Dr Jingqin Wu

Research Fellow, Plant Breeding Institute
School of Life and Environmental Sciences

Member of Sydney Institute of Agriculture

C44 - Plant Breeding Inst - Admin. & Labs A1 Camden
The University of Sydney

Telephone +61 2 9351 8893
Fax +61 2 9351 8875

Biographical details

Dr Wu received her PhD degree from Department of Medicine, University of Sydney in 2009 and her MSc degree in School of Biological Sciences, University of Sydney in 2002. While her Master thesis focused on the QacA-mediated multidrug resistance in Staphylococci, her PhD thesis investigated HIV-host interactions in relation to disease status and therapy effects by proteome and transcriptome analyses.

After her PhD graduation, she worked as a research fellow at the University of Newcastle and further developed her bioinformatics skills in genome-wide association study, identification of molecular biomarkers, and investigation of gene pathways, networks and interactions. In 2011, she was awarded the NHMRC early career fellowship.

Throughout her career, she has continuously applied the state-of-the-art genomic technology platforms (e.g. next generation sequencing) to answer biological questions. Working in different labs and collaborating with professionally diverse groups have greatly enhanced her multidisciplinary skills (e.g. microbiology, immunology, and bioinformatics), which builds up her integrative thinking with a broad research vision. In 2016, she joined the University of Sydney for comparative genomics research on rust fungi.

Research interests

Dr. Wu is interested in understanding the plant-pathogen interactions using multiple bioinformatics approaches, including integrative genomics, next generation sequencing, RNA-seq, transcriptome profiling, microRNA profiling, gene expression and regulation, genome-wide association, genetic analysis, pathway analysis, and identification of molecular markers.

Selected grants

2019

  • Agricultural DMIs as drivers of antifungal resistance in plant, animal, and human pathogens: a OneHealth investigation project; Beardsley J, Daniel R, Marcelino V, Nguyen T, Proschogo N, Wu J, Barrs V, Guest D, Park R, Sorrell T; Sydney Institute of Agriculture/Sydney Institute of Agriculture Research Projects.

