bluuebunny/crossref_metadata_2025_split huggingface dataset:
Working therapeutically with mothers who experience the trauma of homelessness: An opportunity for growth
Authors: Tischler Victoria , Edwards Vicki , Vostanis Panos 
Published: February 2009

AbstractHomelessness is recognised to be a traumatic event in itself and is often preceded by the experience of violence. More recent research has indicated that homelessness can function to enact growth and resilience in women with dependent children. This review paper draws together findings from a series of studies involving women with dependent children who experience homelessness. It identifies key psychosocial and health priorities in this population and how findings related to resilience and growth can be harnessed in therapeutic work. Pragmatic service developments and examples of good practice in therapeutic and multi‐agency interventions from the domestic violence and homelessness literature are described and recommendations are made for developing services and working therapeutically with marginalised and transient populations. Therapists need to work in a flexible and integrated way with other key services, so that the crisis and long term needs of this population are met.
MOM: maximum oligonucleotide mapping
Authors: Eaves Hugh L. , Gao Yuan 
Published: February 2009

Abstract
Summary: Current short read mapping programs are based on the reasonable premise that most sequencing errors occur near the 3′ end of the read. These programs map reads with either a small number of mismatches in the entire read, or a small number of mismatches in the segment remaining after trimming bases from the 3′ end or a single base from the 5′ end. Though multiple sequencing errors most likely occur near the 3′ end of the reads, they can still occur at the 5′ end of the reads. Trimming from the 3′ end will not be able to map these reads. We have developed a program, Maximum Oligonucleotide Mapping (MOM), based on the concept of query matching that is designed to capture a maximal length match within the short read satisfying the user defined error parameters. This query matching approach thus accommodates multiple sequencing errors at both ends. We demonstrate that this technique achieves greater sensitivity and a higher percentage of uniquely mapped reads when compared to existing programs such as SOAP, MAQ and SHRiMP.
Software and Test Data Availability: http://mom.csbc.vcu.edu
Contact: ygao@vcu.edu hleaves@vcu.edu
Supervised feature selection in mass spectrometry-based proteomic profiling by blockwise boosting
Authors: Gertheiss Jan , Tutz Gerhard 
Published: February 2009

Abstract
Summary: When feature selection in mass spectrometry is based on single m/z values, problems arise from the fact that variability is not only in vertical but also in horizontal direction, i.e. also slightly differing m/z values may correspond to the same feature. Hence, we propose to use the full spectra as input to a classifier, but to select small groups – or blocks – of adjacent m/z values, instead of single m/z values only. For that purpose we modify the LogitBoost to obtain a version of the so-called blockwise boosting procedure for classification. It is shown that blockwise boosting has high potential in predictive proteomics.
Availability: R-code is freely available at http://www.statistik.lmu.de/~gertheiss/research.html.
Contact: jan.gertheiss@stat.uni-muenchen.de
Supplementary information: Supplementary data are available at Bioinformatics online.
An integrative scoring system for ranking SNPs by their potential deleterious effects
Authors: Lee Phil Hyoun , Shatkay Hagit 
Published: February 2009

Abstract
Motivation: Identifying single nucleotide polymorphisms (SNPs) that underlie common and complex human diseases, such as cancer, is of major interest in current molecular epidemiology. Nevertheless, the tremendous number of SNPs on the human genome requires computational methods for prioritizing SNPs according to their potentially deleterious effects to human health, and as such, for expediting genotyping and analysis. As of yet, little has been done to quantitatively assess the possible deleterious effects of SNPs for effective association studies.
Results: We propose a new integrative scoring system for prioritizing SNPs based on their possible deleterious effects within a probabilistic framework. We applied our system to 580 disease-susceptibility genes obtained from the OMIM (Online Mendelian Inheritance in Man) database, which is one of the most widely used databases of human genes and genetic disorders. The scoring results clearly show that the distribution of the functional significance (FS) scores for already known disease-related SNPs is significantly different from that of neutral SNPs. In addition, we summarize distinct features of potentially deleterious SNPs based on their FS score, such as functional genomic regions where they occur or bio-molecular functions that they mainly affect. We also demonstrate, through a comparative study, that our system improves upon other function-assessment systems for SNPs, by assigning significantly higher FS scores to already known disease-related SNPs than to neutral SNPs.
Availability: http://compbio.cs.queensu.ca/F-SNP and http://compbio.cs.queensu.ca/RankingSNPs/default.html.
Contact: lee@cs.queensu.ca
INTEGRALL: a database and search engine for integrons, integrases and gene cassettes
Authors: Moura Alexandra , Soares Mário , Pereira Carolina , Leitão Nuno , Henriques Isabel , Correia António 
Published: February 2009

