Raymond Ng

Curriculum vitae

Professor, Computer Science, UBC
Canada Research Chair in Data Science and Analytics
Scientific Director, Data Science Institute, UBC
Chief Informatics Officer, Prevention of Organ Failure (PROOF) Centre

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Positions
Position Institution Faculty/Department Term
Assistant Professor University of British Columbia Computer Science 1992-1997
Associate Professor University of British Columbia Computer Science 1997-2002
Professor University of British Columbia Computer Science 2002-Present
Chief Informatics Officer PROOF Centre of Excellence for the Prevention of Organ Failures   2008-Present
Director Data Science Institute, University of British Columbia Faculty of Science 2016-Present


 

Education/Training
Institution & Location Degree Completion Date Field of Study
University of British Columbia, Vancouver B.Sc 1982-1986 Computer Science
University of Waterloo M.Math 1986-1988 Computer Science
University of Maryland, College Park Ph.D 1988-1992 Computer Science


 

Honours
Award Year Association
Governor General’s Gold Medal 1986 University of British Columbia
Postgraduate Scholarship 1986-1988 Natural Science & Engineering Research Council of Canada (NSERC)
Best Paper Award 2001 ACM SIGKDD Conference
Best Paper Award 2004 ACM SIGKDD Conference


 

Publications
Health Informatics and Bioinformatics
  1. Shu Yang; Junwen Wang; Raymond T. Ng. "Inferring RNA sequence preferences for poorly studied RNA-binding proteins based on coevolution" BMC Bioinformatics Journal March 2018: 12859-018-2091-8.
  2. Alotaibi, N., Chen, V., Ng, R., Sin, D. et al. "Phenotyping COPD Exacerbations Using Imaging and Blood-based Biomarkers" International Journal of Chronic Obstructive Pulmonary Disease 2018(13): 217-229.
  3. Khakhan, A., Sin, D., Ng, R. et al. The projected epidemic of COPD hospitalizations over thenext 15 years: a population based perspective. American Journal of Respiratory and Critical Care Medicine Feb 2017, 195(3).
  4. Dewi, S., Hollander, Z., Ng, R. et al. "Association of Serum MiR-142-3p and MiR-101-3p Levelswith Acute Cellular Rejection After Heart Transplantation" PLOS ONE January 2017: doi.org/10.1371/.
  5. Chen, R., Chen, V., Ng, R. et al. "C-reactive protein and N-terminal prohormone brain natriureticpeptide as biomarkers in acute exacerbations of COPD leading to hospitalizations" PLOS ONE March 2017: doi.org/10.1371.
  6. Obeidat, M., Ng, R., Sin, D. et al. "Network-BasedAnalysis Reveals Novel Gene Signatures in Peripheral Blood of Patients with Chronic Obstructive Pulmonary Disease" Respiratory Research 2017: doi 10.1186/s12931-0.
  7. Roberts, J., Ng, R, Quon, B. et al. "Multiple Reaction Monitoring Mass Spectrometry to Identify Novel Plasma Protein Biomarkers of Treatment Response in Cystic Fibrosis Pulmonary Exacerbations" Journal of Cystic Fibrosis 2017: 10.1016/j.jcf.2017.
  8. Cohen-Freue, G., Takhar, M., Ng, R. et al. "An Algorithm to Link Protein Groups Created from MS/MS Data" PLOS ONE 2017, 12(5): 1371-1380.
  9. Toma, M., Mak, G., Ng, R. et al. "Differentiating heart failure phenotypes using sex- specifictranscriptomic and proteomic biomarker panels" European Heart Failures Journal March 2017: DOI: 10.1002/ehf2.12.
  10. Shannon, C., Balshaw, R., Ng, R., et al. "Enumerateblood an R package to estimate the cellularcomposition of whole blood from Affymetrix Gene ST gene expression profiles," BMC Genomics January, 2017: DOI: 10.1186/s12864.
  11. Obeidat, M., Ng, R., Sin, D. et al. "Integrative Genomics of Emphysema Associated Genes RevealsPotential Disease Biomarkers" American Journal of Respiratory cell and molecular biology 2017, 57(4): 411-418.
  12. Dewi, I., Ng, R, Smith, G. et al. "Immunologic serum protein profiles for non-invasive detection of acute cellular rejection after heart transplantation" Journal of the American College of Cardiology 2017, 70(23): 2946-2947.
  13. Obeidat, M., Ng, R., Sin, D. et al. "The effect of different case definitions of current smoking on the discovery of smoking-related blood gene expression signatures in COPD" Nicotine and Tobacco Research September 2016, 18(9):1903-9. doi: 10.1093/ntr/ntw129.
  14. Sin, D., Ng, R. et al. “Biomarker Development in COPD: Moving From P-Values To Products To Impact Patient Care" CHEST, accepted in September 2016. doi:10.1016/j.chest.2016.09.012. 
  15. Shannon, C., Ng, R., et al. “SABRE: A method for assessing the stability of gene modules in complex tissues and subject populations,” BMC Bioinformatics, accepted September 2016.
  16. Khakban, A., Ng, R., Sin, R. et al. “The Projected Epidemic of COPD Hospitalizations Over the Next 15 Years: A Population Based Perspective,” American Journal of Respiratory And Critical Care Medicine, accepted August 2016. doi: 10.1164/rccm.201606-1162PP.
