Dr Neil Bretana

Excludes commercial-in-confidence projects.

Other projects

Reports

1. Kirby Institute. (2017) HIV, viral hepatitis and sexually transmissibleinfections in Australia: annual surveillance report 2017. Sydney: KirbyInstitute, UNSW Sydney.

Theses

1. Bretaña NA. (2017). “Understanding the dynamics of hepatitis C virustransmission in a high-risk environment.” School of Medical Sciences,UNSW Sydney.

2. Bretaña NA. (2011). “Identifying protein phosphorylation sites with potentialkinases on human viruses.” Yuan Ze University, Taiwan.

3. Amurao MF, Bretaña NA, Cestina GO, Faire ME. (2008). “MISA: Massivelymultiplayer online game with Integrated Short Message Service Access.”De La Salle University - Manila.

Research outputs for the last seven years are shown below. Some long-standing staff members may have older outputs included. To see earlier years visit ORCID or Scopus

Open access indicates that an output is open access.

Journal Articles

Conferences

Other outputs

PUBLICATIONS

1. Kwon JA, Bretaña NA, Grant L, Galouzis J, Hoey W, Blogg J, Lloyd AR,Gray R. (2021). “The COVID-19 Incarceration Model: a tool for correctionsstaff to analyze outbreaks of COVID-19”. medRxiv (preprint)2021.02.18.21252032

2. Bretaña NA, Robati M, Rawat A, Pandey A, Khatri S, Kaushal K, Nair S,Cheang G, Abadia R. (2020). “Predicting Student Success for ProgrammingCourses in a Fully Online Learning Environment”. 28th InternationalConference on Computers in Education. Conference Proceedings.

3. Bretaña NA, Gray RR, Cunningham EB, Betz-Stablein B, Ribeiro R, GrawF, Luciani F, Lloyd AR. (2019). “Combined treatment and preventionstrategies for hepatitis C virus elimination in the prisons in New SouthWales: a modelling study”. Addiction

4. Gunaratnam P, Heywood AE, McGregor S, Jamil MS, McManus H, Mao L,Lobo R, Brown G, Hellard M, Marukutira T, Bretaña NA, Lang C, MedlandN, Bavinton B, Grulich A, Guy R. (2019). “HIV diagnoses in migrantpopulations in Australia – A changing epidemiology”. PLoS ONE 14(2):e0212268

5. Bretaña NA, Gray R, Law M, Guy R. (2018). “Aging of the HIV Populationin Australia: A modeling study.” Journal of Acquired Immune DeficiencySyndrome 79(5):e115-e116

6. Cunningham EB, Hajarizadeh B, Amin J, Bretaña NA, Dore GJ, DegenhardtL, Larney S, Luiciani F, Lloyd AR, Grebely J, HITS-p investigators. (2018).“Longitudinal injecting risk behaviours among people with a history ofinjecting drug use in an Australian prison setting: The HITS-p study.”International Journal of Drug Policy 54:18-25.

7. Cunningham EB, Amin J, Bretaña NA, Luiciani F, Degenhardt L, Larney S,Hajarizadeh B, LDore GJ, Lloyd AR, Grebely J, HITS-p investigators.(2017). “Injecting risk behaviours among people who inject drugs in anAustralian prison setting 2005-2014: The HITS-p study.” Journal of VirusEradication S2055-6640(20)30751-2.

8. Cunningham EB, Hajarizadeh B, Bretaña NA, Amin J, Betz-Stablein B, DoreGJ, Luciani F, Teutsch S, Dolan K, Lloyd AR, Grebely J, HITS-pinvestigators. (2017). “Ongoing incident hepatitis C virus infection amongpeople with a history of injecting drug use in an Australian prison setting,2005-2014: The HITS-p study.” Journal of viral hepatitis 24(9):733-741.

9. Bretaña NA, Boelen L, Bull R, Teutsch S, White PA, Lloyd AR, Luciani F,HITS-p investigators. (2015). “Transmission of hepatitis C virus amongprisoners, Australia, 2005-2012.” Emerging infectious diseases 21(5):765.

10. Kao HJ, Huang CH, Bretaña NA, Lu CT, Huang KY, Weng SL, Lee TY.(2015). “A two-layered machine learning method to identify protein OGlcNAcylationsites with O-GlcNAc transferase substrate motifs.” BMCBioinformatics 16(18):S10.

11. Luciani F, Bretaña NA, Teutsch S, Amin J, Topp L, Dore GJ, Maher L, DolanK, Lloyd AR, HITS-p investigators. (2014). “A prospective study of hepatitisC incidence in Australian prisoners.” Addiction 109(10):1695-1706.

12. Nguyen VN, Huang KY, Huang CH, Chang TH, Bretaña NA, Lai KR, WengJYT, Lee TY. (2015). “Characterization and identification of ubiquitinconjugation sites with E3 ligase recognition specificities.” BMCBioinformatics 16(1), S1

13. Huang KY, Lu CT, Bretaña NA, Lee TY, Chang TH. (2013). “ViralPhos:Incorporating a recursively statistical method to predict phosphorylationsites on virus proteins”. BMC Bioinformatics 14(SUPPL16), S10

14. Lu CT, Huang KY, Su MG, Lee TY, Bretaña NA, Chang WC, Chen YJ,Huang HD. (2013). “DbPTM 3.0: an informative resource for investigatingsubstrate site specificity and functional association of protein posttranslationalmodifications.” Nucleic acids research 41(D1):D295-D305.

15. Bretaña NA, Lu CT, Chiang CY, Su MG, Huang KY, Lee TY, Weng SL.(2012). “Identifying protein phosphorylation sites with kinase substratespecificity on human viruses.” PLoS One 7(7):e40694.

16. Hsu JB, Bretaña NA, Lee TY, Huang HD. (2011). “Incorporatingevolutionary information and functional domains for identifying RNA splicingfactors in humans.” PLoS One 6(11):e27567.

17. Lu CT, Chen SA, Bretaña NA, Cheng TH, Lee TY. (2011). “Carboxylator:incorporating solvent-accessible surface area for identifying proteincarboxylation sites.” Journal of computer-aided molecular design.25(10):987-995.

18. Lee TY, Lu CT, Chen SA, Bretaña NA, Cheng TH, Su MG, Huang KY.(2011). “Investigation an identification of protein γ-glutamyl carboxylationsites.” BMC Bioinformatics, BioMed Central.

19. Lee TY, Bretaña NA, Lu CT. (2011). “PlantPhos: using maximaldependence decomposition to identify plant phosphorylation sites withsubstrate site specificity.” BMC Bioinformatics 12(1):261.

20. Lee TY, Lin ZQ, Hsieh SJ, Bretaña NA, Lu CT. (2011). “Exploiting maximaldependence decomposition to identify conserved motifs from a group ofaligned signal sequences.” Bioinformatics 27(13):1780-1787.