Protein structure analysis through Hough Transform and Range Tree

The Generalized Hough Transform (GHT) allows to recognize general patterns once defined a model to be recognized, a reference point (RP) rigid with the model, and a mapping rule. This rule establishes the contributions in the parameters space; this space, generally speaking, is given by the parameters of a rigid motion leading to overlap a model item with an equal item detected on the unknown pattern. In this paper we introduce the GHT applied to motifs, domains and entire proteins retrieval into a protein data base. The spatial attitude of a single protein secondary structure (SS) constitutes the item supporting the contributions. If the unknown pattern contains a block of N SS of the model to be recognized, the N corresponding votes will have a common point, so accumulating N contributions. An analysis of the neighborhoods around the areas with high contributions density is necessary. It is not sufficient and often inaccurate to limit the analysis to the peaks even if the number of contribution is closed to the expected one. Both convenient data structures for effectively operating in the neighborhoods (a range tree data structure) and suitable decision criteria have been introduced. Preliminary results of comparative analysis are given

Reallocation and secularization: the economic consequences of the Protestant Reformation

The Protestant Reformation, beginning in 1517, was both a shock to the market for religion and a first-order economic shock. We study its impact on the allocation of resources between the religious and secular sectors in Germany, collecting data on the allocation of human and physical capital. While Protestant reformers aimed to elevate the role of religion, we find that the Reformation produced rapid economic secularization. The interaction between religious competition and political economy explains the shift in investments in human and fixed capital away from the religious sector. Large numbers of monasteries were expropriated during the Reformation, particularly in Protestant regions. This transfer of resources shifted the demand for labor between religious and secular sectors: graduates from Protestant universities increasingly entered secular occupations. Consistent with forward-looking behavior, students at Protestant universities shifted from the study of theology toward secular degrees. The appropriation of resources by secular rulers is also reflected in construction: during the Reformation, religious construction declined, particularly in Protestant regions, while secular construction increased, especially for administrative purposes. Reallocation was not driven by pre-existing economic or cultural differences

The acoustically evoked short latency negative response (ASNR) in a unilaterally deaf cat with histologically-confirmed cochleosaccular degeneration

BACKGROUND: A negative potential is occasionally recorded in humans and animals with profound deafness during brainstem auditory evoked potential (BAER) tests if loud intensities are used. This acoustically evoked short latency negative response (ASNR) is hypothesized to be of saccular origin. The sensitivity to sound of vestibular end organs is also used to produce vestibular evoked myogenic potentials (VEMP), a test that evaluates vestibular function. The same saccular origin is accepted also for VEMP. CASE PRESENTATION: A neutered male white domestic short hair cat presented with profound deafness and an ASNR in the left ear during BAER test performed when he was 8 months old. BAER tracings were substantially unchanged at the age of 12 years, immediately before euthanasia that was requested by the owner for the presence of an unrelated neoplastic disorder. The cat underwent a complete post-mortem necropsy including histopathology of the middle and inner ears. Histopathologic results confirmed the presence of a cochleosaccular degeneration of the left ear while the cochlea and sacculus of the right ear and the utriculus and semicircular canals of both ears were histologically normal. CONCLUSIONS: This case report describes the auditory and histopathologic findings of a cat that showed an ASNR during BAER test despite the presence of cochleosaccular deafness. These results confirm that a saccular origin for the ASNR in this case, and in general in cats and dogs with congenital deafness associated with white pigmentation, is improbable. The hypothesis that the sacculus is the vestibular end organ responsible for the generation of the ASNR and VEMP in humans comes mainly from animal studies. The findings in this report may change the clinical interpretation of the results of BAER and VEMP not only in companion animals, but in humans as well

Exploring the meanings of community multimedia centers in Mozambique : a social representations perspective

