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Associate Professor John Pearson

John PearsonResearch Associate Professor

MSc PhD(Auck)

Email john.pearson@otago.ac.nz

Background

  • 2008 - Biostatistical consultant with the Otago University, Christchurch.
  • 2006 - 2008 Statistical analyst then senior research statistician at Statistics New Zealand where I worked on economic surveys and strategic development
  • 2001 - 2006 Bioinformatics statistician then senior statistician at Vialactia Biosciences (NZ) Ltd, where I worked on animal studies, microarray analysis and design, experimental design, genetics
  • 1998 - 2001 Lecturer in statistics at the University of Auckland
  • Member of the New Zealand Statistics Association.

Research Interests

  • Microarrays
  • Genetics
  • Bioinformatics
  • Statistical Computing
  • Survey Methods

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Publications

Noble, A. J., Pearson, J. F., Boden, J. M., Horwood, L. J., Gemmell, N. J., Kennedy, M. A., & Osborne, A. J. (2021). A validation of Illumina EPIC array system with bisulfite-based amplicon sequencing. PeerJ, 9, e10762. doi: 10.7717/peerj.10762

Sinha, P., Cree, S. L., Miller, A. L., Pearson, J. F., & Kennedy, M. A. (2021). Transcriptional analysis of sodium valproate in a serotonergic cell line reveals gene regulation through both HDAC inhibition-dependent and independent mechanisms. Pharmacogenomics Journal. Advance online publication. doi: 10.1038/s41397-021-00215-x

Sabel, C. E., Pearson, J. F., Mason, D. F., Willoughby, E., Abernethy, D., & Taylor, B. V. (2021). The latitude gradient for multiple sclerosis prevalence is established in the early lifecourse. Brain. Advance online publication. doi: 10.1093/brain/awab104

Munn-Chernoff, M. A., Johnson, E. C., Chou, Y.-L., Coleman, J. R. I., Thornton, L. M., Walters, R. K., … Boden, J. M., … Horwood, L. J., … Pearson, J. F., … Jordan, J., Kennedy, M. A., … Agrawal, A. (2021). Shared genetic risk between eating disorder- and substance-use-related phenotypes: Evidence from genome-wide association studies. Addiction Biology, 26, e12880. doi: 10.1111/adb.12880

Ward, Z., Pearson, J., Schmeier, S., Cameron, V., & Pilbrow, A. (2021). Insights into circular RNAs: Their biogenesis, detection, and emerging role in cardiovascular disease. RNA Biology. Advance online publication. doi: 10.1080/15476286.2021.1891393

Journal - Research Article

Noble, A. J., Pearson, J. F., Boden, J. M., Horwood, L. J., Gemmell, N. J., Kennedy, M. A., & Osborne, A. J. (2021). A validation of Illumina EPIC array system with bisulfite-based amplicon sequencing. PeerJ, 9, e10762. doi: 10.7717/peerj.10762

Ward, Z., Pearson, J., Schmeier, S., Cameron, V., & Pilbrow, A. (2021). Insights into circular RNAs: Their biogenesis, detection, and emerging role in cardiovascular disease. RNA Biology. Advance online publication. doi: 10.1080/15476286.2021.1891393

Munn-Chernoff, M. A., Johnson, E. C., Chou, Y.-L., Coleman, J. R. I., Thornton, L. M., Walters, R. K., … Boden, J. M., … Horwood, L. J., … Pearson, J. F., … Jordan, J., Kennedy, M. A., … Agrawal, A. (2021). Shared genetic risk between eating disorder- and substance-use-related phenotypes: Evidence from genome-wide association studies. Addiction Biology, 26, e12880. doi: 10.1111/adb.12880

Sabel, C. E., Pearson, J. F., Mason, D. F., Willoughby, E., Abernethy, D., & Taylor, B. V. (2021). The latitude gradient for multiple sclerosis prevalence is established in the early lifecourse. Brain. Advance online publication. doi: 10.1093/brain/awab104

Sinha, P., Cree, S. L., Miller, A. L., Pearson, J. F., & Kennedy, M. A. (2021). Transcriptional analysis of sodium valproate in a serotonergic cell line reveals gene regulation through both HDAC inhibition-dependent and independent mechanisms. Pharmacogenomics Journal. Advance online publication. doi: 10.1038/s41397-021-00215-x