Selected publications

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Journals

  • Ruderfer, D., Ripke, S., McQuillin, A., Mullins, N., Charney, A., Blackburn, H., Bakker, S., Blackwood, D., et al, Wu, J. (2018). Genomic Dissection of Bipolar Disorder and Schizophrenia, Including 28 Subphenotypes. Cell, 173, 1705-1715. [More Information]
  • Wu, J., Sakthikumar, S., Dong, C., Zhang, P., Cuomo, C., Park, R. (2017). Comparative genomics integrated with association analysis identifies candidate effector genes corresponding to Lr20 in phenotype-paired puccinia triticina isolates from Australia. Frontiers in Plant Science, 8, 1-19. [More Information]
  • Marshall, C., Howrigan, D., Merico, D., Thiruvahindrapuram, B., Wu, W., Greer, D., Antaki, D., Shetty, A., Holmans, P., Wu, J., et al (2017). Contribution of copy number variants to schizophrenia from a genome-wide study of 41,321 subjects. Nature Genetics, 49(1), 27-35. [More Information]
  • Shao, T., Yin, G., Yin, X., Wu, J., Du, X., Zhu, H., Liu, J., Wang, X., Xu, D., et al (2017). Elevated triglyceride levels are associated with cognitive impairments among patients with major depressive disorder. Comprehensive Psychiatry, 75, 103-109. [More Information]
  • Wu, J., Chen, D., Tan, Y., Tan, S., Xiu, M., Wang, Z., Yang, F., Soares, J., Zhang, X. (2016). Altered interleukin-18 levels are associated with cognitive impairment in chronic schizophrenia. Journal of Psychiatric Research, 76, 9-15. [More Information]
  • Wu, J., Green, M., Gardiner, E., Tooney, P., Scott, R., Carr, V., Cairns, M. (2016). Altered neural signaling and immune pathways in peripheral blood mononuclear cells of schizophrenia patients with cognitive impairment: A transcriptome analysis. Brain, Behavior, and Immunity, 53, 194-206. [More Information]
  • Wu, J., Chen, D., Tan, Y., Xiu, M., Yang, F., Soares, J., Zhang, X. (2016). Cognitive impairments in first-episode drug-naive and chronic medicated schizophrenia: MATRICS consensus cognitive battery in a Chinese Han population. Psychiatry Research, 238, 196-202. [More Information]
  • Andreassen, O., Bramon, E., Bruggeman, R., Cairns, M., Cantor, R., Cloninger, C., Cohen, D., Crespo-Facorro, B., Wu, J., et al (2016). Evidence for Genetic Overlap Between Schizophrenia and Age at First Birth in Women. JAMA Psychiatry, 73(5), 497-505. [More Information]
  • Franke, B., Stein, J., Ripke, S., Anttila, V., Hibar, D., Van Hulzen, K., Arias-Vasquez, A., Smoller, J., Wu, J., et al (2016). Genetic influences on schizophrenia and subcortical brain volumes: large-scale proof of concept. Nature Neuroscience, 19(3), 420-431. [More Information]
  • Shi, J., Tan, Y., Wang, Z., An, H., Li, J., Wang, Y., Lv, M., Yan, S., Wu, J., et al (2016). Ginkgo biloba and vitamin E ameliorate haloperidol-induced vacuous chewing movement and brain-derived neurotrophic factor expression in a rat tardive dyskinesia model. Pharmacology, Biochemistry and Behavior, 148, 53-58. [More Information]
  • Sekar, A., Bialas, A., de Rivera, H., Davis, A., Hammond, T., Kamitaki, N., Tooley, K., Presumey, J., Wu, J., et al (2016). Schizophrenia risk from complex variation of complement component 4. Nature, 530(7589), 177-183. [More Information]
  • Wu, J., Miranda Saksena, M., Soriano, V., Vispo, E., Saksena, N. (2015). Differential regulation of cytotoxicity pathway discriminating between HIV, HCV mono- and co-infection identified by transcriptome profiling of PBMCs. Virology Journal, 12(1), 1-16. [More Information]
  • Gupta, P., Liu, B., Wu, J., Soriano, V., Vispo, E., Carroll, A., Goldie, B., Cairns, M., Saksena, N. (2014). Genome-wide mRNA and miRNA analysis of peripheral blood mononuclear cells (PBMC) reveals different miRNAs regulating HIV/HCV co-infection. Virology, 450-451, 336-349. [More Information]
  • Saksena, N., Conceicao, V., Perera, S., Wu, J. (2013). Gene array data relevant to immunological and virological monitoring of human immunodeficiency virus type 1 infection. Current Opinion in HIV and AIDS, 8(2), 132-139. [More Information]
  • Wu, J., Sasse, T., Miranda Saksena, M., Saksena, N. (2013). Transcriptome analysis of primary monocytes from HIV-positive patients with differential responses to antiretroviral therapy. Virology Journal, 10, 1-16. [More Information]
  • Wu, J., Sasse, T., Wolkenstein, G., Conceicao, V., Miranda Saksena, M., Soedjono, M., Perera, S., Wang, B., Dwyer, D., Saksena, N. (2013). Transcriptome analysis of primary monocytes shows global down-regulation of genetic networks in HIV viremic patients versus long-term non-progressors. Virology, 435(2), 308-319. [More Information]
  • Sasse, T., Wu, J., Zhou, L., Saksena, N. (2012). Monocytes and their Role in Human Immunodeficiency Virus Pathogenesis. American Journal of Infectious Diseases, 8(2), 92-105. [More Information]
  • Wu, J., Dwyer, D., Dyer, W., Yang, J., Wang, B., Saksena, N. (2011). Genome-wide analysis of primary CD4+ and CD8+ T cell transcriptomes shows evidence for a network of enriched pathways associated with HIV disease. Retrovirology, 8(18), 1-21. [More Information]
  • Wu, J., Hassan, K., Skurray, R., Brown, M. (2008). Functional analyses reveal an important role for tyrosine residues in the staphylococcal multidrug efflux protein QacA. BMC Microbiology, 8, 1-7. [More Information]
  • Saksena, N., Wu, J., Potter, S., Wilkinson, J., Wang, B. (2008). Human immunodeficiency virus interactions with CD8+ T lymphocytes. Current HIV Research, 6(1), 1-9. [More Information]
  • Wu, J., Dyer, W., Chrisp, J., Belov, L., Wang, B., Saksena, N. (2008). Longitudinal microarray analysis of cell surface antigens on peripheral blood mononuclear cells from HIV+ individuals on highly active antiretroviral therapy. Retrovirology, 5(24), 1-12. [More Information]
  • Wu, J., Dwyer, D., Dyer, W., Yang, J., Wang, B., Saksena, N. (2008). Transcriptional profiles in CD8+ T cells from HIV+ progressors on HAART are characterized by coordinated up-regulation of oxidative phosphorylation enzymes and interferon responses. Virology, 380(1), 124-135. [More Information]
  • Wu, J., Wang, B., Saksena, N. (2008). Transitory viremic surges in a human immunodeficiency virus-positive elite controller can shift the cellular transcriptome profile: a word of caution for microarray studies. Journal of Virology, 82(20), 10326-10327. [More Information]
  • Wu, J., Wang, B., Belov, L., Chrisp, J., Learmont, J., Dyer, W., Zaunders, J., Cunningham, A., Dwyer, D., Saksena, N. (2007). Antibody microarray analysis of cell surface antigens on CD4+ and CD8+ T cells from HIV+ individuals correlates with disease stages. Retrovirology, 4(83), 1-13. [More Information]
  • Hassan, K., Galea, M., Wu, J., Mitchell, B., Skurray, R., Brown, M. (2006). Functional effects of intramembranous proline substitutions in the staphylococcal multidrug transporter QacA. FEMS Microbiology Letters, 263(1), 76-85. [More Information]