Abstract
Summary: INTEGRALL is a freely available, text-based search system developed with the aim of collecting and organizing information on integrons in a single database. The current release (1.2) contains more than 4800 integron sequences and provides a public genetic repository for sequence data and nomenclature, offering scientists an easy and interactive access to integron's DNA sequences, their molecular arrangements as well as their genetic contexts.
Availability: http://integrall.bio.ua.pt
Contact: amoura@ua.pt
Comparison of data-processing algorithms for the lidar detection of mackerel in the Norwegian Sea
Authors: Churnside James H. , Tenningen Eirik , Wilson James J. 
Published: February 2009

Abstract
Churnside, J. H., Tenningen, E., and Wilson, J. J. 2009. Comparison of data-processing algorithms for the lidar detection of mackerel in the Norwegian Sea. – ICES Journal of Marine Science, 66: 1023–1028. A broad-scale lidar survey was conducted in the Norwegian Sea in summer 2002. Since then, various data-processing techniques have been developed, including manual identification of fish schools, multiscale median filtering, and curve fitting of the lidar profiles. In the automated techniques, applying a threshold to the data, as carrried out already to eliminate plankton scattering, has been demonstrated previously to improve the correlation between lidar and acoustic data. We applied these techniques to the lidar data of the 2002 survey and compared the results with those of a mackerel (Scomber scombrus) survey done by FV “Endre Dyrøy” and FV “Trønderbas” during the same period. Despite a high level of variability in both lidar and trawl data, the broad-scale distribution of fish inferred from the lidar agreed with that of mackerel caught by the FV “Endre Dyrøy”. This agreement was obtained using both manual and automated processing of the lidar data. This work is the first comparison of concurrent lidar and trawl surveys, and it demonstrates the utility of airborne lidar for mackerel studies.
Erythropoietin Protects against Local Anesthetic Myotoxicity during Continuous Regional Analgesia
Authors: Nouette-Gaulain Karine , Bellance Nadège , Prévost Baptiste , Passerieux Emilie , Pertuiset Claire , Galbes Olivier , Smolkova Katarina , Masson Françoise , Miraux Sylvain , Delage Jean-Paul , Letellier Thierry , Rossignol Rodrigue , Capdevila Xavier , Sztark François 
Published: February 2009

Background
Local anesthetics offer the benefits of extended analgesia with greater patient satisfaction and faster rehabilitation compared with intravenous morphine. These benefits, however, can be offset by adverse iatrogenic muscle pain caused by bupivacaine. Here, the authors describe the mechanisms of local anesthetic-induced myotoxicity and a partial protective effect of recombinant human erythropoietin (rhEPO).

Methods
The authors developed a rat analgesia model with femoral nerve catheter and a cell culture model of human skeletal muscle myoblasts to study local anesthetic effects. Rats were randomly assigned to four different groups: daily intraperitoneal injection with 5,000 U/kg rhEPO or saline coupled to a perineural catheter injection with 1 ml/kg bupivacaine, 0.25%, or saline. In psoas rat muscle, oxygen consumption rates were measured using a Clark-type electrode in saponin-skinned fibers. Mitochondrial adenosine triphosphate synthesis rates were determined by bioluminescence. Enzymatic activity of mitochondrial respiratory chain complexes was measured on tissue homogenates using spectrophotometric procedures, and mitochondrial morphology was analyzed by transmission electron microscopy. In addition, the interaction between bupivacaine and rhEPO was investigated on human skeletal muscle myoblasts by fluorescence microscopy using mitotracker green and using the lipophilic cation JC-1.