  17. Obeidat, M., Ng, R., Sin, D. et al. “The effect of different case definitions of current smoking on the discovery of smoking-related blood gene expression signatures in COPD”, Nicotine and Tobacco Research, 2016 Sep;18(9):1903-9. doi: 10.1093/ntr/ntw129.
  18. Zafari, Z., Ng, R., Sadatsafavi, M. et al. “Individualized prediction of lung-function decline in COPD”, Canadian Medical Association Journal, August 2016. doi: 10.1503/cmaj.151483.
  19. Leung, J., Ng, R., Sin, D. et al. “COPD exacerbation biomarkers validated using multiple reaction monitoring mass spectrometry,” PLOS ONE, 2016 Aug 15;11(8):e0161129. doi: 10.1371/journal.pone.0161129.
  20. Meredith, A., Ng, R. et al. “Circulating Biomarker Responses to Medical Management Versus Mechanical Circulatory Support in Severe Inotrope-dependent Acute Heart Failure,” European Journal of Heart Failure, June 2016. doi: 10.1002/ehf2.12076.
  21. Tkacova, R., Dai, D., Ng, R. et al. “Airway Hyperresponsiveness in COPD: A Marker of Asthma-COPD Overlap Syndrome?” Journal of Allergy and Clinical Immunology, May 2016. pii: S0091-6749(16)30351-7. doi: 10.1016/j.jaci.2016.04.022.
  22. Sin, D., Ng, R., et al. “Biomarker Development for Chronic Obstructive Pulmonary Disease, from Discovery to Clinical Implementation”, American Journal of Respiratory and Critical Care Medicine, 192, 10, November 2015, pp. 1162-1170. doi: 10.1164/rccm.201505-0871PP.
  23. Obeidat, M., Ng, R. et al. “The Effect of Statins on Blood Gene Expression in COPD” PLOS ONE, October 2015. doi:10.1371/journal.pone.0140022.
  24. Khakban, A., Ng, R. et al. “10-Year Trends in Direct Costs of COPD: A Population Based Study,” CHEST, 148, 3, September 2015:640-6. doi: 10.1378/chest.15-0721.
  25. Quon, B., Ng, R. et al. “Discovery of Novel Plasma Protein Biomarkers to predict imminent Cystic Fibrosis Pulmonary Exacerbations using Multiple Reaction Monitoring Mass Spectrometry,” Journal of Thorax, 71(3), March 2016:216-22. doi: 10.1136/thoraxjnl-2014-206710. 
  26. Gunther, O., Ng, R., Le-Cao, K. et al. “Novel Multivariate Methods for Integration of Genomics  and Proteomics Data: Applications in a Kidney Transplant Rejection Study,” OMICS, 18(11), pp. 682695, November 2014. doi: 10.1089/omi.2014.0062.
  27. Shannon, C., Tebbutt, S., Ng, R. et al. “Two-Stage, In Silico Deconvolution of the Lymphocyte Compartment of the Peripheral Whole Blood Transcriptome in the Context of Acute Kidney Allograft Rejection,” PLOS ONE, April 2014;9(4):e95224. doi: 10.1371/journal.pone.0095224.
  28. Shin, H., Shannon, C., Tebbutt, S., Ng et al. “Variation in RNA-Seq transcriptome profiles of peripheral whole blood from healthy individuals with and without globin depletion,” PLOS ONE, March 2014. doi: 10.1371/journal.pone.009104.
  29. Hollander Z, Lazarova M, McManus, B, Ng, R. et al. “Proteomic Biomarkers of Recovered Heart Function,” European Journal Heart Failure, Feb 2014. doi: 10.1002/ejhf.65.
  30. Shin, H., Gunther, O., Ng,R. et al. “Longitudinal Analysis of Whole Blood Transcriptomes to Explore Molecular Signatures Associated With Acute Renal Allograft Rejection,” Bioinformatics and Biological Insights, January 2014. doi: 10.4137/BBI.S13376.
  31. (+) Lin, D., Cohen-Freue, G., Ng, R. et al. “Plasma protein biosignatures for detection of cardiac allograft vasculopathy,” Journal of Heart and Lung Transplant, July 2013;32(7):723-733. doi: 10.1016/j.healun.2013.04.011.
  32. Scherer, A., Gunther, O., Keown, P., Ng, R. et al. “Alteration of human blood cell transcriptome in uremia,” BMC Medical Genomics, July 2013, 6:23. doi: 10.1186/1755-8794-6-23.
  33. (+) Freue-Cohen, G., Meredith, A., Ng, R. et al. “Computational biomarker pipeline from discovery to clinical implementation: plasma proteomic biomarkers for cardiac transplantation,” PLOS Computational Biology, April 2013. doi: 10.1371/journal.pcbi.1002963.
  34. (+) Hollander, Z., Chen, V., Ng, R. et al. “Predicting Acute Cardiac Rejection from Donor Heart and Pre-Transplant Recipient Blood Gene Expression,” Journal of Heart and Lung Transplantation, 32, 2, pp. 259-265, February 2013. doi: 10.1016/j.healun.2012.11.008
  35. Gunther, O., Chen, V., Ng, R. et al. “A computational pipeline for the development of multi-marker bio-signature panels and ensemble classifiers,” BMC Bioinformatics, 2012, 13:326. doi:10.1186/1471-2105-13-326.
  36. Shannon, C., Ng, R. et al. “White Blood Cell Differentials Enrich Whole Blood Expression Data in the Context of Acute Cardiac Allograft Rejection,” Bioinformatics and Biology Insights, 6, pp. 49-61, 2012. doi: 10.4137/BBI.S9197

