The Rasch Sampler

The Rasch sampler is an efficient algorithm to sample binary matrices with given marginal sums. It is a Markov chain Monte Carlo (MCMC) algorithm. The program can handle matrices of up to 1024 rows and 64 columns. A special option allows to sample square matrices with given marginals and fixed main diagonal, a problem prominent in social network analysis. In all cases the stationary distribution is uniform. The user has control on the serial dependency. (authors' abstract

Some considerations on the partial credit model

The Partial Credit Model (PCM) is sometimes interpreted as a model for stepwise solution of polytomously scored items, where the item parameters are interpreted as difficulties of the steps. It is argued that this interpretation is not justified. A model for stepwise solution is discussed. It is shown that the PCM is suited to model sums of binary responses which are not supposed to be stochastically independent. As a practical result, a statistical test of stochastic independence in the Rasch model is derived.

Estuarine behaviour of European silver eel (<i>Anguilla anguilla</i>) in the Scheldt estuary

Estuaries are among the most productive ecosystems in the world and are characterised by high habitat diversity. As transition areas between inland rivers and the open sea, they function as transport zones for diadromous species like the European eel (Anguilla anguilla), a catadromous fish species that migrates to the Sargasso Sea for spawning. However, information on the migratory behaviour of eel in estuaries is scarce. Therefore, more insight is needed to efficiently restore and conserve the species. We tracked 47 eels with acoustic telemetry between July 2012 and October 2015 and analysed their behaviour from the Braakman creek into the Scheldt Estuary, separated by a tidal barrier. Eels arrived in the Braakman between mid-summer and early winter and stayed there on average 44 days (0 - 578 days). As such, arrival in the Scheldt Estuary was much later: between early autumn and early winter. The average residence time in the Scheldt Estuary was considerably shorter than in the Braakman, and was only five days (0 - 64 days). The long residence time in the Braakman was probably due to the discontinuous operation of the tidal barrier, which is used to control the water level in the upstream wetland area. This resulted in a discontinuous flow conditions, leading to searching behaviour in eels. Eventually 37 eels did pass the sluice and reached the Scheldt Estuary; the 10 eels which did not pass the sluice were probably caught by a commercial eel fisherman in the Braakman creek. In the Scheldt Estuary, 26 eels migrated towards the sea, whereas eight took the opposite direction and three were only detected at the first receivers downstream of the sluice. The eight eels that did not migrate towards the sea showed estuarine retention behaviour. They could have been injured by the tidal barrier or missed the right moment to migrate, and could be waiting in the estuary until favourable conditions are met to proceed their journey. Our results indicate that eel migration is obstructed by a tidal barrier, which resulted in delayed eel migration. As the migratory period occurred from mid-summer to early winter, this information can be implemented in management plans such as environmental windows to open the sluice during eel migration if circumstances allow such measurements

A comparison of smooth basis constructions for isogeometric analysis

In order to perform isogeometric analysis with increased smoothness on complex domains, trimming, variational coupling or unstructured spline methods can be used. The latter two classes of methods require a multi-patch segmentation of the domain, and provide continuous bases along patch interfaces. In the context of shell modeling, variational methods are widely used, whereas the application of unstructured spline methods on shell problems is rather scarce. In this paper, we therefore provide a qualitative and a quantitative comparison of a selection of unstructured spline constructions, in particular the D-Patch, Almost-$C^1$, Analysis-Suitable $G^1$ and the Approximate $C^1$ constructions. Using this comparison, we aim to provide insight into the selection of methods for practical problems, as well as directions for future research. In the qualitative comparison, the properties of each method are evaluated and compared. In the quantitative comparison, a selection of numerical examples is used to highlight different advantages and disadvantages of each method. In the latter, comparison with weak coupling methods such as Nitsche's method or penalty methods is made as well. In brief, it is concluded that the Approximate $C^1$ and Analysis-Suitable $G^1$ converge optimally in the analysis of a bi-harmonic problem, without the need of special refinement procedures. Furthermore, these methods provide accurate stress fields. On the other hand, the Almost-$C^1$ and D-Patch provide relatively easy construction on complex geometries. The Almost-$C^1$ method does not have limitations on the valence of boundary vertices, unlike the D-Patch, but is only applicable to biquadratic local bases. Following from these conclusions, future research directions are proposed, for example towards making the Approximate $C^1$ and Analysis-Suitable $G^1$ applicable to more complex geometries

Differential effects of Atomoxetine on executive functioning and lexical decision in Attention-Deficit/Hyperactivity Disorder and Reading Disorder