Results
Bupivacaine caused impairment of mitochondrial structure and bioenergetics in rats. Human myoblasts treated with bupivacaine showed a dose-dependent decrease in mitochondrial membrane potential associated with unusual morphologies. Impairment of mitochondrial bioenergetics was prevented partially by the use of rhEPO coadministered with bupivacaine.

Conclusions
The authors demonstrated a dose- and time-dependent protective effect of rhEPO against bupivacaine-induced myotoxicity in regional analgesia.
Desflurane-induced Postconditioning Is Mediated by β-Adrenergic Signaling
Authors: Lange Markus , Redel Andreas , Lotz Christopher , Smul Thorsten M. , Blomeyer Christoph , Frank Anja , Stumpner Jan , Roewer Norbert , Kehl Franz 
Published: February 2009

Background
Anesthetic preconditioning is mediated by beta-adrenergic signaling. This study was designed to elucidate the role of beta-adrenergic signaling in desflurane-induced postconditioning.

Methods
Pentobarbital-anesthetized New Zealand White rabbits were subjected to 30 min of coronary artery occlusion followed by 3 h of reperfusion and were randomly assigned to receive vehicle (control), 1.0 minimum alveolar concentration of desflurane, esmolol (30 mg x kg(-1) x h(-1)) for the initial 30 min of reperfusion or throughout reperfusion, the beta2-adrenergic receptor blocker ICI 118,551 (0.2 mg/kg), the protein kinase A inhibitor H-89 (250 microg/kg), or the calcium/calmodulin-dependent protein kinase II inhibitor KN-93 (300 microg/kg) in the presence or absence of desflurane. Protein expression of protein kinase B, calcium/calmodulin-dependent protein kinase II, and phospholamban was measured by Western immunoblotting. Myocardial infarct size was assessed by triphenyltetrazolium staining.

Results
Infarct size was 57 +/- 5% in control. Desflurane postconditioning reduced infarct size to 36 +/- 5%. Esmolol given during the initial 30 min of reperfusion had no effect on infarct size (54 +/- 4%) but blocked desflurane-induced postconditioning (58 +/- 5%), whereas esmolol administered throughout reperfusion reduced infarct size in the absence or presence of desflurane to 42 +/- 6% and 41 +/- 7%, respectively. ICI 118,551 and KN-93 did not affect infarct size (62 +/- 4% and 62 +/- 6%, respectively) but abolished desflurane-induced postconditioning (57 +/- 5% and 64 +/- 3%, respectively). H-89 decreased infarct size in the absence (36 +/- 5%) or presence (33 +/- 5%) of desflurane.

Conclusions
Desflurane-induced postconditioning is mediated by beta-adrenergic signaling. However, beta-adrenergic signaling displays a differential role in cardioprotection during reperfusion.
Subcellular Localization and Functional Analysis of the Arabidopsis GTPase RabE
Authors: Speth Elena Bray , Imboden Lori , Hauck Paula , He Sheng Yang 
Published: February 2009

Abstract
Membrane trafficking plays a fundamental role in eukaryotic cell biology. Of the numerous known or predicted protein components of the plant cell trafficking system, only a relatively small subset have been characterized with respect to their biological roles in plant growth, development, and response to stresses. In this study, we investigated the subcellular localization and function of an Arabidopsis (Arabidopsis thaliana) small GTPase belonging to the RabE family. RabE proteins are phylogenetically related to well-characterized regulators of polarized vesicle transport from the Golgi apparatus to the plasma membrane in animal and yeast cells. The RabE family of GTPases has also been proposed to be a putative host target of AvrPto, an effector protein produced by the plant pathogen Pseudomonas syringae, based on yeast two-hybrid analysis. We generated transgenic Arabidopsis plants that constitutively expressed one of the five RabE proteins (RabE1d) fused to green fluorescent protein (GFP). GFP-RabE1d and endogenous RabE proteins were found to be associated with the Golgi apparatus and the plasma membrane in Arabidopsis leaf cells. RabE down-regulation, due to cosuppression in transgenic plants, resulted in drastically altered leaf morphology and reduced plant size, providing experimental evidence for an important role of RabE GTPases in regulating plant growth. RabE down-regulation did not affect plant susceptibility to pathogenic P. syringae bacteria; conversely, expression of the constitutively active RabE1d-Q74L enhanced plant defenses, conferring resistance to P. syringae infection.
Drought Stress-Induced Rma1H1, a RING Membrane-Anchor E3 Ubiquitin Ligase Homolog, Regulates Aquaporin Levels via Ubiquitination in TransgenicArabidopsisPlants
Authors: Lee Hyun Kyung , Cho Seok Keun , Son Ora , Xu Zhengyi , Hwang Inhwan , Kim Woo Taek 
Published: February 2009