Conferences

  • Wu, J., Dong, C., Park, R. (2018). First phased diploid genomes of three closely related Puccinia triticina isolates reveal molecular characteristics of somatic hybridization in nature. 2018 Stromlo Molecular Plant Pathology Meeting, Australia: Australian National University (ANU).
  • Wu, J., Dong, C., Song, L., Park, R. (2018). Somatic exchange and mitotic recombination in the wheat leaf rust pathogen in nature revealed by phased dikaryotic genomes. Sydney Bioinformatics Research Symposium 2018, Sydney: Australian Bioinformatics and Computational Biology Society.
  • Wu, J., Sakthikumar, S., Cuomo, C., Park, R. (2017). Comparative genomics integrated with association analysis identifies candidate effector genes of Lr20 in Puccinia triticina isolates from Australia. 29th Fungal Genetics Conference, United States: Genetics Society of America.

2018

  • Wu, J., Dong, C., Park, R. (2018). First phased diploid genomes of three closely related Puccinia triticina isolates reveal molecular characteristics of somatic hybridization in nature. 2018 Stromlo Molecular Plant Pathology Meeting, Australia: Australian National University (ANU).
  • Ruderfer, D., Ripke, S., McQuillin, A., Mullins, N., Charney, A., Blackburn, H., Bakker, S., Blackwood, D., et al, Wu, J. (2018). Genomic Dissection of Bipolar Disorder and Schizophrenia, Including 28 Subphenotypes. Cell, 173, 1705-1715. [More Information]
  • Wu, J., Dong, C., Song, L., Park, R. (2018). Somatic exchange and mitotic recombination in the wheat leaf rust pathogen in nature revealed by phased dikaryotic genomes. Sydney Bioinformatics Research Symposium 2018, Sydney: Australian Bioinformatics and Computational Biology Society.

