Publications

(2020). The tuatara genome reveals ancient features of amniote evolution. Nature 584:403-09.

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(2020). The effect of compound kushen injection on cancer cells: Integrated identification of candidate molecular mechanisms. PLoS ONE 15(7):e0236395.

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(2018). Horizontal transfer of BovB and L1 retrotransposons in eukaryotes. Genome biology 19:85.

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(2018). Transposable elements and gene expression during the evolution of amniotes. Mobile DNA 9:17.

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(2018). Divergent genome evolution caused by regional variation in DNA gain and loss between human and mouse. PLoS computational biology 14:e1006091.

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(2018). Superior ab initio identification, annotation and characterisation of TEs and segmental duplications from genome assemblies. PLoS One 13:e0193588.

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(2018). A comprehensive genomic history of extinct and living elephants. PNAS 115:E2566-E2574.

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(2018). arrgh: a Go interface to the OpenCPU R server system. The Journal of Open Source Software.

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(2017). Similar evolutionary trajectories for retrotransposon accumulation in mammals. Genome Biology and Evolution 9:2336-2353.

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(2017). bíogo/ncbi: interfaces to NCBI services for the Go language. The Journal of Open Source Software.

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(2017). Understanding the effectiveness of natural compound mixtures in cancer through their molecular mode of action. Int. J. Mol. Sci. 18:656.

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(2017). bíogo: a simple high-performance bioinformatics toolkit for the Go language. The Journal of Open Source Software.

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(2017). bíogo/hts: high throughput sequence handling for the Go language. The Journal of Open Source Software.

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(2016). LINEs between species: Evolutionary dynamics of LINE-1 retrotransposons across the eukaryotic tree of life. Genome Biology and Evolution 8:3301-3322.

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(2016). Identification of candidate anti-cancer molecular mechanisms of Compound Kushen Injection using functional genomics. Oncotarget 7:66003–66019.

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(2015). HENMT1 and piRNA stability are required for adult male germ cell transposon repression and to define the spermatogenic program in the mouse. PLoS Genetics 11:e1005620.

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(2013). Jumping the fine LINE between species: Horizontal transfer of transposable elements in animals catalyses genome evolution. BioEssays 35:1071–1082.

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(2013). Contextual models and the non-Newtonian paradigm. Progress in Biophysics and Molecular Biology 112:97-107.

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(2013). A comparative analysis of algorithms for somatic SNV detection in cancer. Bioinformatics 29:2223-2230.

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(2012). Widespread horizontal transfer of retrotransposons. PNAS 110:1012-1016.

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(2012). Identification of mediator complex 26 (Crsp7) gametologs on platypus X1 and Y5 sex chromosomes: a candidate testis-determining gene in monotremes?. Chromosome Research 20:127-138.

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(2009). Analysis of SINE and LINE repeat content of Y chromosomes in the platypus, Ornithorhynchus anatinus. Reproduction, Fertility and Development 21:964-975.

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(2003). EST analysis of the Cnidarian Acropora millepora reveals extensive gene loss and rapid sequence divergence in the model invertebrates. Current Biology 13:2190-2195.

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(2001). Evolutionary analysis of vertebrate Notch genes. Development Genes and Evolution 211:350-354.

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(2000). ARID proteins come in from the desert. Trends in Biochemical Sciences 25:294-299.

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(1996). Characterization of the dead ringer gene identifies a novel, highly conserved family of sequence-specific DNA-binding proteins. Molecular and Cellular Biology 16:792-799.

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