AbstractUbiquitination is involved in a variety of biological processes, but the exact role of ubiquitination in abiotic responses is not clearly understood in higher plants. Here, we investigated Rma1H1, a hot pepper (Capsicum annuum) homolog of a human RING membrane-anchor 1 E3 ubiquitin (Ub) ligase. Bacterially expressed Rma1H1 displayed E3 Ub ligase activity in vitro. Rma1H1 was rapidly induced by various abiotic stresses, including dehydration, and its overexpression in transgenic Arabidopsis thaliana plants conferred strongly enhanced tolerance to drought stress. Colocalization experiments with marker proteins revealed that Rma1H1 resides in the endoplasmic reticulum (ER) membrane. Overexpression of Rma1H1 in Arabidopsis inhibited trafficking of an aquaporin isoform PIP2;1 from the ER to the plasma membrane and reduced PIP2;1 levels in protoplasts and transgenic plants. This Rma1H1-induced reduction of PIP2;1 was inhibited by MG132, an inhibitor of the 26S proteasome. Furthermore, Rma1H1 interacted with PIP2;1 in vitro and ubiquitinated it in vivo. Similar to Rma1H1, Rma1, an Arabidopsis homolog of Rma1H1, localized to the ER, and its overexpression reduced the PIP2;1 protein level and inhibited trafficking of PIP2;1 from the ER to the plasma membrane in protoplasts. In addition, reduced expression of Rma homologs resulted in the increased level of PIP2;1 in protoplasts. We propose that Rma1H1 and Rma1 play a critical role in the downregulation of plasma membrane aquaporin levels by inhibiting aquaporin trafficking to the plasma membrane and subsequent proteasomal degradation as a response to dehydration in transgenic Arabidopsis plants.
Performance evaluation of a psychiatric facility in São Paulo, Brasil
Authors: Walbe Ornstein Sheila , Ono Rosaria , Lopes P.A. , França A.J.G.L. , Kawakita C.Y. , Machado  , Robles L.V.L. , Tamashiro S.H. , Fernandes P.R. 
Published: February 2009

PurposeThis paper aims to present the results of a post‐occupancy evaluation (POE) in a complex hospital building, and also to discuss a system for analyzing and diagnosing those results.Design/methodology/approachThe POE was aimed at establishing adequate use and maintenance of the building. The main approaches of the study consisted of two basic performance features, namely, physical accessibility and fire safety.FindingsThe importance of the pre‐design evaluation (PDE) might also be recalled as well as the usefulness of the POE for new designs and for remodeling existing buildings, because these instruments aid in the constant updating of directive plans of occupation, especially in the case of large complexes such as health care facilities. One indication of this importance is the relatively low number of problems detected during the POE, when one considers the complexity of the work of renovation and the dimensions of the IPq facilities.Originality/valueThe paper presents the results of a POE and recommendations that would make it possible to quickly identify the points where there is need for improvement, and the degree of importance or priority to be given.
Management education's blind spot: management of workplace relations
Authors: Clydesdale Greg 
Published: February 2009

