TRE-FX:Delivering a federated network of trusted research environments to enable safe data analytics

Trusted Research Environments (TREs) are secure locations in which data are placed for researchers to analyse. TREs host administrative data, hospital data or any other data that needs to remain securely isolated, but it is hard for a researcher to perform an analysis across multiple TREs, requesting and gathering the outputs from each one. This is a common problem in the UK's devolved healthcare system of geographical and governance boundaries. There are different ways of implementing TREs and the analysis tools that use them. A solution must be straightforward for existing, independent systems to adopt, must cope with the variety of system implementations, and must work within the "Five Safes" framework that enables data services to provide safe research access to data. TRE-FX assembled leading infrastructure researchers, analysis tool makers, TRE providers and public engagement specialists to streamline the exchange of data requests and results. The "Five Safes RO-Crate" standard packages up (Crates) the Objects needed for Research requests and results with the information needed for the tools and TRE providers to ensure that the crates are reviewed and processed according to Five Safes principles. TRE-FX showed how this works using software components and an end-to-end demonstrator implemented by a TRE in Wales. Two other TREs, in Scotland and England, are preparing to follow suit. Two analysis tool providers (Bitfount and DataSHIELD) modified their systems to use the RO-Crates. The next step is practical implementation as part of the HDR UK programme. Two large European projects will develop the approach further. TRE-FX shows that it is possible to streamline how analysis tools access multiple TREs while enabling the TREs to ensure that the access is safe. The approach scales as more TREs are added and can be adopted by established systems. Researchers will then be able to perform an analysis across multiple TREs much more easily, widening the scope of their research and making more effective use of the UK's data. If we had had this for COVID-19 data analysis, it would have super-charged researchers to be able to quickly answer pressing questions across the UK. This work was funded by UK Research & Innovation [Grant Number MC_PC_23007] as part of Phase 1 of the DARE UK (Data and Analytics Research Environments UK) programme, delivered in partnership with Health Data Research UK (HDR UK) and Administrative Data Research UK (ADR UK)

Monitoring holopelagic Sargassum spp. along the Mexican Caribbean coast: understanding and addressing user requirements for satellite remote sensing

Massive influxes of holopelagic Sargassum spp. (Sargassum natans and S. fluitans) have been causing major economic, environmental and ecological problems along the Caribbean coast of Mexico. Predicting the arrival of the sargassum as an aid to addressing these problems is a priority for the government, coastal communities and the society; both mitigating the impacts and providing opportunities for its use. Lack of data concerning precise locations and times of sargassum beachings means that public and private funds are being spent inefficiently and most actions are reactive. The dynamic nature of sargassum beachings/influxes render conventional ground-based monitoring insufficient. Earth observation and cloud-based processing services offer tools to track, quantify and understand sargassum beaching remotely in a frequent, systematic and reliable manner with the temporal and spatial resolutions required for its management. In order to find the right solutions to address this problem, in this paper the needs and requirements of stakeholders are taken into consideration for the development of an Earth observation-based service to monitor sargassum along the Mexican Caribbean coast. Routine monitoring of sargassum over a large area will be cost effective and help mitigate the negative effects of sargassum influxes. The combination of imagery from Planet, specifically their SuperDove systems that provide daily data at 3 m spatial resolutions, with the freely available EU Copernicus data would be useful for many different stakeholders and potential users. A prototype of the service is presented, based on the main user requirements. The system would enable public and private organizations to allocate resources appropriately in affected areas quickly and efficiently, thereby minimizing economic, social and environmental impacts and enhancing the resilience of local communities. It would also assist the sargassum industry in the collection of fresh algae for onward processing. The system could easily be implemented for similar types of environmental monitoring in the Greater Caribbean and beyond

Delimiting zoogeographic centres for South African Orthoptera

Biogeography attempts to find explanations for the distributions of species, based on their past histories and present environmental conditions. Historically, biogeographic studies were modelled on intuitive and expert knowledge, whereas recent studies have advanced with the aid of digitised natural history collections, computational power and repeatable methods. In South Africa, biogeographical studies on insects are greatly lacking and very little is known about the zoogeographic patterns for many insect groups in the region. South Africa has a high level of diversity and endemism of orthopterans (> 800 species), making them an ideal group to investigate zoogeographic patterns. The aim of this study was to identify and describe the zoogeographical patterns of South Africa’s orthopteran species, based on the distributions and levels of diversity of all major families. Point locality data was used to conduct a hierarchical cluster analysis based on the shared presence of species to delimit zoogeographical centres. In addition, delimited centres were compared to plant-based biomes and phytogeographic regions. Results showed that orthopteran species richness was evenly distributed across the region and clustered into six zoogeographical centres. There was a primary split, separating species into a western winter-rainfall and an eastern summer-rainfall group. The western and eastern regions contained three centres each, with the east being less diverse and taxonomically distinctive than the west. Strong consensus was seen between orthopterans and the Greater Cape Floristic Region, and between orthopterans and the Cape zoogeographic region for butterflies, reinforcing the notion that this region is representative of a biochorion. In addition, this region had the greatest numbers of orthopteran families, highlighting its importance for orthopteran diversification

TRE-FX: Delivering a federated network of trusted research environments to enable safe data analytics

<p>Trusted Research Environments (TREs) are secure locations in which data are placed for researchers to analyse. TREs host administrative data, hospital data or any other data that needs to remain securely isolated, but it is hard for a researcher to perform an analysis across multiple TREs, requesting and gathering the outputs from each one. This is a common problem in the UK's devolved healthcare system of geographical and governance boundaries. </p><p>There are different ways of implementing TREs and the analysis tools that use them. A solution must be straightforward for existing, independent systems to adopt, must cope with the variety of system implementations, and must work within the "Five Safes" framework that enables data services to provide safe research access to data. </p><p>TRE-FX assembled leading infrastructure researchers, analysis tool makers, TRE providers and public engagement specialists to streamline the exchange of data requests and results. The "Five Safes RO-Crate" standard packages up (Crates) the Objects needed for Research requests and results with the information needed for the tools and TRE providers to ensure that the crates are reviewed and processed according to Five Safes principles. TRE-FX showed how this works using software components and an end-to-end demonstrator implemented by a TRE in Wales. Two other TREs, in Scotland and England, are preparing to follow suit. Two analysis tool providers (Bitfount and DataSHIELD) modified their systems to use the RO-Crates. The next step is practical implementation as part of the HDR UK programme. Two large European projects will develop the approach further. </p><p><strong>TRE-FX shows that it is possible to streamline how analysis tools access multiple TREs while enabling the TREs to ensure that the access is safe. </strong>The approach scales as more TREs are added and can be adopted by established systems. Researchers will then be able to perform an analysis across multiple TREs much more easily, widening the scope of their research and making more effective use of the UK's data. If we had had this for COVID-19 data analysis, it would have super-charged researchers to be able to quickly answer pressing questions across the UK. </p><p>This work was funded by UK Research & Innovation [Grant Number MC_PC_23007] as part of Phase 1 of the DARE UK (Data and Analytics Research Environments UK) programme, delivered in partnership with Health Data Research UK (HDR UK) and Administrative Data Research UK (ADR UK). </p&gt