Ranking of microRNA target prediction scores by Pareto front analysis

Over the past ten years, a variety of microRNA target prediction methods has been developed, and many of the methods are constantly improved and adapted to recent insights into miRNA-mRNA interactions. In a typical scenario, different methods return different rankings of putative targets, even if the ranking is reduced to selected mRNAs that are related to a specific disease or cell type. For the experimental validation it is then difficult to decide in which order to process the predicted miRNA-mRNA bindings, since each validation is a laborious task and therefore only a limited number of mRNAs can be analysed. We propose a new ranking scheme that combines ranked predictions from several methods and - unlike standard thresholding methods - utilises the concept of Pareto fronts as defined in multi-objective optimisation. In the present study, we attempt a proof of concept by applying the new ranking scheme to hsa-miR-21, hsa-miR-125b, and hsa-miR-373 and prediction scores supplied by PITA and RNAhybrid. The scores are interpreted as a two-objective optimisation problem, and the elements of the Pareto front are ranked by the STarMir score with a subsequent re-calculation of the Pareto front after removal of the top-ranked mRNA from the basic set of prediction scores. The method is evaluated on validated targets of the three miRNA, and the ranking is compared to scores from DIANA-microT and TargetScan. We observed that the new ranking method performs well and consistent, and the first validated targets are elements of Pareto fronts at a relatively early stage of the recurrent procedure. which encourages further research towards a higher-dimensional analysis of Pareto fronts. (C) 2010 Elsevier Ltd. All rights reserved.

Laser-driven quasimonoenergetic proton burst from water spray target

A narrow band proton bursts at energies of 1.6 +/- 0.08 MeV were observed when a water spray consisting of empty set(150 nm)-diameter droplets was irradiated by an ultrashort laser pulse of about 45 fs duration and at an intensity of 5 X 10(19) W/cm(2). The results are explained by a Coulomb explosion of sub-laser-wavelength droplets composed of two ion species. The laser prepulse plays an important role. By pre-evaporation of the droplets, its diameter is reduced so that the main pulse can interact with a smaller droplet, and this remaining bulk can be ionized to high states. In the case of water, the mixture of quite differently charged ions establishes an