bluuebunny/crossref_metadata_2025_split huggingface dataset:
Psychotherapy for personality disorders: Short-term day hospital psychotherapy versus outpatient individual therapy – a randomized controlled study
Authors: Arnevik Espen , Wilberg Theresa , Urnes Øyvind , Johansen Merete , Monsen Jon T. , Karterud Sigmund 
Published: December 2008

AbstractThis article describes the results of an eight-month follow-up investigation from a randomized controlled trial of day hospital psychotherapy (DHP) compared with outpatient individual psychotherapy (OIP) for patients with personality disorders (N = 114). The patients were randomly assigned to either 18 weeks of day hospital treatment followed by long-term conjoint group and individual therapy (DHP), or outpatient individual psychotherapy (OIP). The main outcome measures were attrition rate, suicide attempts, suicidal thoughts, self-injury, psychosocial functioning, symptom distress, and interpersonal and personality problems. The study showed a low dropout rate and a moderate improvement on a broad range of clinical measures for both treatments. However, there was no indication of the superiority of one treatment over the other. Neither was there any indication that day hospital treatment was better for the most poorly functioning patients. Further studies will follow this group of patients for the next few years, the results of which may have implications for resource allocation and the organization of mental health services for patients with personality disorders.
Suicide attempts in bulimia nervosa: Personality and psychopathological correlates
Authors: Forcano Laura , Fernández-Aranda Fernando , Álvarez-Moya Eva , Bulik Cynthia , Granero Roser , Gratacòs Mònica , Jiménez-Murcia Susana , Krug Isabel , Mercader Josep M. , Riesco Nadine , Saus Ester , Santamaría Juan José , Estivill Xavier 
Published: December 2008

AbstractBackgroundLittle evidence exists about suicidal acts in eating disorders and its relation with personality. We explored the prevalence of lifetime suicide attempts (SA) in women with bulimia nervosa (BN), and compared eating disorder symptoms, general psychopathology, impulsivity and personality between individuals who had and had not attempted suicide. We also determined the variables that better correlate with of SA.MethodFive hundred sixty-six BN outpatients (417 BN purging, 47 BN non-purging and 102 subthreshold BN) participated in the study.ResultsLifetime prevalence of suicide attempts was 26.9%. BN subtype was not associated with lifetime SA (p= 0.36). Suicide attempters exhibited higher rates on eating symptomatology, general psychopathology, impulsive behaviors, more frequent history of childhood obesity and parental alcohol abuse (p< 0.004). Suicide attempters exhibited higher scores on harm avoidance and lower on self-directedness, reward dependence and cooperativeness (p< 0.002). The most strongly correlated variables with SA were: lower education, minimum BMI, previous eating disorder treatment, low self-directedness, and familial history of alcohol abuse (p< 0.006).ConclusionOur results support the notion that internalizing personality traits combined with impulsivity may increase the probability of suicidal behaviors in these patients. Future research may increase our understanding of the role of suicidality to work towards rational prevention of suicidal attempts.
Perceptions of Job Stress and Satisfaction Among School-Based SLPs: Challenges Versus Rewards
Authors: Caesar Lena G. , Nelson Nickola Wolf 
Published: December 2008

Abstract
This study utilized a survey design to gather information regarding caseload and employment factors affecting school-based speech-language pathologists' (SLP) perceptions of job stress and job satisfaction. Results indicated that respondents experienced relatively low levels of job stress and high levels of job satisfaction. The majority of respondents (95%) reported being somewhat satisfied or very satisfied with their jobs, while only one-third of respondents (35%) reported experiencing serious work problems. With the exception of caseload size, no significant relationships were found between caseload factors and job stress or satisfaction. However, one employment factor (paperwork) was a consistent predictor of all three stress measures. An analysis of open-ended responses indicated that responding SLPs were more challenged by employment-related factors than by student-related issues. Implications regarding the critical shortage of SLPs will be presented.
What? You Want Me to Do a Language Sample?
Authors: Ford Jane H. , Gaskill Mary Jo , Lemp Janice 
Published: December 2008

