Faculty Member

Pingzhao Hu PhD,Statistical Genetics and Bioinformatics

Email Address(es)
pingzhao.hu@utoronto.ca
Website(s)
Lab Website: http://www.hu-bioinformaticslab.org
Curriculum Vitae
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Division(s)/Office
Biostatistics Division
Position
Assistant Professor
SGS Status
Associate Member
Appointment Status
Status Only

Research Interests

  • Deep learning and visual analytics
  • Imaging genetics and electronic medical records
  • Genetic epidemiology and statistical genetics
  • Multidimensional omics data integration
  • Machine Learning and big data science

Representative Publications

Methodology

  1. P Hu*, X Wang*, JJ Haitsma, S Furmli, H Masoom, M Liu, AS Slutsky, J Beyene, CM Greenwood, CC dos Santos (2012). Microarray meta-analysis identifies acute lung injury biomarkers in donor lungs that predict development of primary graft failure in recipients. Plos One 7:e45506.
  2. P Hu, S Bull, H Jiang (2012). Gene network modular-based classification of microarray samples. BMC Bioinformatics13 (Suppl 10): S17.
  3. W Wang, W Hu, F Hou, P Hu, Z Wei (2012). SNVerGUI: A desktop tool for variant analysis of next-generation sequencing data. Journal of Medical Genetics 12:753-755.
  4. PC Havugimana*, GT Hart*, T Nepusz*, H Yang*, AL Turinsky, Z Li, PI Wang,, DR Boutz, V Fong , S Phanse, M Babu, SA Craig, P Hu, C Wan, J Vlasblom, V Dar, A Bezginov, GW Clark, GC Wu, SJ Wodak, ERM Tillier, A Paccanaro, EM Marcotte, A Emili (2012). A census of human soluble protein complexes. Cell 150:1068-1081.
  5. Z Wei, W Wang, P Hu, GJ Lyon, H Hakonarson (2011). SNVer: a statistical tool for variant calling in analysis of pooling or individual next-generation sequencing data. Nucleic Acids Research 39:e132.
  6. P Hu, H Jiang, A Emili (2010). Predicting protein functions by relaxation labeling protein interaction network. BMC Bioinformatics 11(Suppl):S64.
  7. P Hu, CMT Greenwood, J Beyene (2009). Using the ratio of means as the effect size measure in combining results of microarray experiments. BMC System Biology 3:106.
  8. P Hu*, SC Janga*, M Babu*, JJ Diaz-Mejia*, G Butland*, W Yang, O Pogoutse, X Guo, S Phanse, P Wong, S Chandran, C Christopoulos, A Nazarians-Armavil, NK Nasseri, G Musso, M Ali, N Nazemof, V Eroukova, A Golshni, A Paccanaro, JF Greenblatt, G Moreno-Hagelseib, A Emili (2009). Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biology 7:e96.
  9. P Hu, G Bader, DA Wigle, A Emili (2007). Computational Prediction of cancer gene function. Nature Reviews Cancer 7:23-34.
  10. T Kislinger*, B Cox*, A Kannan*, C Chung, P Hu, A Ignatchenko, MS Scott, A Gramolini, Q Morris, T Hughes, J Rossant, B Frey, A Emili (2006). Global survey of organ and organelle protein expression in mouse: combined proteomic and transcriptomic profiling. Cell 125:173-186.
  11. P Hu, J Beyene, CMT Greenwood (2006). Testing for differential gene expression in oligonucleotide microarray experiments using weights. BMC Genomics 7:33.
  12. P Hu, CMT Greenwood, J Beyene (2005). Integrative analysis of multiple gene expression profiles with quality-adjusted effect size models. BMC Bioinformatics 6:128.

