideris NKH, Serudin RM, Abdullah Lim LS, Saparudin MS, Phillips OL.

Nat Commun. 2018 Jan 19;9(1):342. doi: 10.1038/s41467-018-02920-x.


Long-term carbon sink in Borneo's forests halted by drought and vulnerable to edge effects.

Qie L, Lewis SL, Sullivan MJP, Lopez-Gonzalez G, Pickavance GC, Sunderland T, Ashton P, Hubau W, Abu Salim K, Aiba SI, Banin LF, Berry N, Brearley FQ, Burslem DFRP, Dančák M, Davies SJ, Fredriksson G, Hamer KC, Hédl R, Kho LK, Kitayama K, Krisnawati H, Lhota S, Malhi Y, Maycock C, Metali F, Mirmanto E, Nagy L, Nilus R, Ong R, Pendry CA, Poulsen AD, Primack RB, Rutishauser E, Samsoedin I, Saragih B, Sist P, Slik JWF, Sukri RS, Svátek M, Tan S, Tjoa A, van Nieuwstadt M, Vernimmen RRE, Yassir I, Kidd PS, Fitriadi M, Ideris NKH, Serudin RM, Abdullah Lim LS, Saparudin MS, Phillips OL.

Nat Commun. 2017 Dec 19;8(1):1966. doi: 10.1038/s41467-017-01997-0. Erratum in: Nat Commun. 2018 Jan 19;9(1):342.


The SOF Truths for Army Special Operations Forces Surgical Teams.

Baker JB, Modlin RE, Ong RC, Remick KN.

J Spec Oper Med. Winter 2017;17(4):52-55.


Investigation of a cluster of multi-drug resistant tuberculosis in a high-rise apartment block in Singapore.

Ho ZJM, Chee CBE, Ong RT, Sng LH, Peh WLJ, Cook AR, Hsu LY, Wang YT, Koh HF, Lee VJM.

Int J Infect Dis. 2018 Feb;67:46-51. doi: 10.1016/j.ijid.2017.12.010. Epub 2017 Dec 15.


Simultaneous Glucagon and Vasoactive Intestinal Peptide Producing Pancreatic Neuroendocrine Tumors in a Patient With Multiple Endocrine Neoplasia Type 1: A Case Report and Literature Review.

Kim GY, Kim S, Ong RKS, Shawa H.

Pancreas. 2018 Jan;47(1):e1-e2. doi: 10.1097/MPA.0000000000000969. Review. No abstract available.


The effect of allometric scaling in coral thermal microenvironments.

Ong RH, King AJC, Kaandorp JA, Mullins BJ, Caley MJ.

PLoS One. 2017 Oct 12;12(10):e0184214. doi: 10.1371/journal.pone.0184214. eCollection 2017.


Psychiatric comorbidities and use of psychotropic medications in people with autism spectrum disorder in the United States.

Houghton R, Ong RC, Bolognani F.

Autism Res. 2017 Dec;10(12):2037-2047. doi: 10.1002/aur.1848. Epub 2017 Sep 30.


Resistance of tropical seedlings to drought is mediated by neighbourhood diversity.

O'Brien MJ, Reynolds G, Ong R, Hector A.

Nat Ecol Evol. 2017 Nov;1(11):1643-1648. doi: 10.1038/s41559-017-0326-0. Epub 2017 Sep 25.


Confronting online social aggression in Hong Kong: A wake-up call.

Ong R.

Int J Law Psychiatry. 2017 Sep - Oct;54:1-15. doi: 10.1016/j.ijlp.2017.07.001. Epub 2017 Aug 6. Review.


Establishing multiple omics baselines for three Southeast Asian populations in the Singapore Integrative Omics Study.

Saw WY, Tantoso E, Begum H, Zhou L, Zou R, He C, Chan SL, Tan LW, Wong LP, Xu W, Moong DKN, Lim Y, Li B, Pillai NE, Peterson TA, Bielawny T, Meikle PJ, Mundra PA, Lim WY, Luo M, Chia KS, Ong RT, Brunham LR, Khor CC, Too HP, Soong R, Wenk MR, Little P, Teo YY.

Nat Commun. 2017 Sep 21;8(1):653. doi: 10.1038/s41467-017-00413-x.


Water sorption in pretreated grasses as a predictor of enzymatic hydrolysis yields.

Williams DL, Crowe JD, Ong RG, Hodge DB.

Bioresour Technol. 2017 Dec;245(Pt A):242-249. doi: 10.1016/j.biortech.2017.08.200. Epub 2017 Sep 1.


Social isolation, loneliness and their relationships with depressive symptoms: A population-based study.

Ge L, Yap CW, Ong R, Heng BH.

PLoS One. 2017 Aug 23;12(8):e0182145. doi: 10.1371/journal.pone.0182145. eCollection 2017.