Abstract
The Speech Language Program in Orange County Public Schools (OCPS) in Orlando, FL, encourages and supports the use of language sampling as part of the diagnostic and therapeutic planning process. This article describes the protocol used for eliciting and analyzing a language sample used in OCPS. The protocol was developed with the goal of reducing reliance on self-designed analysis procedures and incorporating research information about collection and analysis procedures.
Interprofessional Approach to Auditory Processing Disorders
Authors: Lagacé Josée , Bélanger-Schaadt Margaret , Savard Jacinthe , Dubouloz Claire-Jehanne 
Published: December 2008

Abstract
Most of the school-aged children referred in audiology for the assessment of their central auditory functions are experiencing a variety of learning challenges. Research using neuroimaging techniques indicates that even the simplest auditory task like passive listening results in activation of multiple areas of the brain (Bellis, 2003). According to the same author, this interaction among different areas of the brain reflects an incredible degree of integration and interdependency throughout the central auditory nervous system. With that perspective in mind, interpretation of central auditory findings and intervention strategies should reflect this interdependency. The interprofessional approach—an approach that takes into account a child's auditory, language, learning, and associated characteristics—appears to ensure appropriate interpretation and management. This article illustrates an interprofessional model of intervention that is used to deliver services to school-aged children presenting with Auditory Processing Disorders (APD) and associated learning difficulties. The interprofessional team is composed of an audiologist, a speech-language pathologist (SLP), and an occupational therapist. This project is one of the initiatives at the Interprofessional University Clinic of the University of Ottawa (Canada) and has been implemented to provide rehabilitation services to children with APD using a framework based on social participation and interprofessionalism.
Speech-Language-Hearing Health Disparities in Young Children
Authors: Chase Patricia A. , Boggs Teresa L. 
Published: December 2008

Abstract
Communication disorders are among the most prevalent disabilities in young children. This research examined the effectiveness of a consultative model for providing speech, language, and hearing health services to preschool children in a rural Appalachian community. Outcomes from this project may be useful in other disadvantaged or underserved communities.
Cleft Palate and/or Velopharyngeal Dysfunction: Assessment and Treatment
Authors: LeDuc Judith A. 
Published: December 2008

Abstract
Children with cleft palate and/or velopharyngeal dysfunction often exhibit complicated clinical findings. In order to differentiate a resonance disorder from an articulatory/phonological disorder, the speech-language pathologist must be able to evaluate the function of the velopharyngeal mechanism and have knowledge of aberrant articulatory postures that create compensatory articulations. This paper will address current assessment techniques and treatment strategies for this clinical population. Methods for collaborating with the transdisciplinary cleft palate/craniofacial team will be provided.
Magnetic resonance imaging-guided renal artery stent placement in a swine model: Comparison of two tracking techniques
Authors: Frericks B. B. , Elgort D. R. , Hillenbrand C. , Duerk J. L. , Lewin J. S. , Wacker F. K. 
Published: December 2008

Background: Magnetic resonance (MR)-guided interventions have evolved from a pure research application to a preclinical method over the last decade. Among the device-tracking techniques, susceptibility artifact-based tracking relies on the contrast between the surrounding blood and the device, and radiofrequency coil-based tracking relies on the local gradient field amplification in a resonating circuit attached to the interventional device. Purpose: To evaluate the feasibility and precision of susceptibility artifact-based and microcoil-based MR guidance methods for renal artery stent placement in a swine model. Material and Methods: MR imaging-guided renal artery stent placements were performed in six fully anesthetized pigs using a 1.5T short-bore MR scanner. Susceptibility artifact-based tracking with manual scan-plane adjustments and microcoil tracking with automatic scan-plane adjustments were used for renal artery stent placements in three pigs in each group. With both methods, near real-time steady-state free-precession (SSFP) imaging was used. Differences between the two tracking approaches on stenting time, total procedure time, and stent position were measured. Results: The microcoil-based approach yielded a shorter mean procedure time (17 vs. 23 min). There was no relevant difference for the mean stenting time (12 vs. 13 min). The mean stent deviation from the aortic wall with the susceptibility approach was larger than with the microcoil approach (10 vs. 4.0 mm). Conclusion: For MRI-guided renal artery stent placement, the microcoil-based technique had a shorter procedure time and a higher stent placement precision than the susceptibility artifact-based approach.
Correction of displaced peritoneal dialysis catheters with an angular stiff rod
Authors: Ozyer U. , Harman A. , Aytekin C. , Boyvat F. , Ozdemir N. 
Published: December 2008