This article presents extensive research conducted in Mozambique that aims to deeply understand how different social groups understand community multimedia centers (CMCs), which are structures combining a community radio and a telecenter. The social representations theory was adopted to interpret narratives of 231 interviewees from 10 Mozambican provinces. Interviewees included representatives of initiating agencies, local staff members, CMC users (both the radio and telecenter components), users of only the community radio, and community members not using the CMCs. Following the analysis of transcribed interviews, six main clusters were identified, each of them shedding light on a specific understanding of a CMC. These are discussed according to a set of sociodemographic variables. This study suggests that the social representations theory is a valuable framework to provide an integrated view of ICT4D interventions by giving a voice to local perspectives without overlooking the initiating agencies’ expectations

Robust fitting for generalized additive models for location, scale and shape

The validity of estimation and smoothing parameter selection for the wide class of generalized additive models for location, scale and shape (GAMLSS) relies on the correct specification of a likelihood function. Deviations from such assumption are known to mislead any likelihood-based inference and can hinder penalization schemes meant to ensure some degree of smoothness for nonlinear effects. We propose a general approach to achieve robustness in fitting GAMLSSs by limiting the contribution of observations with low log-likelihood values. Robust selection of the smoothing parameters can be carried out either by minimizing information criteria that naturally arise from the robustified likelihood or via an extended Fellner–Schall method. The latter allows for automatic smoothing parameter selection and is particularly advantageous in applications with multiple smoothing parameters. We also address the challenge of tuning robust estimators for models with nonlinear effects by proposing a novel median downweighting proportion criterion. This enables a fair comparison with existing robust estimators for the special case of generalized additive models, where our estimator competes favorably. The overall good performance of our proposal is illustrated by further simulations in the GAMLSS setting and by an application to functional magnetic resonance brain imaging using bivariate smoothing splines

A random-effects hurdle model for predicting bycatch of endangered marine species

Understanding and reducing the incidence of accidental bycatch, particularly for vulnerable species such as sharks, is a major challenge for contemporary fisheries management worldwide. Bycatch data, most often collected by at-sea observers during fishing trips, are clustered by trip and/or vessel and typically involve a large number of zero counts and very few positive counts. Though hurdle models are very popular for count data with excess zeros, models for clustered forms have received far less attention. Here we present a novel random-effects hurdle model for bycatch data that makes available accurate estimates of bycatch probabilities as well as other clusterspecific targets. These are essential for informing conservation and management decisions as well as for identifying bycatch hotspots, often considered the first step in attempting to protect endangered marine species. We validate our methodology through simulation and use it to analyze bycatch data on critically endangered hammerhead sharks from the U.S. National Marine Fisheries Service Pelagic Observer Program

Does ozonation enhance activated carbon adsorption of PFAS in textile wastewater?

Per- and polyfluoroalkyl substances (PFAS) are used in numerous industrial applications, such as in textile manufacturing, because of their special chemical properties. To avoid PFAS spread in the environment, removal strategies need to be implemented at the wastewater treatment plants (WWTP) to reduce their environmental risk on receiving water bodies. The fate of 14 PFAS in a full-scale WWTP treating textile and civil wastewater (WW) was investigated. The addition of an adsorption step before or after the ozonation process was studied through adsorption isotherms tested on the WW collected before and after the full-scale ozonation step. Ozonation is not aimed at PFAS removing, but it lowers organic matter competition towards long-chain PFAS in the following adsorption step. The removal of UVA254 seems to be a good proxy variable for PFAS adsorption, with relationships not dependent on the presence of ozonation step

Exploring the meanings of community multimedia centers in Mozambique: a social representation perspective

This article presents extensive research conducted in Mozambique that aims to deeply understand how different social groups understand community multimedia centers (CMCs), which are structures combining a community radio and a telecenter. The social representations theory was adopted to interpret narratives of 231 interviewees from 10 Mozambican provinces. Interviewees included representatives of initiating agencies, local staff members, CMC users (both the radio and telecenter components), users of only the community radio, and community members not using the CMCs. Following the analysis of transcribed interviews, six main clusters were identified, each of them shedding light on a specific understanding of a CMC. These are discussed according to a set of sociodemographic variables. This study suggests that the social representations theory is a valuable framework to provide an integrated view of ICT4D interventions by giving a voice to local perspectives without overlooking the initiating agencies' expectations