Identification of developmental stage and anatomical fraction contributions to cell wall recalcitrance in switchgrass.

Crowe JD, Feringa N, Pattathil S, Merritt B, Foster C, Dines D, Ong RG, Hodge DB.

Biotechnol Biofuels. 2017 Jul 15;10:184. doi: 10.1186/s13068-017-0870-5. eCollection 2017.


Impact of a Carbapenem Antimicrobial Stewardship Program on Patient Outcomes.

Seah VXF, Ong RYL, Lim ASY, Chong CY, Tan NWH, Thoon KC.

Antimicrob Agents Chemother. 2017 Aug 24;61(9). pii: e00736-17. doi: 10.1128/AAC.00736-17. Print 2017 Sep.


Delineation of an immunosuppressive gradient in hepatocellular carcinoma using high-dimensional proteomic and transcriptomic analyses.

Chew V, Lai L, Pan L, Lim CJ, Li J, Ong R, Chua C, Leong JY, Lim KH, Toh HC, Lee SY, Chan CY, Goh BKP, Chung A, Chow PKH, Albani S.

Proc Natl Acad Sci U S A. 2017 Jul 18;114(29):E5900-E5909. doi: 10.1073/pnas.1706559114. Epub 2017 Jul 3.


Clinical and Molecular Epidemiology of Carbapenem-Resistant Enterobacteriaceae Among Adult Inpatients in Singapore.

Marimuthu K, Venkatachalam I, Khong WX, Koh TH, Cherng BPZ, Van La M, De PP, Krishnan PU, Tan TY, Choon RFK, Pada SK, Lam CW, Ooi ST, Deepak RN, Smitasin N, Tan EL, Lee JJ, Kurup A, Young B, Sim NTW, Thoon KC, Fisher D, Ling ML, Peng BAS, Teo YY, Hsu LY, Lin RTP, Ong RT, Teo J, Ng OT; Carbapenemase-Producing Enterobacteriaceae in Singapore (CaPES) Study Group.

Clin Infect Dis. 2017 May 15;64(suppl_2):S68-S75. doi: 10.1093/cid/cix113.


Phylogeography of Y-chromosome haplogroup O3a2b2-N6 reveals patrilineal traces of Austronesian populations on the eastern coastal regions of Asia.

Wei LH, Yan S, Teo YY, Huang YZ, Wang LX, Yu G, Saw WY, Ong RT, Lu Y, Zhang C, Xu SH, Jin L, Li H.

PLoS One. 2017 Apr 5;12(4):e0175080. doi: 10.1371/journal.pone.0175080. eCollection 2017.


Intra-annual plasticity of growth mediates drought resilience over multiple years in tropical seedling communities.

O'Brien MJ, Ong R, Reynolds G.

Glob Chang Biol. 2017 Oct;23(10):4235-4244. doi: 10.1111/gcb.13658. Epub 2017 Mar 6.


Characterising private and shared signatures of positive selection in 37 Asian populations.

Liu X, Lu D, Saw WY, Shaw PJ, Wangkumhang P, Ngamphiw C, Fucharoen S, Lert-Itthiporn W, Chin-Inmanu K, Chau TN, Anders K, Kasturiratne A, de Silva HJ, Katsuya T, Kimura R, Nabika T, Ohkubo T, Tabara Y, Takeuchi F, Yamamoto K, Yokota M, Mamatyusupu D, Yang W, Chung YJ, Jin L, Hoh BP, Wickremasinghe AR, Ong RH, Khor CC, Dunstan SJ, Simmons C, Tongsima S, Suriyaphol P, Kato N, Xu S, Teo YY.

Eur J Hum Genet. 2017 Apr;25(4):499-508. doi: 10.1038/ejhg.2016.181. Epub 2017 Jan 18.


The value of biodiversity for the functioning of tropical forests: insurance effects during the first decade of the Sabah biodiversity experiment.

Tuck SL, O'Brien MJ, Philipson CD, Saner P, Tanadini M, Dzulkifli D, Godfray HC, Godoong E, Nilus R, Ong RC, Schmid B, Sinun W, Snaddon JL, Snoep M, Tangki H, Tay J, Ulok P, Wai YS, Weilenmann M, Reynolds G, Hector A.

Proc Biol Sci. 2016 Dec 14;283(1844). pii: 20161451.


Inhibition of microbial biofuel production in drought-stressed switchgrass hydrolysate.

Ong RG, Higbee A, Bottoms S, Dickinson Q, Xie D, Smith SA, Serate J, Pohlmann E, Jones AD, Coon JJ, Sato TK, Sanford GR, Eilert D, Oates LG, Piotrowski JS, Bates DM, Cavalier D, Zhang Y.

Biotechnol Biofuels. 2016 Nov 8;9:237. eCollection 2016.

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