Nabais, M. F., Laws, S. M., Lin, T., Vallerga, C. L., Armstrong, N. J., Blair, I. P., … Anderson, T. J., … Kennedy, M., … Pearson, J., Pitcher, T. L., … McRae, A. F. (2021). Meta-analysis of genome-wide DNA methylation identifies shared associations across neurodegenerative disorders. Genome Biology, 22(1), 90. doi: 10.1186/s13059-021-02275-5

Wiggins, G. A. R., Black, M. A., Dunbier, A., Merriman, T. R., Pearson, J. F., & Walker, L. C. (2021). Variable expression quantitative trait loci analysis of breast cancer risk variants. Scientific Reports, 11(1), 7192. doi: 10.1038/s41598-021-86690-5

Tranter-Entwistle, I., Mullaney, T. G., Noah, K., Pearson, J., Falvey, J., Gearry, R., & Eglinton, T. (2020). Long-term incidence of dysplasia and colorectal cancer in an ulcerative colitis population-based cohort. ANZ Journal of Surgery, 90, 821-825. doi: 10.1111/ans.15686

Slow, S., Pearson, J. F., Florkowski, C. M., Elder, P. A., Lewis, J. G., Kennedy, M. A., & Murdoch, D. R. (2020). Effect of genetic factors on the response to vitamin D3 supplementation in the VIDARIS randomised controlled trial. Nutrition, 75-76, 110761. doi: 10.1016/j.nut.2020.110761

Pearson, A. G., Zawari, M., Pearson, J. F., & Hampton, M. B. (2020). Quantifying mitochondrial respiration in human lymphocytes and monocytes challenged with hydrogen peroxide. Free Radical Research, 54(4), 271-279. doi: 10.1080/10715762.2020.1753722

O'Grady, M., Clarke, L., Turner, G., Doogue, M., Purcell, R., Pearson, J., & Frizelle, F. (2020). Statin use and risk of acute diverticulitis: A population-based case-control study. Medicine, 99(20), e20264. doi: 10.1097/md.0000000000020264

Porter, J. A., MacKenzie, K. E., Darlow, B. A., Pearson, J. F., & Day, A. S. (2020). A questionnaire-based assessment of gastrointestinal symptoms in children with type 1 diabetes mellitus. Translational Pediatrics, 9(6), 743-749. doi: 10.21037/tp-20-139

White, R., Nonis, M., Pearson, J. F., Burgess, E., Morrin, H. R., Pullar, J. M., Spencer, E., Vissers, M. C. M., Robinson, B. A., & Dachs, G. U. (2020). Low vitamin C status in patients with cancer is associated with patient and tumor characteristics. Nutrients, 12(8), 2338. doi: 10.3390/nu12082338

Johnson, E. C., Demontis, D., Thorgeirsson, T. E., Walters, R. K., Polimanti, R., Hatoum, A. S., … Boden, J., … Pearson, J. F., … Horwood, J., … Kennedy, M. A., … Agrawal, A. (2020). A large-scale genome-wide association study meta-analysis of cannabis use disorder. Lancet Psychiatry, 7, 1032-1045. doi: 10.1016/S2215-0366(20)30339-4

Lattimore, V., Parsons, M. T., Spurdle, A. B., Pearson, J., Lehnert, K., Sullivan, J., … Morrin, H., Robinson, B., & Walker, L. (2020). Under-ascertainment of breast cancer susceptibility gene carriers in a cohort of New Zealand female breast cancer patients. Breast Cancer Research & Treatment. Advance online publication. doi: 10.1007/s10549-020-05986-8

Dickerhof, N., Huang, J., Min, E., Michaëlsson, E., Lindstedt, E.-L., Pearson, J. F., Kettle, A. J., & Day, B. J. (2020). Myeloperoxidase inhibition decreases morbidity and oxidative stress in mice with cystic fibrosis-like lung inflammation. Free Radical Biology & Medicine, 152, 91-99. doi: 10.1016/j.freeradbiomed.2020.03.001

Chittleborough, T. J., Gutlic, I., Pearson, J. F., Watson, A., Bhatti, L. A., Buchwald, P., … Wakeman, C., Eglinton, T., & Frizelle, F. (2020). Increasing incidence of young-onset colorectal carcinoma: A three-country population analysis. Diseases of the Colon & Rectum, 63, 903-910. doi: 10.1097/DCR.0000000000001631