Background: Fluoroscopically guided guidewire manipulations are readily available and inexpensive methods of correcting malfunctioning peritoneal dialysis catheters, with reported success rates ranging from 25% to 67%. Purpose: To improve the success rates of guidewire manipulations with a modified technique. Material and Methods: Using a stiff rod and a stiff wire under fluoroscopy guidance, catheters that had migrated were drawn back into the rectovesical pouch. An angular rod was used to lever the catheter downward, and the guidewire was used to push the catheter down. Results: No complications developed, and immediate success was achieved in 13 of 14 interventions. With this technique, catheter patency in chronic ambulatory peritoneal dialysis (CAPD) patients (11/12) was higher than that of previously reported methods. Durable success was maintained in nine of 12 patients after a single intervention. All re-manipulations (2/2) were successful. Conclusion: Although used in only 14 interventions in 12 patients, the outcome was promising. This method is a safe and favorable alternative to other guidewire manipulations, based on absence of complications and high success.
Matching methods for observational microarray studies
Authors: Heller Ruth , Manduchi Elisabetta , Small Dylan S. 
Published: December 2008

AbstractMotivation: We address the problem of identifying differentially expressed genes between two conditions in the scenario where the data arise from an observational study, in which confounding factors are likely to be present.Results: We suggest to use matching methods to balance two groups of observed cases on measured covariates, and to identify differentially expressed genes using a test suited to matched data. We illustrate this approach on two microarray studies: the first study consists of data from patients with two cancer subtypes, and the second study consists of data from AMKL patients with and without Down syndrome.Availability: R code (www.r-project.org) for implementing our approach is included as Supplementary Material.Contact: ruheller@whatron.upenn.eduSupplementary information: Supplementary data are available at Bioinformatics online.
PuMA: Bayesian analysis of

p

artitioned (and

u

npartitioned)

m

odel

a

dequacy
Authors: Brown Jeremy M. , ElDabaje Robert 
Published: December 2008

Abstract
Summary: The accuracy of Bayesian phylogenetic inference using molecular data depends on the use of proper models of sequence evolution. Although choosing the best model available from a pool of alternatives has become standard practice in statistical phylogenetics, assessment of the chosen model's adequacy is rare. Programs for Bayesian phylogenetic inference have recently begun to implement models of sequence evolution that account for heterogeneity across sites beyond variation in rates of evolution, yet no program exists to assess the adequacy of these models. PuMA implements a posterior predictive simulation approach to assessing the adequacy of partitioned, unpartitioned and mixture models of DNA sequence evolution in a Bayesian context. Assessment of model adequacy allows empirical phylogeneticists to have appropriate confidence in their results and guides efforts to improve models of sequence evolution.
Availability: This program is available as source code, a Java.jar application, and a native Mac OS X application. It is distributed under the terms of the GNU General Public License at http://code.google.com/p/phylo-puma.
Contact: jembrown@mail.utexas.edu
SNPHarvester: a filtering-based approach for detecting epistatic interactions in genome-wide association studies
Authors: Yang Can , He Zengyou , Wan Xiang , Yang Qiang , Xue Hong , Yu Weichuan 
Published: December 2008

