Dr Douglas Pires

  • Room: Level: 03 Room: 3.26
  • Building: Doug McDonell Building
  • Campus: Parkville

Research interests

  • Bioinformatics and Computational Biology
  • Machine Learning

Biography

Douglas Pires is a Senior Lecturer in Digital Health in the School of Computing and Information Systems at the University of Melbourne. Previously, he was a group leader and researcher in public health at Oswaldo Cruz Foundation/Brazil. He was also a postdoctoral researcher fellow at the University of Cambridge and University of Melbourne. He received a PhD in Bioinformatics from the Universidade Federal de Minas Gerais/Brazil and a BSc in Computer Science, both with highest honours, by the same university. His research interests include: Computational Biology, Translational Bioinformtaics and Machine Learning.

Recent publications

  1. Pires, DEV.; Rodrigues, CHM.; Albanaz, ATS.; Karmakar, M.; Myung, Y.; Xavier, J.; Michanetzi, E-M.; Portelli, S.; Ascher, DB. Exploring Protein Supersecondary Structure Through Changes in Protein Folding, Stability, and Flexibility.. . Springer New York. 2019, Vol. 1958, pp. 173-185. DOI: 10.1007/978-1-4939-9161-7_9
  2. Ascher, DB.; Spiga, O.; Sekelska, M.; Pires, DEV.; Bernini, A.; Tiezzi, M.; Kralovicova, J.; Borovska, I.; Soltysova, A.; Olsson, B.; Galderisi, S.; Cicaloni, V.; Ranganath, L.; Santucci, A.; Zatkova, A. Homogentisate 1,2-dioxygenase (HGD) gene variants, their analysis and genotype-phenotype correlations in the largest cohort of patients with AKU. European Journal of Human Genetics. NATURE PUBLISHING GROUP. 2019, Vol. 27, Issue 6, pp. 888-902. DOI: 10.1038/s41431-019-0354-0
  3. Jatana, N.; Ascher, DB.; Pires, DE.; Gokhale, RS.; Thukral, L. Human LC3 and GABARAP subfamily members achieve functional specificity via specific structural modulations. Autophagy. TAYLOR & FRANCIS INC. 2019. DOI: 10.1080/15548627.2019.1606636
  4. Rodrigues, CHM.; Myung, Y.; Pires, DEV.; Ascher, DB. mCSM-PPI2: predicting the effects of mutations on protein-protein interactions. Nucleic Acids Research. OXFORD UNIV PRESS. 2019, Vol. 47, Issue W1, pp. W338-W344. DOI: 10.1093/nar/gkz383
  5. Fernández-prada, C.; Douanne, N.; Minguez-menendez, A.; Pena, J.; Tunes, LG.; Pires, DEV.; Monte-neto, RL. Repurposed Molecules: A New Hope in Tackling Neglected Infectious Diseases. . Elsevier. 2019, pp. 119-160.
  6. Rodrigues, CHM.; Pires, DE.; Ascher, DB. DynaMut: predicting the impact of mutations on protein conformation, flexibility and stability. Nucleic Acids Research. OXFORD UNIV PRESS. 2018, Vol. 46, Issue W1, pp. W350-W355. DOI: 10.1093/nar/gky300
  7. Rodrigues, CHM.; Ascher, DB.; Pires, DE. Kinact: a computational approach for predicting activating missense mutations in protein kinases. Nucleic Acids Research. OXFORD UNIV PRESS. 2018, Vol. 46, Issue W1, pp. W127-W132. DOI: 10.1093/nar/gky375
  8. Pires, DEV.; Kaminskas, LM.; Ascher, DB. Prediction and Optimization of Pharmacokinetic and Toxicity Properties of the Ligand.. Methods in molecular biology (Clifton, N.J.). Springer New York. 2018, Vol. 1762, pp. 271-284. DOI: 10.1007/978-1-4939-7756-7_14
  9. Abayakoon, P.; Jin, Y.; Lingford, JP.; Petricevic, M.; John, A.; Ryan, E.; Mui, JW-Y.; Pires, DE.; Ascher, DB.; Davies, GJ.; Goddard-borger, ED.; Williams, SJ. Structural and Biochemical Insights into the Function and Evolution of Sulfoquinovosidases. ACS Central Science. AMER CHEMICAL SOC. 2018, Vol. 4, Issue 9, pp. 1266-1273. DOI: 10.1021/acscentsci.8b00453