PurposeDeveloping interpersonal relationships is widely recognised as a key managerial capability, but business schools have been criticised for the limited attention given to the subject. The purpose of this paper is to attempt to address this deficiency in the area of teaching workplace relationships.Design/methodology/approachThe paper reviews and critiques existing literature on the teaching of interpersonal relationships. It examines possibilities for content and methods by which they could be taught, including the limitations of each method.FindingsThe limitations of skills‐based courses are recognised and a case is argued for a broad‐based approach to teaching interpersonal relations that draws on a motivational, behavioural, cognitive, emotion and personality approach. A large number of options exist and it is argued that techniques be used that complement one another.Practical implicationsLectures of general management courses are frequently constrained by their limited training but the paper provides a cognitive and theoretical framework with which to analyse relationships, which can be combined with a number of other techniques within the abilities of the general management lecturer. More research is required on interpersonal relationship management strategies and relationship variability in the workplace.Originality/valueThe paper moves away from a skills‐based approach to interpersonal relationships to consider cognitive and motivational aspects. The concept of relational capital emphasises the inherent value of workplace relationships. The paper suggests that interpersonal relationship needs to be mainstreamed into management education if graduates are to be prepared for the business world.
Jacob “John” Rose – a tribute
Authors: Pearlman Wolf W. 
Published: February 2009

PurposeThe purpose of this paper is to recall the influential role of Professor John Rose in stimulating development of sustainable cybernetic frameworks designed to contend with the daunting challenges obtaining in the domain of urban habitat generation.Design/methodology/approachObjectives are realized via discrimination of invaluable opinion (information/data), case study analyses of experiments (projects), differentiation of distinguished effects (phenomena), and intervention in the evolution of urban planning theory.FindingsIt is found that the disposition of geometrical forms of quasi‐crystal type – “Penrose Tiling” or “Shechtmanites” – realizes extensive economies in urban space allocations (land use), escalation of population indices (density), substantial contraction of time and distance in movement patterns (energy conservation): a triplet (encompassing quantity, quality and economy) are surely applicable in a world confronted by the unceasing demand for urban shelter and threat of a global economic meltdown.Practical implicationsTransformation of the manually derived models (for town design) is dependent on significant investment in the phase involving development of complex algorithms for enabling combinatorial computing and modeling; the sine qua non for testing applications at various scale levels prior to development of a universally viable computer software. The implications for urban habitat policies generally would be phenomenal if not revolutionary should the envisaged software ever be realized.Originality/valueExposure of original work in progress enhances the potential for obtaining valuable feedback from intrigued professionals as well as potential consumers, particularly those from public sector housing agencies experiencing acute budgetary agendas.
Dictatorships, democracies and the people
Authors: Mansour Mohamed 
Published: February 2009

PurposeThe paper aims to consider system and control ideas which are useful in analysing problems in human science.Design/methodology/approachThree arts of dictatorships are considered, namely: dictatorship in a developing country, dictatorship in a developed country and the global dictatorship. The conditions leading to these dictatorships are explained.FindingsTwo arts of democracies are discussed and the common parameters of democracies and dictatorships are determined. In all the above, the position of the people is discussed.Originality/valueAn ideal democracy is suggested which can be considered as a goal for a better world and as reference for evaluation.
Economic yoyos and some mysteries about child labor
Authors: Lin Yi , Liu Sifeng 
Published: February 2009

PurposeThe purpose of this paper is to establish a theoretical foundation for seemingly contradictory empirical findings about child labor and the families and the children's well‐being.Design/methodology/approachThe systemic yoyo model is employed as justification and road map for exploring some issues related to child labor and its efficiency.FindingsAmong many interesting results obtained in this paper, it is particularly shown that: first, as long as children's disutility or utility of labor or formal schooling are concerned, the laissez faire triple of child labor, formal schooling, and level of maturity, which maximizes the parents' utility function, can never be efficient; second, if the efficiency of parent's chosen (for their children) levels of child labor, formal schooling, and level of maturity, is determined by the impact on the children's lifetime earnings potential, then the laissez faire triple of child labor, formal schooling, and level of maturity, is efficient, either if the parents' savings and bequests are interior when the capital markets are imperfect, or if the parents' bequests are interior and the capital markets are perfect. Third, if a government regulation is introduced to impose a marginal ban on child labor, then such a ban could be either welfare reducing for both the child and the parents or a Pareto improvement for both the child and the parents, under different sets of specific conditions.Research limitations/implicationsTo take advantage of the methods and results of calculus, the assumption of continuity and differentiability is implied. So, all the findings of this work are limited by these conditions.Originality/valueIt is shown that by using systems analysis, seemingly contradictory empirical findings regarding the efficiency of child labor can be explained by using a unified theory.