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Text Analysis and Summarization
  1. Nejet, B., Carenini, G., Ng, R. "Exploring Joint Neural Model for Sentence Level DiscourseParsing and Sentiment Analysis", Annual SIGdial Meeting on Discourse and Dialogue, 2017.
  2. Johnson, J., Masrani, V., Carenini, G., Ng, R. "Generating and Evaluating Summaries forPartial Email Threads: Conversational Bayesian Surprise and Silver Standards", Annual SIGdial Meeting on Discourse and Dialogue, 2017.
  3. Jiang, K., Carenini, G., Ng, R. "Training Data Enrichment for Infrequent Discourse Relations", International Conference on Computational Linguistics, 2016.
  4. Shima Gerani, Giuseppe Carenini, Raymond Ng. "Modeling Content and Structure for Abstractive Review Summarization" Computer Speech and Language 2016, 10: 1016.
  5. Joty, S., Carenini, G., Ng, R. “CODRA: A Novel Discriminative Framework for Rhetorical Analysis,” Journal of Computational Linguistics, 41, 3, September 2015, pp. 385-435. doi: 10.1162/COLI_a_00226.
  6. (+) Joty, S., Carenini, G., Ng, R., “Topic Segmentation and Labeling in Asynchronous Conversations,” Journal of Artificial Intelligence Research, 47, pp. 521-573, July 2013. doi:10.1613/jair.3940.
  7. Carenini, G., Murray, G., Ng, R. Methods for Mining and Summarizing Text Conversations, (monograph), Morgan Claypool, June 2011.

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Data Mining
  1. Min, J., Ng, R., Shim, K. “Aggregate query processing in the presence of duplicates in wireless sensor networks,” Information Sciences, 297, pp. 1-20, March 2015. doi: 10.1016/j.ins.2014.11.021.
  2. Lee, H., Ng, R, Shim, K. "Similarity Join Size Estimation using Locality Sensitive Hashing", Proceedings of the VLDB Endowment, 4, 6, pp. 338-349, August 2011.

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Ongoing and Recent Research Support
  1. Genome Canada (04/01/2013 – 03/31/2017)

    Clinical Implementation and Outcomes Evaluation of Blood-based Biomarkers for COPD Management
    The goal of the project is to develop blood-based biomarkers to predict the onset of COPD exacerbations.
    Role: co-Project Leader (Ng)

  2. Genome BC (04/01/2012 – 03/31/2014)
    Clinical Implementation of Diagnostic Biomarker Assays in Heart and Kidney Transplantation
    The goal of the project is to develop clinical biomarker assays that can be used to diagnose acute rejection of transplanted heart or kidney.
    Role: co-Project Leader (Keown, McManus, McMaster, Ng)

  3. NSERC (04/01/2014 – 03/31/2019)
    A Data Mining Framework for Genomics Biomarkers and Signature Identification
    The goal of the project is to develop scalable data mining algorithms for biomedical applications. The key challenges is to deal with data sets with a large number of variables, a small number of samples and a high level of noises.
    Role: Sole Investigator (Ng)

  4. NSERC (04/01/2009 – 03/31/2014)
    Business Intelligence Strategic Network
    This network focuses on research promoting business intelligence. The focuses include database integration, text analytics from unstructured documents, and data cleansing.
    Role: Associate Director and Principal Investigator (Miller & Ng)