Dr Timothy Peters

Bioinformatics Research Officer - Immunogenomics

Dr Timothy Peters

Tim’s background is in bioinformatics and applied statistics. He completed a PhD on the principles of statistical learning for transcriptomic data in the Department of Statistics at Macquarie University in 2012. He has worked as a Postdoctoral Fellow at CSIRO on the EpiSCOPE project: mapping the epi

Biography

Tim’s background is in bioinformatics and applied statistics. He completed a PhD on the principles of statistical learning for transcriptomic data in the Department of Statistics at Macquarie University in 2012.

He has worked as a Postdoctoral Fellow at CSIRO on the EpiSCOPE project: mapping the epigenetic terrain of human adipocytes, performing statistical analyses for human EWASs (epigenome wide association studies) and has published a novel method for statistical inference of whole-methylome data

In addition, he has spoken at a number of national and international conferences, including an oral presentation at the Joint Statistical Meetings (JSM) in Washington, DC.

Tim’s background is in bioinformatics and applied statistics. He completed a PhD on the principles of statistical learning for transcriptomic data in the Department of Statistics at Macquarie University in 2012.

He has worked as a Postdoctoral Fellow at CSIRO on the EpiSCOPE project: mapping the epigenetic terrain of human adipocytes, performing statistical analyses for human EWASs (epigenome wide association studies) and has published a novel method for statistical inference of whole-methylome data

In addition, he has spoken at a number of national and international conferences, including an oral presentation at the Joint Statistical Meetings (JSM) in Washington, DC.

Education

2012 – PhD, Macquarie University – Australia
2005 – BSc (Bioinformatics)(Hons), University of Sydney – Australia

Selected Publications

Peters T.J., French H.J., Bradford S.T., Pidsley R., Stirzaker C., Varinli H., Nair S., Qu W., Song J., Giles K.A., Statham A.L., Speirs H., Speed T.P. and Clark S.J. (2019). Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements. Bioinformatics, 35(4), 560–570.

Du Q., Bert S.A., Armstrong N.J., Caldon C.E., Song J, Nair S.S., Gould C.M., Luu P-L., Peters T., Khoury A., Qu W., Zotenko E., Stirzaker C. and Clark S.J. (2019). Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer. Nature Communications, 10(1), 416.

Skvortsova K., Masle-Farquhar E., Luu P-L., Song J.Z., Qu W., Zotenko E., Gould C.M., Du Q., Peters T.J., Colino-Sanguino Y., Pidsley R., Nair S.S., Khoury A., Smith G.C., Miosge L.A., Reed J.H., Kench J.G., Rubin M.A. and Clark S.J. (2019). DNA Hypermethylation Encroachment at CpG Island Borders in Cancer Is Predisposed by H3K4 Monomethylation Patterns. Cancer Cell, 35(2), 297–314.e8.

van Dijk, S.J., Peters, T.J., Buckley, M., Zhou, J., Jones, P.A., Gibson, R.A., Makrides, M., Muhlhausler, B.H. and Molloy, P.L. (2018). DNA methylation in blood from neonatal screening cards and the association with BMI and insulin sensitivity in early childhood. International Journal of Obesity, 42(1), 28–35. 

Pidsley, R., Lawrence, M.G., Zotenko, E., Niranjan, B., Statham, A., Song, J., Chabanon, R.M., Qu, W., Wang, H., Richards, M., Nair, S.S., Armstrong, N.J., Nim, H.T., Papargiris, M., Balanathan, P., French, H., Peters, T., Norden, S., Ryan, A., Pedersen, J., Kench, J., Daly, R.J., Horvath, L.G., Stricker, P., Frydenberg, M., Taylor, R.A., Stirzaker, C., Risbridger, G.P. and Clark S.J. (2018). Enduring epigenetic landmarks define the cancer microenvironment. Genome Research, 28(5), 625–638. 

Maag, J. L. V, Kaczorowski, D. C., Panja, D., Peters, T. J., Bramham, C. R., Wibrand, K., & Dinger, M. E. (2017). Widespread promoter methylation of synaptic plasticity genes in long-term potentiation in the adult brain in vivo. BMC Genomics, 18(1), 250. 

van Dijk, S. J., Zhou, J., Peters, T. J., Buckley, M., Sutcliffe, B., Oytam, Y., Gibson, R.A., McPhee, A., Yelland, L.N., Makrides, M., P. L. Molloy and B. S. Muhlhausler. (2016). Effect of prenatal DHA supplementation on the infant epigenome: results from a randomized controlled trial. Clinical Epigenetics, 8(1), 114. 

Pidsley, R., Zotenko, E., Peters, T. J., Lawrence, M. G., Risbridger, G. P., Molloy, P., Van Dijk, S., Muhlhausler, B., Stirzaker, C. and S.J. Clark. (2016). Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling. Genome Biology17(1), 208. 

Peters T.J., Buckley M.J., Statham A.L., Pidsley R., Samaras K., Lord R.V., Clark S.J. and P.L. Molloy (2015). De novo identification of differentially methylated regions in the human genome. Epigenetics & Chromatin, 8:6.

Hallwirth, C. V, Garg, G., Peters, T. J., Kramer, B. A., Malani, N. V, Hyman, J., Ruan, X., Ginn, S.L., Hetherington, N.A., Veeravalli, L., Shahab, A., Ranganathan, S., Wei, C.L., Liddle, C., Thrasher, A.J., Bushman, F.D., Buckley M. J. and I.E. Alexander. (2015). Coherence analysis discriminates between retroviral integration patterns in CD34(+) cells transduced under differing clinical trial conditions. Molecular Therapy. Methods & Clinical Development, 2, 15015. 

Peters T., Bulger D.W., Loi T.-H., Yang J.Y.H., and D. Ma (2011). Two-step cross-entropy feature selection for microarrays—power through complementarity. IEEE/ACM Trans Comput Biol Bioinform. 8(4):1148-51