Everything in moderation: new Polis research project on online journalism (guest blog)

Sanna Trygg is a Swedish journalist who is coming to Polis for a Jornalistfonden fellowship in November to investigate policies in online newspapers both in Sweden and the UK. She will use these policies concerning moderation of comment fields to make a wider analyze of the power relation between readers and journalists. The report will also discuss the concept of freedom of speech in modern media ( especially in Sweden and the UK). Details of Sanna and her project at the end of this article where she explains her investigation

Why do we moderate news websites? (new LSE research project)

Why do we moderate websites? We held a research seminar on Chatham House rules with a great group of website editors from across the news media spectrum as well as some other academics and analysts. This report is by Sanna Trygg, a visiting research fellow who is heading up this project

Is comment free? Ethical, editorial and political problems of moderating online news

Polis visiting research fellow Sanna Trygg explores why we moderate public comment and the effects of different moderation policies

Common and Distinct Components in Data Fusion

In many areas of science multiple sets of data are collected pertaining to the same system. Examples are food products which are characterized by different sets of variables, bio-processes which are on-line sampled with different instruments, or biological systems of which different genomics measurements are obtained. Data fusion is concerned with analyzing such sets of data simultaneously to arrive at a global view of the system under study. One of the upcoming areas of data fusion is exploring whether the data sets have something in common or not. This gives insight into common and distinct variation in each data set, thereby facilitating understanding the relationships between the data sets. Unfortunately, research on methods to distinguish common and distinct components is fragmented, both in terminology as well as in methods: there is no common ground which hampers comparing methods and understanding their relative merits. This paper provides a unifying framework for this subfield of data fusion by using rigorous arguments from linear algebra. The most frequently used methods for distinguishing common and distinct components are explained in this framework and some practical examples are given of these methods in the areas of (medical) biology and food science.Comment: 50 pages, 12 figure

K-OPLS package: Kernel-based orthogonal projections to latent structures for prediction and interpretation in feature space

Background: Kernel-based classification and regression methods have been successfully applied to modelling a wide variety of biological data. The Kernel-based Orthogonal Projections to Latent Structures (K-OPLS) method offers unique properties facilitating separate modelling of predictive variation and structured noise in the feature space. While providing prediction results similar to other kernel-based methods, K-OPLS features enhanced interpretational capabilities; allowing detection of unanticipated systematic variation in the data such as instrumental drift, batch variability or unexpected biological variation. Results: We demonstrate an implementation of the K-OPLS algorithm for MATLAB and R, licensed under the GNU GPL and available at http://www.sourceforge.net/projects/kopls/. The package includes essential functionality and documentation for model evaluation (using cross-validation), training and prediction of future samples. Incorporated is also a set of diagnostic tools and plot functions to simplify the visualisation of data, e.g. for detecting trends or for identification of outlying samples. The utility of the software package is demonstrated by means of a metabolic profiling data set from a biological study of hybrid aspen. Conclusion: The properties of the K-OPLS method are well suited for analysis of biological data, which in conjunction with the availability of the outlined open-source package provides a comprehensive solution for kernel-based analysis in bioinformatics applications

First-principles calculation of x-ray dichroic spectra within the full-potential linearized augmented planewave method: An implementation into the Wien2k code

X-ray absorption and its dependence on the polarization of light is a powerful tool to investigate the orbital and spin moments of magnetic materials and their orientation relative to crystalline axes. Here, we present a program for the calculation of dichroic spectra from first principles. We have implemented the calculation of x-ray absorption spectra for left and right circularly polarized light into the Wien2k code. In this package, spin-density functional theory is applied in an all-electron scheme that allows to describe both core and valence electrons on the same footing. The matrix elements, which define the dependence of the photo absorption cross section on the polarization of light and on the sample magnetization, are computed within the dipole approximation. Results are presented for the L2,3 and M4,5 egdes of CeFe2 and compared to experiments

Band-theoretical prediction of magnetic anisotropy in uranium monochalcogenides

Magnetic anisotropy of uranium monochalcogenides, US, USe and UTe, is studied by means of fully-relativistic spin-polarized band structure calculations within the local spin-density approximation. It is found that the size of the magnetic anisotropy is fairly large (about 10 meV/unit formula), which is comparable with experiment. This strong anisotropy is discussed in view of a pseudo-gap formation, of which crucial ingredients are the exchange splitting of U 5f states and their hybridization with chalcogen p states (f-p hybridization). An anomalous trend in the anisotropy is found in the series (US>>USe<UTe) and interpreted in terms of competition between localization of the U 5f states and the f-p hybridization. It is the spin-orbit interaction on the chalcogen p states that plays an essential role in enlarging the strength of the f-p hybridization in UTe, leading to an anomalous systematic trend in the magnetic anisotropy.Comment: 4 pages, 5 figure

Bit errors in the Kirchhoff-Law–Johnson-Noise secure key exchange

Background: Accuracy in malaria diagnosis and staging is vital in order to reduce mortality and post infectious sequelae. Herein we present a metabolomics approach to diagnostic staging of malaria infection, specifically Plasmodium falciparum infection in children. Methods: A group of 421 patients between six months and six years of age with mild and severe states of malaria with age-matched controls were included in the study, 107, 192 and 122 individuals respectively. A multivariate design was used as basis for representative selection of twenty patients in each category. Patient plasma was subjected to Gas Chromatography-Mass Spectrometry analysis and a full metabolite profile was produced from each patient. In addition, a proof-of-concept model was tested in a Plasmodium berghei in-vivo model where metabolic profiles were discernible over time of infection. Results: A two-component principal component analysis (PCA) revealed that the patients could be separated into disease categories according to metabolite profiles, independently of any clinical information. Furthermore, two sub-groups could be identified in the mild malaria cohort who we believe represent patients with divergent prognoses. Conclusion: Metabolite signature profiling could be used both for decision support in disease staging and prognostication

Metabolite Signature during Short-Day Induced Growth Cessation in Populus

The photoperiod is an important environmental signal for plants, and influences a wide range of physiological processes. For woody species in northern latitudes, cessation of growth is induced by short photoperiods. In many plant species, short photoperiods stop elongational growth after a few weeks. It is known that plant daylength detection is mediated by Phytochrome A (PHYA) in the woody hybrid aspen species. However, the mechanism of dormancy involving primary metabolism remains unclear. We studied changes in metabolite profiles in hybrid aspen leaves (young, middle, and mature leaves) during short-day-induced growth cessation, using a combination of gas chromatography–time-of-flight mass spectrometry, and multivariate projection methods. Our results indicate that the metabolite profiles in mature source leaves rapidly change when the photoperiod changes. In contrast, the differences in young sink leaves grown under long and short-day conditions are less distinct. We found short daylength induced growth cessation in aspen was associated with rapid changes in the distribution and levels of diverse primary metabolites. In addition, we conducted metabolite profiling of leaves of PHYA overexpressor (PHYAOX) and those of the control to find the discriminative metabolites between PHYAOX and the control under the short-day conditions. The metabolite changes observed in PHYAOX leaves, together with those in the source leaves, identified possible candidates for the metabolite signature (e.g., 2-oxo-glutarate, spermidine, putrescine, 4-amino-butyrate, and tryptophan) during short-day-induced growth cessation in aspen leaves