Objective: The effects of a promising pharmacological treatment for attention-deficit/hyperactivity disorder (ADHD), atomoxetine, were studied on executive functions in both ADHD and reading disorder (RD) because earlier research demonstrated an overlap in executive functioning deficits in both disorders. In addition, the effects of atomoxetine were explored on lexical decision. Methods: Sixteen children with ADHD, 20 children with ADHD + RD, 21 children with RD, and 26 normal controls were enrolled in a randomized placebo-controlled crossover study. Children were measured on visuospatial working memory, inhibition, and lexical decision on the day of randomization and following two 28-day medication periods. Results: Children with ADHD + RD showed improved visuospatial working memory performance and, to a lesser extent, improved inhibition following atomoxetine treatment compared to placebo. No differential effects of atomoxetine were found for lexical decision in comparison to placebo. In addition, no effects of atomoxetine were demonstrated in the ADHD and RD groups. Conclusion: Atomoxetine improved visuospatial working memory and to a lesser degree inhibition in children with ADHD + RD, which suggests differential developmental pathways for co-morbid ADHD + RD as compared to ADHD and RD alone

Genotype-Phenotype Correlation in NF1: Evidence for a More Severe Phenotype Associated with Missense Mutations Affecting NF1 Codons 844–848

Neurofibromatosis type 1 (NF1), a common genetic disorder with a birth incidence of 1:2,000–3,000, is characterized by a highly variable clinical presentation. To date, only two clinically relevant intragenic genotype-phenotype correlations have been reported for NF1 missense mutations affecting p.Arg1809 and a single amino acid deletion p.Met922del. Both variants predispose to a distinct mild NF1 phenotype with neither externally visible cutaneous/plexiform neurofibromas nor other tumors. Here, we report 162 individuals (129 unrelated probands and 33 affected relatives) heterozygous for a constitutional missense mutation affecting one of five neighboring NF1 codons—Leu844, Cys845, Ala846, Leu847, and Gly848—located in the cysteine-serine-rich domain (CSRD). Collectively, these recurrent missense mutations affect ∼0.8% of unrelated NF1 mutation-positive probands in the University of Alabama at Birmingham (UAB) cohort. Major superficial plexiform neurofibromas and symptomatic spinal neurofibromas were more prevalent in these individuals compared with classic NF1-affected cohorts (both p < 0.0001). Nearly half of the individuals had symptomatic or asymptomatic optic pathway gliomas and/or skeletal abnormalities. Additionally, variants in this region seem to confer a high predisposition to develop malignancies compared with the general NF1-affected population (p = 0.0061). Our results demonstrate that these NF1 missense mutations, although located outside the GAP-related domain, may be an important risk factor for a severe presentation. A genotype-phenotype correlation at the NF1 region 844–848 exists and will be valuable in the management and genetic counseling of a significant number of individuals

Deregulated expression of TANK in glioblastomas triggers pro-tumorigenic ERK1/2 and AKT signaling pathways

Signal transmission by the noncanonical IkappaB kinases (IKKs), TANK-binding kinase 1 (TBK1) and IKKɛ, requires interaction with adapter proteins such as TRAF associated NF-κB activator (TANK). Although increased expression or dysregulation of both kinases has been described for a variety of human cancers, this study shows that deregulated expression of the TANK protein is frequently occurring in glioblastomas (GBMs). The functional relevance of TANK was analyzed in a panel of GBM-derived cell lines and revealed that knockdown of TANK arrests cells in the S-phase and prohibits tumor cell migration. Deregulated TANK expression affects several signaling pathways controlling cell proliferation and the inflammatory response. Interference with stoichiometrically assembled signaling complexes by overexpression or silencing of TANK prevented constitutive interferon-regulatory factor 3 (IRF3) phosphorylation. Knockdown of TANK frequently prevents constitutive activation of extracellular signal-regulated kinases 1 and 2 (ERK1/2). TANK-mediated ERK1/2 activation is independent from the canonical MAP kinase or ERK kinase (MEK) 1/2-mediated pathway and utilizes an alternative pathway that uses a TBK1/IKKɛ/Akt signaling axis, thus identifying a novel pathway suitable to block constitutive ERK1/2 activity.Peer reviewe

Batumi Raptor Count: autumn raptor migration count data from the Batumi bottleneck, Republic of Georgia

One of the most important geographical bottlenecks for migrating raptors in the east African-Palearctic migration system is situated between the easternmost tip of the Black Sea and the Lesser Caucasus, just north of Batumi, in the Republic of Georgia. Since 2008, citizen scientists of the Batumi Raptor Count (BRC) have monitored the autumn raptor passage daily from mid-August until mid-October, collecting also detailed information about the age and sex of focal species. The full BRC dataset was recently made available through the Global Biodiversity Information Facility (GBIF). Here we describe how count data were collected, managed, and processed for trend analysis over the past 10 years. This dataset offers a unique baseline for monitoring the state of migrant raptor populations in the east African-Palearctic flyway in the 21st century. We discuss potential pitfalls for users and hope that the open access publication of our data will stimulate flyway-scale and continent-wide collaboration for raptor migration monitoring in the Old World