Bryois, J., Skene, N. G., Folmann Hansen, T., Kogelman, L. J. A., Watson, H. J., Liu, Z., … Eating Disorders Working Group of the Psychiatric Genomics Consortium, including Boden, J., … Jordan, J., … Kennedy, M., … Pearson, J., … Sullivan, P. F. (2020). Genetic identification of cell types underlying brain complex traits yields insights into the etiology of Parkinson’s disease. Nature Genetics, 52, 482-493. doi: 10.1038/s41588-020-0610-9

Richardson, A. K., Walker, L. C., Cox, B., Rollag, H., Robinson, B. A., Morrin, H., Pearson, J. F., … Currie, M. J. (2020). Breast cancer and cytomegalovirus. Clinical & Translational Oncology, 22, 585-602. doi: 10.1007/s12094-019-02164-1

Taylor, W. S., Pearson, J., Miller, A., Schmeier, S., Frizelle, F. A., & Purcell, R. V. (2020). MinION sequencing of colorectal cancer tumour microbiomes: A comparison with amplicon-based and RNA-sequencing. PLoS ONE, 15(5), e0233170. doi: 10.1371/journal.pone.0233170

Osborne, A. J., Pearson, J. F., Noble, A. J., Gemmell, N. J., Horwood, L. J., Boden, J. M., … Kennedy, M. A. (2020). Genome-wide DNA methylation analysis of heavy cannabis exposure in a New Zealand longitudinal cohort. Translational Psychiatry, 10, 114. doi: 10.1038/s41398-020-0800-3

Prickett, T. C. R., Spittlehouse, J. K., Miller, A. L., Liau, Y., Kennedy, M. A., Cameron, V. A., Pearson, J. F., Boden, J. M., Troughton, R. W., & Espiner, E. A. (2019). Contrasting signals of cardiovascular health among natriuretic peptides in subjects without heart disease. Scientific Reports, 9, 12108. doi: 10.1038/s41598-019-48553-y

Thompson, G., & Pearson, J. F. (2019). No attributable effects of PRP on greater trochanteric pain syndrome. New Zealand Medical Journal, 132(1507), 22-32. Retrieved from https://www.nzma.org.nz/journal

Balasubramanian, D., Pearson, J. F., & Kennedy, M. A. (2019). Gene expression effects of lithium and valproic acid in a serotonergic cell line. Physiological Genomics, 51, 43-50. doi: 10.1152/physiolgenomics.00069.2018

Zhang, Q., Vallerga, C. L., Walker, R. M., Lin, T., Henders, A. K., Montgomery, G. W., … Kennedy, M., Pitcher, T., Pearson, J., … Anderson, T., … Visscher, P. M. (2019). Improved precision of epigenetic clock estimates across tissues and its implication for biological ageing. Genome Medicine, 11(1), 54. doi: 10.1186/s13073-019-0667-1

Liau, Y., Cree, S. L., Maggo, S., Miller, A. L., Pearson, J. F., Gladding, P. A., & Kennedy, M. A. (2019). A multiplex pharmacogenetics assay using the MinION nanopore sequencing device. Pharmacogenetics & Genomics, 29(9), 207-215. doi: 10.1097/fpc.0000000000000385

Lopez-Perolio, I., Leman, R., Behar, R., Lattimore, V., Pearson, J. F., Castéra, L., … Walker, L. C., … de la Hoya, M. (2019). Alternative splicing and ACMG-AMP-2015-based classification of PALB2 genetic variants: An ENIGMA report. Journal of Medical Genetics, 56, 453-460. doi: 10.1136/jmedgenet-2018-105834

Lattimore, V. L., Pearson, J. F., Morley-Bunker, A. E., kConFab Investigators, Spurdle, A. B., Robinson, B. A., Currie, M. J., & Walker, L. C. (2019). Quantifying BRCA1 and BRCA2 mRNA isoform expression levels in single cells. International Journal of Molecular Sciences, 20(3), 693. doi: 10.3390/ijms20030693

Morley-Bunker, A., Pearson, J., Currie, M. J., Morrin, H., Whitehead, M. R., Eglinton, T., & Walker, L. C. (2019). Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation. Oncotarget, 10(14), 1425-1439. doi: 10.18632/oncotarget.26675

