I work closely with lab-based researchers to help them interpret genetic and genomic data, and develop statistical methods that provide new insights into the genetic basis of health and disease. I have strong experience in bioinformatics analysis, for bulk sequencing data (RNAseq, ATACseq, ChIPseq, WGS, and ExomeSeq), single-cell sequencing data (RNAseq, ATACseq, and WGS), and spatial transcriptomics.
I have developed several statistical and bioinformatic methods (R packages) for analysing Illumina SNP arrays and RNAseq data. I am also interested in developing methods for statistical modelling for NGS, and image-based technologies.
Currently, my work focuses on: 1) integrating imaging and sequencing platforms to find gene expression and genetic variant patterns that may guide future research into the causes of cancers, and 2) developing tools for studying spatial organisation and dynamic changes at single-cell resolution.
Key achievements
2021-2023 Jack Brockhoff Foundation Early Career Medical Research Grant
2021-2022 SVI Rising Star Award
2019 Travel bursary Award, ISAG 2019
2018 Best poster Award, ISAFG 2018; Scherago International Student Travel Grants Award, PAG XXVI
2017-2019 Australia Research Training Program scholarship; Davies Research Special PhD Top-up Scholarship
2017 Travel Grant Award for Attending International conference, The University of Adelaide
2016 CSL Travel Award, ABACBS
Selected publications
Liu, R., Tearle R., Low WY., Chen, T.,Thomsen, D., Smith TPL., Hiendleder, S., Williams, JL. Distinctive gene expression patterns and imprinting signatures revealed in reciprocal crosses between cattle sub-species. BMC Genomics. 2021 Jun 3; 22(1):410.
Low, WY., Tearle, R., Liu, R., Koren, S., Rhie, A., Bickart, DM., Rosen, BD., Kronenberg, ZN., Kingan, SB., Tseng, E., Thibaud-Nissen, F., Martin, FJ., Billis, K., Ghurye, J., Hastie, AR., Lee, J., Pang, AWC., Heaton, MP., Phillippy, AM., Hiendleder, S., Smith TPL., Williams, JL. Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle. Nature Communications. 2020 Apr 29; 11(1):2071.
Liu, R., Low, WY., Tearle, R., Koren, S., Ghurye, J., Rhie, A., Phillippy, AM., Rosen, BD., Bickart, DM., Smith, TPL., Hiendleder, S., Williams, JL. New insights into mammalian sex chromosome structure and evolution using high-quality sequences from bovine X and Y chromosomes. BMC Genomics. 2019 Dec 19;20(1):1000.
Liu, R., Chen, K., Jansz, N., Blewitt, M., Ritchie, ME. Transcriptional profiling of the epigenetic regulator Smchd1. Genomics Data. 2016 Mar 7; 144-147
Liu, R., Holik, AZ., Su, S., Jansz, N., Chen, K., Leong, HS., Blewitt, ME., Asselin, ML., Smyth, GK., Ritchie, ME. Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses. Nucleic Acids Research. 2015 Sep 3;43(15): e97.
Liu, R., Dai, Z., Yeager, M., Irizarry, RA., Ritchie, ME. KRLMM: an adaptive genotype calling method for common and low frequency variants. BMC Bioinformatics. 2014 May 23; 15:158.
ORCID profile: https://orcid.org/0000-0002-1489-1022
Google Scholar profile: https://scholar.google.com.au/citations?user=fhOeX1sAAAAJ&hl=en