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This dataset provides predictions of pelagic vertebrate species richness and relative abundance throughout sub-areas of the Oceanic Shoals Australian Marine Park (AMP). Predictive models were constructed from in situ observations made using mid-water stereo-BRUVS (baited remote underwater video systems) deployed at 116 sites within three sampling areas in the western half of the AMP. Sampling took place in September and October 2012 aboard the RV Solander (survey GA0339/SOL5650), as part of an expedition supported by the National Environmental Research Programme's Marine Biodiversity Hub (Theme 3). Expedition partners included the Australian Institute of Marine Science (AIMS), Geoscience Australia (GA), The Centre for Marine Futures at the University of Western Australia (UWA), and the Northern Territory Museum. Full methodological details can be found in the following peer-reviewed publication: Bouchet, P.J., Letessier, T.B., Caley, M.J., Nichol, S.L., Hemmi, J.M., Meeuwig, J. (2020). Submerged carbonate banks aggregate pelagic megafauna in offshore tropical Australia. Front. Mar. Sci. doi: 10.3389/fmars.2020.00530