Reynolds, R. H., Botía, J., Nalls, M. A., International Parkinson's Disease Genomics Consortium (IPDGC), including System Genomics of Parkinson's Disease (SGPD), Anderson, T., … Kennedy, M., Pearson, J., … Ryten, M. (2019). Moving beyond neurons: The role of cell type-specific gene regulation in Parkinson's disease heritability. npj Parkinson's Disease, 5, 6. doi: 10.1038/s41531-019-0076-6

Keenan, J., Aitchison, A., Leaman, J., Pearson, J., & Frizelle, F. (2019). Faecal biomarkers do not always identify pre-cancerous lesions in patients who present in primary care with bowel symptoms. New Zealand Medical Journal, 132(1501), 48-56. Retrieved from https://www.nzma.org.nz/journal

Liau, Y., Maggo, S., Miller, A. L., Pearson, J. F., Kennedy, M. A., & Cree, S. L. (2019). Nanopore sequencing of the pharmacogene CYP2D6 allows simultaneous haplotyping and detection of duplications. Pharmacogenomics, 20(14), 1033-1047. doi: 10.2217/pgs-2019-0080

Watson, H. J., Yilmaz, Z., Thornton, L. M., Hübel, C., Coleman, J. R. I., Gaspar, H. A., … Roberts, M., … Boden, J. M., … Horwood, L. J., … Pearson, J. F., … Jordan, J., Kennedy, M., … Bulik, C. M. (2019). Genome-wide association study identifies eight risk loci and implicates metabo-psychiatric origins for anorexia nervosa. Nature Genetics, 51, 1207-1214. doi: 10.1038/s41588-019-0439-2

Purcell, R. V., Schmeier, S., Lau, Y. C., Pearson, J. F., & Frizelle, F. A. (2019). Molecular subtyping improves prognostication of Stage 2 colorectal cancer. BMC Cancer, 19(1), 1155. doi: 10.1186/s12885-019-6327-4

Hock, B. D., Mulholland, K. S., Ganly, P., McKenzie, J. L., Pearson, J. F., & Macpherson, S. A. (2019). Impact of increased access to novel agents on the survival of multiple myeloma patients treated at a single New Zealand centre. Internal Medicine Journal, 49, 598-606. doi: 10.1111/imj.14155

Pettersson, E., Lichtenstein, P., Larsson, H., Song, J., Attention Deficit/Hyperactivity Disorder Working Group of the iPSYCH-Broad-PGC Consortium, Autism Spectrum Disorder Working Group of the iPSYCH-Broad-PGC Consortium, Bipolar Disorder Working Group of the PGC, Eating Disorder Working Group of the PGC, including Kennedy, M. A., Major Depressive Disorder Working Group of the PGC, Obsessive Compulsive Disorders and Tourette Syndrome Working Group of the PGC, Schizophrenia CLOZUK, Substance Use Disorder Working Group of the PGC, including Horwood, L. J., Pearson, J. F., … Polderman, T. J. C. (2019). Genetic influences on eight psychiatric disorders based on family data of 4 408 646 full and half-siblings, and genetic data of 333 748 cases and controls. Psychological Medicine, 49(7), 1166-1173. doi: 10.1017/S0033291718002039

Lacey, C. J., Doudney, K., Bridgman, P. G., George, P. M., Mulder, R. T., Zarifeh, J. J., Kimber, B., Cadzow, M. J., Black, M. A., Merriman, T. R., … Pearson, J. F., Cameron, V. A., & Kennedy, M. A. (2018). Copy number variants implicate cardiac function and development pathways in earthquake-induced stress cardiomyopathy. Scientific Reports, 8, 7548. doi: 10.1038/s41598-018-25827-5

Pitcher, T. L., Myall, D. J., Pearson, J. F., Lacey, C. J., Dalrymple-Alford, J. C., Anderson, T. J., & MacAskill, M. R. (2018). Parkinson's disease across ethnicities: A nationwide study in New Zealand. Movement Disorders, 33(9), 1440-1448. doi: 10.1002/mds.27389

Stevens, A. J., Rucklidge, J. J., Darling, K. A., Eggleston, M. J. F., Pearson, J. F., & Kennedy, M. A. (2018). Methylomic changes in response to micronutrient supplementation and MTHFR genotype. Epigenomics, 10(9), 1201-1214. doi: 10.2217/epi-2018-0029