Abstract
Motivation: Hundreds of thousands of single nucleotide polymorphisms (SNPs) are available for genome-wide association (GWA) studies nowadays. The epistatic interactions of SNPs are believed to be very important in determining individual susceptibility to complex diseases. However, existing methods for SNP interaction discovery either suffer from high computation complexity or perform poorly when marginal effects of disease loci are weak or absent. Hence, it is desirable to develop an effective method to search epistatic interactions in genome-wide scale.
Results: We propose a new method SNPHarvester to detect SNP–SNP interactions in GWA studies. SNPHarvester creates multiple paths in which the visited SNP groups tend to be statistically associated with diseases, and then harvests those significant SNP groups which pass the statistical tests. It greatly reduces the number of SNPs. Consequently, existing tools can be directly used to detect epistatic interactions. By using a wide range of simulated data and a real genome-wide data, we demonstrate that SNPHarvester outperforms its recent competitor significantly and is promising for practical disease prognosis.
Availability: http://bioinformatics.ust.hk/SNPHarvester.html
Contact: eeyang@ust.hk
Supplementary information: Supplementary data are available at Bioinformatics online.
SNPnexus: a web database for functional annotation of newly discovered and public domain single nucleotide polymorphisms
Authors: Chelala Claude , Khan Arshad , Lemoine Nicholas R 
Published: December 2008

Abstract
Motivation: Design a new computational tool allowing scientists to functionally annotate newly discovered and public domain single nucleotide polymorphisms in order to help in prioritizing targets in further disease studies and large-scale genotyping projects.
Summary: SNPnexus database provides functional annotation for both novel and public SNPs. Possible effects on the transcriptome and proteome levels are characterized and reported from five major annotation systems providing the most extensive information on alternative splicing. Additional information on HapMap genotype and allele frequency, overlaps with potential regulatory elements or structural variations as well as related genetic diseases can be also retrieved. The SNPnexus database has a user-friendly web interface, providing single or batch query options using SNP identifiers from dbSNP as well as genomic location on clones, contigs or chromosomes. Therefore, SNPnexus is the only database currently providing a complete set of functional annotations of SNPs in public databases and newly detected from sequencing projects. Hence, we describe SNPnexus, provide details of the query options, the annotation categories as well as biological examples of use.
Availability: The SNPnexus database is freely available at http://www.snp-nexus.org.
Contact: claude.chelala@cancer.org.uk
SAFEGUI: resampling-based tests of categorical significance in gene expression data made easy
Authors: Gatti Daniel M. , Sypa Myroslav , Rusyn Ivan , Wright Fred A. , Barry William T. 
Published: December 2008

Abstract
Summary: A large number of websites and applications perform significance testing for gene categories/pathways in microarray data. Many of these packages fail to account for expression correlation between transcripts, with a resultant inflation in Type I error. Array permutation and other resampling-based approaches have been proposed as solutions to this problem. SAFEGUI provides a user-friendly graphical interface for the assessment of categorical significance in microarray studies, while properly accounting for the effects of correlations among genes. SAFEGUI incorporates both permutation and more recently proposed bootstrap algorithms that are demonstrated to be more powerful in detecting differential expression across categories of genes.
Availability: http://cebc.unc.edu/software/
Contact: fwright@bios.unc.edu; dmgatti@email.unc.edu
A Pollen Protein, NaPCCP, That Binds Pistil Arabinogalactan Proteins Also Binds Phosphatidylinositol 3-Phosphate and Associates with the Pollen Tube Endomembrane System
Authors: Lee Christopher B. , Kim Sunran , McClure Bruce 
Published: December 2008