2017

  • Wu, J., Sakthikumar, S., Dong, C., Zhang, P., Cuomo, C., Park, R. (2017). Comparative genomics integrated with association analysis identifies candidate effector genes corresponding to Lr20 in phenotype-paired puccinia triticina isolates from Australia. Frontiers in Plant Science, 8, 1-19. [More Information]
  • Wu, J., Sakthikumar, S., Cuomo, C., Park, R. (2017). Comparative genomics integrated with association analysis identifies candidate effector genes of Lr20 in Puccinia triticina isolates from Australia. 29th Fungal Genetics Conference, United States: Genetics Society of America.
  • Marshall, C., Howrigan, D., Merico, D., Thiruvahindrapuram, B., Wu, W., Greer, D., Antaki, D., Shetty, A., Holmans, P., Wu, J., et al (2017). Contribution of copy number variants to schizophrenia from a genome-wide study of 41,321 subjects. Nature Genetics, 49(1), 27-35. [More Information]
  • Shao, T., Yin, G., Yin, X., Wu, J., Du, X., Zhu, H., Liu, J., Wang, X., Xu, D., et al (2017). Elevated triglyceride levels are associated with cognitive impairments among patients with major depressive disorder. Comprehensive Psychiatry, 75, 103-109. [More Information]

2016

  • Wu, J., Chen, D., Tan, Y., Tan, S., Xiu, M., Wang, Z., Yang, F., Soares, J., Zhang, X. (2016). Altered interleukin-18 levels are associated with cognitive impairment in chronic schizophrenia. Journal of Psychiatric Research, 76, 9-15. [More Information]
  • Wu, J., Green, M., Gardiner, E., Tooney, P., Scott, R., Carr, V., Cairns, M. (2016). Altered neural signaling and immune pathways in peripheral blood mononuclear cells of schizophrenia patients with cognitive impairment: A transcriptome analysis. Brain, Behavior, and Immunity, 53, 194-206. [More Information]
  • Wu, J., Chen, D., Tan, Y., Xiu, M., Yang, F., Soares, J., Zhang, X. (2016). Cognitive impairments in first-episode drug-naive and chronic medicated schizophrenia: MATRICS consensus cognitive battery in a Chinese Han population. Psychiatry Research, 238, 196-202. [More Information]
  • Andreassen, O., Bramon, E., Bruggeman, R., Cairns, M., Cantor, R., Cloninger, C., Cohen, D., Crespo-Facorro, B., Wu, J., et al (2016). Evidence for Genetic Overlap Between Schizophrenia and Age at First Birth in Women. JAMA Psychiatry, 73(5), 497-505. [More Information]
  • Franke, B., Stein, J., Ripke, S., Anttila, V., Hibar, D., Van Hulzen, K., Arias-Vasquez, A., Smoller, J., Wu, J., et al (2016). Genetic influences on schizophrenia and subcortical brain volumes: large-scale proof of concept. Nature Neuroscience, 19(3), 420-431. [More Information]
  • Shi, J., Tan, Y., Wang, Z., An, H., Li, J., Wang, Y., Lv, M., Yan, S., Wu, J., et al (2016). Ginkgo biloba and vitamin E ameliorate haloperidol-induced vacuous chewing movement and brain-derived neurotrophic factor expression in a rat tardive dyskinesia model. Pharmacology, Biochemistry and Behavior, 148, 53-58. [More Information]
  • Sekar, A., Bialas, A., de Rivera, H., Davis, A., Hammond, T., Kamitaki, N., Tooley, K., Presumey, J., Wu, J., et al (2016). Schizophrenia risk from complex variation of complement component 4. Nature, 530(7589), 177-183. [More Information]

2015

  • Wu, J., Miranda Saksena, M., Soriano, V., Vispo, E., Saksena, N. (2015). Differential regulation of cytotoxicity pathway discriminating between HIV, HCV mono- and co-infection identified by transcriptome profiling of PBMCs. Virology Journal, 12(1), 1-16. [More Information]