  10. Andrews, KA.; Ascher, DB.; Pires, DEV.; Barnes, DR.; Vialard, L.; Casey, RT.; Bradshaw, N.; Adlard, J.; Aylwin, S.; Brennan, P.; Brewer, C.; Cole, T.; Cook, JA.; Davidson, R.; Donaldson, A.; Fryer, A.; Greenhalgh, L.; Hodgson, SV.; Irving, R.; Lalloo, F.; Mcconachie, M.; Mcconnell, VPM.; Morrison, PJ.; Murday, V.; Park, S-M.; Simpson, HL.; Snape, K.; Stewart, S.; Tomkins, SE.; Wallis, Y.; Izatt, L.; Goudie, D.; Lindsay, RS.; Perry, CG.; Woodward, ER.; Antoniou, AC.; Maher, ER. Tumour risks and genotype-phenotype correlations associated with germline variants in succinate dehydrogenase subunit genes SDHB, SDHC and SDHD. Journal of Medical Genetics. BMJ PUBLISHING GROUP. 2018, Vol. 55, Issue 6, pp. 384-394. DOI: 10.1136/jmedgenet-2017-105127
  11. Trezza, A.; Bernini, A.; Langella, A.; Ascher, DB.; Pires, DEV.; Sodi, A.; Passerini, I.; Pelo, E.; Rizzo, S.; Niccolai, N.; Spiga, O. A Computational Approach From Gene to Structure Analysis of the Human ABCA4 Transporter Involved in Genetic Retinal Diseases. Investigative Opthalmology & Visual Science. ASSOC RESEARCH VISION OPHTHALMOLOGY INC. 2017, Vol. 58, Issue 12, pp. 5320-5328. DOI: 10.1167/iovs.17-22158
  12. Albanaz, ATS.; Rodrigues, CHM.; Pires, DEV.; Ascher, DB. Combating mutations in genetic disease and drug resistance: understanding molecular mechanisms to guide drug design. Expert Opinion on Drug Discovery. TAYLOR & FRANCIS LTD. 2017, Vol. 12, Issue 6, pp. 553-563. DOI: 10.1080/17460441.2017.1322579
  13. Soardi, FC.; Machado-silva, A.; Linhares, ND.; Zheng, G.; Qu, Q.; Pena, HB.; Martins, TMM.; Vieira, HGS.; Pereira, NB.; Melo-minardi, RC.; Gomes, CC.; Gomez, RS.; Gomes, DA.; Pires, DEV.; Ascher, DB.; Yu, H.; Pena, SDJ. Familial STAG2 germline mutation defines a new human cohesinopathy. npj Genomic Medicine. NATURE PUBLISHING GROUP. 2017, Vol. 2, Issue 1. DOI: 10.1038/s41525-017-0009-4
  14. Moraes, JPA.; Pappa, GL.; Pires, DEV.; Izidoro, SC. GASS-WEB: a web server for identifying enzyme active sites based on genetic algorithms. Nucleic Acids Research. OXFORD UNIV PRESS. 2017, Vol. 45, Issue W1, pp. W315-W319. DOI: 10.1093/nar/gkx337
  15. Pires, DEV.; Ascher, DB. mCSM-NA: predicting the effects of mutations on protein-nucleic acids interactions. Nucleic Acids Research. OXFORD UNIV PRESS. 2017, Vol. 45, Issue W1, pp. W241-W246. DOI: 10.1093/nar/gkx236
  16. Casey, RT.; Ascher, DB.; Rattenberry, E.; Izatt, L.; Andrews, KA.; Simpson, HL.; Challis, B.; Park, S-M.; Bulusu, VR.; Lalloo, F.; Pires, DEV.; West, H.; Clark, GR.; Smith, PS.; Whitworth, J.; Papathomas, TG.; Taniere, P.; Savisaar, R.; Hurst, LD.; Woodward, ER.; Maher, ER. SDHA related tumorigenesis: a new case series and literature review for variant interpretation and pathogenicity. Molecular Genetics & Genomic Medicine. WILEY. 2017, Vol. 5, Issue 3, pp. 237-250. DOI: 10.1002/mgg3.279
  17. Pires, DEV.; Ascher, DB. CSM-lig: a web server for assessing and comparing protein-small molecule affinities. Nucleic Acids Research. OXFORD UNIV PRESS. 2016, Vol. 44, Issue W1, pp. W557-W561. DOI: 10.1093/nar/gkw390
  18. Coelho, MB.; Ascher, DB.; Gooding, C.; Lang, E.; Maude, H.; Turner, D.; Llorian, M.; Pires, DEV.; Attig, J.; Smith, CWJ. Functional interactions between polypyrimidine tract binding protein and PRI peptide ligand containing proteins. Biochemical Society Transactions. PORTLAND PRESS LTD. 2016, Vol. 44, Issue 4, pp. 1058-1065. DOI: 10.1042/BST20160080
  19. Pires, DEV.; Chen, J.; Blundell, TL.; Ascher, DB. In silico functional dissection of saturation mutagenesis: Interpreting the relationship between phenotypes and changes in protein stability, interactions and activity. Scientific Reports. NATURE PUBLISHING GROUP. 2016, Vol. 6, Issue 1. DOI: 10.1038/srep19848
  20. Pires, DEV.; Ascher, DB. mCSM-AB: a web server for predicting antibody-antigen affinity changes upon mutation with graph-based signatures. Nucleic Acids Research. OXFORD UNIV PRESS. 2016, Vol. 44, Issue W1, pp. W469-W473. DOI: 10.1093/nar/gkw458

View a full list of publications on the University of Melbourne’s ‘Find An Expert’ profile