Abstract
As pollen tubes grow toward the ovary, they are in constant contact with the pistil extracellular matrix (ECM). ECM components are taken up during growth, and some pistil molecules exert their effect inside the pollen tube. For instance, the Nicotiana alata 120-kD glycoprotein (120K) is an abundant arabinogalactan protein that is taken up from the ECM; it has been detected in association with pollen tube vacuoles, but the transport pathway between these compartments is unknown. We recently identified a pollen C2 domain-containing protein (NaPCCP) that binds to the carboxyl-terminal domain of 120K. As C2 domain proteins mediate protein-lipid interactions, NaPCCP could function in intracellular transport of 120K in pollen tubes. Here, we describe binding studies showing that the NaPCCP C2 domain is functional and that binding is specific for phosphatidylinositol 3-phosphate. Subcellular fractionation, immunolocalization, and live imaging results show that NaPCCP is associated with the plasma membrane and internal pollen tube vesicles. Colocalization between an NaPCCP∷green fluorescent protein fusion and internalized FM4-64 suggest an association with the endosomal system. NaPCCP localization is altered in pollen tubes rejected by the self-incompatibility mechanism, but our hypothesis is that it has a general function in the transport of endocytic cargo rather than a specific function in self-incompatibility. NaPCCP represents a bifunctional protein with both phosphatidylinositol 3-phosphate- and arabinogalactan protein-binding domains. Therefore, it could function in the transport of pistil ECM proteins in the pollen tube endomembrane system.
Overexpression of Flavodoxin in Bacteroids Induces Changes in Antioxidant Metabolism Leading to Delayed Senescence and Starch Accumulation in Alfalfa Root Nodules
Authors: Redondo Francisco J. , de la Peña Teodoro Coba , Morcillo César N. , Lucas M. Mercedes , Pueyo José J. 
Published: December 2008

Abstract
Sinorhizobium meliloti cells were engineered to overexpress Anabaena variabilis flavodoxin, a protein that is involved in the response to oxidative stress. Nodule natural senescence was characterized in alfalfa (Medicago sativa) plants nodulated by the flavodoxin-overexpressing rhizobia or the corresponding control bacteria. The decline of nitrogenase activity and the nodule structural and ultrastructural alterations that are associated with nodule senescence were significantly delayed in flavodoxin-expressing nodules. Substantial changes in nodule antioxidant metabolism, involving antioxidant enzymes and ascorbate-glutathione cycle enzymes and metabolites, were detected in flavodoxin-containing nodules. Lipid peroxidation was also significantly lower in flavodoxin-expressing nodules than in control nodules. The observed amelioration of the oxidative balance suggests that the delay in nodule senescence was most likely due to a role of the protein in reactive oxygen species detoxification. Flavodoxin overexpression also led to high starch accumulation in nodules, without reduction of the nitrogen-fixing activity.
Ectopic Expression of VvMybPA2 Promotes Proanthocyanidin Biosynthesis in Grapevine and Suggests Additional Targets in the Pathway
Authors: Terrier Nancy , Torregrosa Laurent , Ageorges Agnès , Vialet Sandrine , Verriès Clotilde , Cheynier Véronique , Romieu Charles 
Published: December 2008

Abstract
Grapevine (Vitis vinifera) proanthocyanidins contribute to plant defense mechanisms against biotic stress and also play a critical role in organoleptic properties of wine. In grapevine berry, these compounds are mainly accumulated in exocarps and seeds in the very early stages of development. A previous study has already identified VvMybPA1 as the first transcription factor involved in the regulation of the proanthocyanidin pathway during seed development in grapevine. A novel Myb factor, VvMybPA2, which is described in this study, is in contrast mainly expressed in the exocarp of young berries and in the leaves. This transcription factor shows very high protein sequence homology with other plant Myb factors, which regulate flavonoid biosynthesis. Ectopic expression of either VvMybPA1 or VvMybPA2 in grapevine hairy roots induced qualitative and quantitative changes of the proanthocyanidin profiles. High-throughput transcriptomic analyses of transformed grapevine organs identified a large set of putative targets of the VvMybPA1 and VvMybPA2 transcription factors. Both genes significantly activated enzymes of the flavonoid pathway, including anthocyanidin reductase and leucoanthocyanidin reductase 1, the specific terminal steps in the biosynthesis of epicatechin and catechin, respectively, but not leucoanthocyanidin reductase 2. The functional annotation of the genes whose expression was modified revealed putative new actors of the proanthocyanidin pathway, such as glucosyltransferases and transporters.