Slow, S., Epton, M., Storer, M., Thiessen, R., Lim, S., Wong, J., Chin, P., Tovaranonte, P., Pearson, J., Chambers, S. T., Murdoch, D. R., and VIDCAPS Group, including Jardine, D., & Pithie, A. (2018). Effect of adjunctive single high-dose vitamin D3 on outcome of community-acquired pneumonia in hospitalised adults: The VIDCAPS randomised controlled trial. Scientific Reports, 8(1), 13829. doi: 10.1038/s41598-018-32162-2

Walters, R. K., Polimanti, R., Johnson, E. C., McClintick, J. N., Adams, M. J., Adkins, A. E., … Kennedy, M. A., … Pearson, J. F., … Agrawal, A. (2018). Transancestral GWAS of alcohol dependence reveals common genetic underpinnings with psychiatric disorders. Nature Neuroscience, 21(12), 1656-1669. doi: 10.1038/s41593-018-0275-1

Turner, R., Brennan, S. O., Ashby, L. V., Dickerhof, N., Hamzah, M. R., Pearson, J. F., Stamp, L. K., & Kettle, A. J. (2018). Conjugation of urate-derived electrophiles to proteins during normal metabolism and inflammation. Journal of Biological Chemistry, 293(51), 19886-19898. doi: 10.1074/jbc.RA118.005237

Thornton, L. M., Munn-Chernoff, M. A., Baker, J. H., Juréus, A., Parker, R., Henders, A. K., … Horwood, L. J., Boden, J. M., Pearson, J. F., … Jordan, J., Kennedy, M. A., … Bulik, C. M. (2018). The Anorexia Nervosa Genetics Initiative (ANGI): Overview and methods. Contemporary Clinical Trials, 74, 61-69. doi: 10.1016/j.cct.2018.09.015

Purcell, R. V., Kaakoush, N. O., Mitchell, H. M., Pearson, J. F., & Keenan, J. I. (2018). Gastrointestinal pathobionts in pediatric Crohn's disease patients. International Journal of Microbiology, 2018, 9203908. doi: 10.1155/2018/9203908

Lattimore, V. L., Pearson, J. F., Currie, M. J., Spurdle, A. B., kConFab Investigators, Robinson, B. A., & Walker, L. C. (2018). Investigation of experimental factors that underlie BRCA1/2 mRNA isoform expression variation: Recommendations for utilising targeted RNA sequencing to evaluate potential spliceogenic variants. Frontiers in Oncology, 8, 140. doi: 10.3389/fonc.2018.00140

Newlands, S., Dickson, J., Pearson, J., Mansell, C., & Wilson, G. (2018). Neonatal conjunctivitis in the New Zealand Midland region. New Zealand Medical Journal, 131(1486), 9-17. Retrieved from https://www.nzma.org.nz/journal

Pearson, J. F., Alla, S., Clarke, G., Mason, D. F., Anderson, T., Richardson, A., Miller, D. H., … Abernethy, D. A., … Taylor, B. V. (2017). Multiple sclerosis impact on employment and income in New Zealand. Acta Neurologica Scandinavica, 136(3), 223-232. doi: 10.1111/ane.12714

Maggo, S. D. S., Chua, E. W., Chin, P., Cree, S., Pearson, J., Doogue, M., & Kennedy, M. A. (2017). A New Zealand platform to enable genetic investigation of adverse drug reactions. New Zealand Medical Journal, 130(1466), 62-69. Retrieved from http://www.nzma.org.nz/journal

Grant, E., Gearry, R. B., Wilson, R., Pearson, J., & Skidmore, P. M. L. (2017). Home availability of fruit and vegetables and obesogenic foods as an indicator of nutrient intake in 50 year olds from Canterbury, New Zealand. Asia Pacific Journal of Clinical Nutrition, 26(3), 524-530. doi: 10.6133/apjcn.042016.11

Walker, L. C., Pearson, J. F., Wiggins, G. A. R., Giles, G. G., Hopper, J. L., & Southey, M. C. (2017). Increased genomic burden of germline copy number variants is associated with early onset breast cancer: Australian breast cancer family registry. Breast Cancer Research, 19, 30. doi: 10.1186/s13058-017-0825-6

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