Application

  1. JD Mills, T Nalpathamkalam, HIL Jacobs, C Janitz, D Merico, P Hu, M Janitz (2013). RNA-Seq analysis of parietal cortex in Alzheimer’s disease reveals alternatively spliced isoforms related to lipid metabolism. Neuroscience Letters 536:90-95.
  2. P Moffatt, M Ben-Amor, FH Glorieux, P Roschger, K Klaushofer, JA Schwartzentruber, AD Paterson, P Hu, C Marshall, FORGE Canada Consortium, S Fahiminiya, J Majewski, CL Beaulieu, KM Boycott, F Rauch (2013). Metaphyseal dysplasia with maxillary hypoplasia and brachydactyly is caused by a duplication in RUNX2. American Journal of Human Genetics 92:252-258.
  3. CC dos Santos, S Murthy, P Hu, Y Shan, JJ Haitsma1, SHJ Mei, DJ Stewart, WC Liles (2012). Network analysis of transcriptional responses induced by mesenchymal stem cells treatment of experimental sepsis. American Journal of Pathology 181:1681-1692.
  4. R Ribeiro, C Monteiro, V Catalán, P Hu, V Cunha, A Rodriguez, J Gómez-Ambrosi, A Fraga, P Príncipe, C Lobato, F Lobo, A Morais, V Silva, J Sanches-Magalhães, J Oliveira, F Pina, C Lopes, R Medeiros, G Frühbeck (2012). Obesity and prostate cancer: gene expression signature of human periprostatic adipose tissue. BMC Medicine 10:108.
  5. D Picard, S Millar, CE Hawkins, E Bouffet, HA Rogers, TSY Chan, SK Kim, YS Ra, J Fangusaro, A Korshunov, H Toledano, H Nakamura, JT Hayden, J Chan, L Lafay-Cousin, P Hu, X Fan, KM Muraszko, SL Pomeroy, CC Lau, HK Ng, C Jones, TV Meter, SC Clifford, C Eberhart, A Gajjar, SM Pfister, RG Grundy, A Huang (2012). Markers of survival and metastatic potential in childhood CNS primitive neuro-ectodermal brain tumors: an integrative genomic analysis. Lancet Oncology 13:838-848.
  6. AM Muise, W Xu, CH Guo, T Walters, VM Wolters, R Fattouh, GY Lam, P Hu, R Murchie, M Sherlock, JC Gana, NEOPICS, RK Russell, M Glogauer, RH Duerr, J Cho, CW Lees, J Satsangi, DC Wilson, AD Paterson, AM Griffiths, MS Silverberg, JH Brumell (2012). NADPH oxidase complex and IBD candidate gene studies: identification of a rare variant in NCF2 that results in reduced binding to RAC2. Gut 61:1028-1035.
  7. EJ Parra, JE Below, S Krithika, A Valladares, JL Barta, NJ Cox, CL Hanis, N Wacher, J Garcia-Mena, P Hu, MD Shriver, The DIAGRAM Consortium, J Kumate, PM McKeigue,J Escobedo, M Cruz (2011). Genome-wide association study of type 2 diabetes in a sample from Mexico city and a meta-analysis of a Mexican-American sample from Starr county, Texas. Diabetologia 54:2038-2046.
  8. RF Wintle, AC Lionel, P Hu, SD Ginsberg, D Pinto, B Thiruvahindrapduram, J Wei, CR Marshall, J Pickett, E Cook, SW Scherer (2011). A genotype resource for postmortem brain samples from the Autism Tissue Program. Autism Research 4:89 – 97.
  9. MMG Seno, P Hu, FG Gwadry, D Pinto, CR Marshall, G Cassallo, SW Scherer (2011). Gene and miRNA expression profiles in autism spectrum disorders. Brain Research 1380:85-97.
  10. SD Molyneux*, MD Grappa*, AG Beristain, TD McKee, DH Wai, J Paderova, M Kashyap, P Hu, T Maiuri, SP Narala, V Stambolic, J Squire, J Penninger, O Sanchez, TJ Triche, GA Wood, LS Kirschner, R Khokha (2010). PRKAR1A is an Osteosarcoma tumor suppressor and defines a molecular subclass in mice. Journal of Clinical Investigation 120:3310-3325.