microRNAs (miRNAs) are short non-coding RNAs (ncRNAs) that act as post-transcriptional regulators of coding gene expression. Long non-coding RNAs (lncRNAs) have been recently reported to interact with miRNAs. The sponge-like function of lncRNAs introduces an extra layer of complexity in the miRNA interactome. DIANA-LncBase v1 provided a database of experimentally supported and in silico predicted miRNA Recognition Elements (MREs) on lncRNAs. The second version of LncBase (www.microrna.gr/LncBase) presents an extensive collection of miRNA:lncRNA interactions. The significantly enhanced database includes more than 70 000 low and high-throughput, (in)direct miRNA:lncRNA experimentally supported interactions, derived from manually curated publications and the analysis of 153 AGO CLIP-Seq libraries. The new experimental module presents a 14-fold increase compared to the previous release. LncBase v2 hosts in silico predicted miRNA targets on lncRNAs, identified with the DIANA-microT algorithm. The relevant module provides millions of predicted miRNA binding sites, accompanied with detailed metadata and MRE conservation metrics. LncBase v2 caters information regarding cell type specific miRNA:lncRNA regulation and enables users to easily identify interactions in 66 different cell types, spanning 36 tissues for human and mouse. Database entries are also supported by accurate lncRNA expression information, derived from the analysis of more than 6 billion RNA-Seq reads.
Numerical weather prediction applications require considerable processing power and data storage resources, and thus can benefit from the offerings of Grid technologies. In this paper we discuss the porting of such an application on the Grid infrastructure provided by the SEE-GRID-SCI European research project. This study explores the regional ensemble forecasting technique as a means to contribute to the improvement of weather forecasting in the Mediterranean. Indeed, a regional ensemble system was built, based on the use of two limited area models that are run using a multitude on initial and boundary conditions over the Mediterranean. This largescale application involves the use of large infrastructures that are not easily available and thus its porting to the Grid at production level has been proved to be a challenging endeavour. The application workflow, the operational and Grid infrastructure requirements, and also the problems encountered are presented. Multiple requirements mainly related to the characteristics of the implemented workflow, the model characteristics and the limitations imposed by the Grid infrastructure itself, had to be satisfied. The paper concludes with a recent result of the implemented application. Indeed the regional scale ensemble forecasting system provided useful probabilistic forecasts for a severe thunderstorm case that affected Central Europe during the summer 2009 (with damages, casualties and several injuries).
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