2014

  • Gupta, P., Liu, B., Wu, J., Soriano, V., Vispo, E., Carroll, A., Goldie, B., Cairns, M., Saksena, N. (2014). Genome-wide mRNA and miRNA analysis of peripheral blood mononuclear cells (PBMC) reveals different miRNAs regulating HIV/HCV co-infection. Virology, 450-451, 336-349. [More Information]

2013

  • Saksena, N., Conceicao, V., Perera, S., Wu, J. (2013). Gene array data relevant to immunological and virological monitoring of human immunodeficiency virus type 1 infection. Current Opinion in HIV and AIDS, 8(2), 132-139. [More Information]
  • Wu, J., Sasse, T., Miranda Saksena, M., Saksena, N. (2013). Transcriptome analysis of primary monocytes from HIV-positive patients with differential responses to antiretroviral therapy. Virology Journal, 10, 1-16. [More Information]
  • Wu, J., Sasse, T., Wolkenstein, G., Conceicao, V., Miranda Saksena, M., Soedjono, M., Perera, S., Wang, B., Dwyer, D., Saksena, N. (2013). Transcriptome analysis of primary monocytes shows global down-regulation of genetic networks in HIV viremic patients versus long-term non-progressors. Virology, 435(2), 308-319. [More Information]

2012

  • Sasse, T., Wu, J., Zhou, L., Saksena, N. (2012). Monocytes and their Role in Human Immunodeficiency Virus Pathogenesis. American Journal of Infectious Diseases, 8(2), 92-105. [More Information]

2011

  • Wu, J., Dwyer, D., Dyer, W., Yang, J., Wang, B., Saksena, N. (2011). Genome-wide analysis of primary CD4+ and CD8+ T cell transcriptomes shows evidence for a network of enriched pathways associated with HIV disease. Retrovirology, 8(18), 1-21. [More Information]

2008

  • Wu, J., Hassan, K., Skurray, R., Brown, M. (2008). Functional analyses reveal an important role for tyrosine residues in the staphylococcal multidrug efflux protein QacA. BMC Microbiology, 8, 1-7. [More Information]
  • Saksena, N., Wu, J., Potter, S., Wilkinson, J., Wang, B. (2008). Human immunodeficiency virus interactions with CD8+ T lymphocytes. Current HIV Research, 6(1), 1-9. [More Information]
  • Wu, J., Dyer, W., Chrisp, J., Belov, L., Wang, B., Saksena, N. (2008). Longitudinal microarray analysis of cell surface antigens on peripheral blood mononuclear cells from HIV+ individuals on highly active antiretroviral therapy. Retrovirology, 5(24), 1-12. [More Information]
  • Wu, J., Dwyer, D., Dyer, W., Yang, J., Wang, B., Saksena, N. (2008). Transcriptional profiles in CD8+ T cells from HIV+ progressors on HAART are characterized by coordinated up-regulation of oxidative phosphorylation enzymes and interferon responses. Virology, 380(1), 124-135. [More Information]
  • Wu, J., Wang, B., Saksena, N. (2008). Transitory viremic surges in a human immunodeficiency virus-positive elite controller can shift the cellular transcriptome profile: a word of caution for microarray studies. Journal of Virology, 82(20), 10326-10327. [More Information]

2007

  • Wu, J., Wang, B., Belov, L., Chrisp, J., Learmont, J., Dyer, W., Zaunders, J., Cunningham, A., Dwyer, D., Saksena, N. (2007). Antibody microarray analysis of cell surface antigens on CD4+ and CD8+ T cells from HIV+ individuals correlates with disease stages. Retrovirology, 4(83), 1-13. [More Information]

2006

  • Hassan, K., Galea, M., Wu, J., Mitchell, B., Skurray, R., Brown, M. (2006). Functional effects of intramembranous proline substitutions in the staphylococcal multidrug transporter QacA. FEMS Microbiology Letters, 263(1), 76-85. [More Information]

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