bluuebunny/crossref_metadata_2025_split huggingface dataset:
European Non‐Invasive Trisomy Evaluation (EU‐NITE) study: a multicenter prospective cohort study for non‐invasive fetal trisomy 21 testing
Authors: Verweij E. J. , Jacobsson B. , van Scheltema P. A. , de Boer M. A. , Hoffer M. J. V. , Hollemon D. , Westgren M. , Song K. , Oepkes D. 
Published: June 2013

ABSTRACTObjectiveTo evaluate the performance of a directed non‐invasive prenatal testing method of cell‐free DNA analysis for fetal trisomy 21 (T21) by shipping the whole blood samples from Europe to a laboratory in the USA.MethodsA European multicenter prospective, consecutive cohort study was performed enrolling pregnant women from Sweden and the Netherlands. Blood samples were drawn just prior to a planned of invasive diagnostic procedure in a population at increased risk for fetal T21 and then shipped to the USA without any blood processing. Chromosome‐selective sequencing was carried out on chromosome 21 with reporting high risk or low risk of T21. Karyotyping or rapid aneuploidy detection was used as the clinical reference standard.ResultsOf the 520 eligible study subjects, a T21 test result was obtained in 504/520 (96.9%). Risk assessment was accurate in 503/504 subjects (99.8%). There was one false negative result for T21 (sensitivity 17/18, 94.4%, and specificity 100%).ConclusionThis is the first prospective European multicenter study showing that non‐invasive prenatal testing using directed sequencing of cell‐free DNA applied to blood samples shipped across the Atlantic Ocean, is highly accurate for assessing risk of fetal T21. © 2013 John Wiley & Sons, Ltd.
Rapid prenatal diagnosis of common beta‐thalassemia mutations in Southeast Asia using pyrosequencing
Authors: Ho Sherry Sze Yee , Huan Pei Tee , Leow Gek Har , Ching Leng Kee , Chiu Lily , Law Hai Yang , Koay Evelyn S. C. 
Published: June 2013

ABSTRACTObjectiveCurrent methods of prenatal diagnosis to detect beta‐thalassemia are Sanger sequencing and reverse dot blot. These methods are time‐consuming and can prolong assay turnaround time. We aim to develop a sensitive and rapid method to detect 27 beta‐thalassemia mutations using pyrosequencing.MethodPyrosequencing primer pairs and sequencing primers were designed to detect 27 most common beta‐thalassemia mutations found in Singapore. Pyrosequencing was performed on 191 DNA samples with known beta‐thalassemia mutations isolated from 143 peripheral blood and 48 prenatal samples (seven chorionic villus biopsies, 26 cultured amniocytes, 15 uncultured amniocytes). All mutations were validated with Sanger sequencing.ResultsPyrosequencing identified 210 alleles with beta‐thalassemia mutations and 82 alleles without mutations with 100% sensitivity (lower 95% confidence interval [CI], 97.8%) and 100% specificity (lower 95% CI, 94.4%). All pyrosequences were concordant with Sanger‐based sequences. Pyrosequencing was able to detect DNA concentrations as low as 2 ng, obviating the need for cell culture in volume‐restricted samples. Sample receipt‐to‐report assay turnaround times were 16 to 18 h (Sanger sequencing) and 4 to 6 h (pyrosequencing).ConclusionPyrosequencing is a rapid and sensitive method to detect common beta‐thalassemia mutations without the need for cell culture, thus reducing the assay turnaround time. © 2013 John Wiley & Sons, Ltd.
Effects of gender, media influences, and traditional gender role orientation on disordered eating and appearance concerns among Latino adolescents☆
Authors: Lopez Vera , Corona Rosalie , Halfond Raquel 
Published: June 2013

ABSTRACTThis study examined the main and interaction effects of gender, traditional gender role orientation, and media‐influenced sociocultural values and ideals about appearance in a sample of 96 Latino adolescents controlling for age, country of origin, and BMI. Girls and less traditionally oriented youth reported significantly more disordered eating and appearance concerns than did boys and more traditionally oriented youth. Gender moderated the relationship between traditional gender role orientation and disordered eating and appearance concerns. Contrary to our hypothesis, media‐influenced sociocultural values and ideals about appearance did not significantly predict disordered eating and appearance concerns. However, the interaction between gender and sociocultural values and ideals about appearance was significant. Our findings highlight the importance of continued research on gender, media, and cultural influences as they relate to disordered eating and appearance concerns among Latino youth.
Immediate Use Steam Sterilization: It's All About the Process
Authors: Nania Paula 
Published: June 2013

AbstractProper reprocessing of surgical instrumentation assists in infection prevention efforts. Immediate use steam sterilization, previously known as flash sterilization, is an effective method of sterilization if it is performed according to manufacturers' validated instructions. Items that undergo immediate use steam sterilization are subject to the same cleaning and decontamination requirements that apply to preparing items for terminal sterilization, and manufacturers' instructions for use must be strictly followed. In 2009, The Joint Commission revised its position statement on flash sterilization and emphasized that three critical steps of reprocessing must be followed to ensure sterility (ie, cleaning and decontamination, sterilization, aseptic transfer) and that complete documentation must be available for each immediate use steam sterilization cycle so that the device is traceable to the patient if problems arise.
Whole‐Lung Lavage for Pediatric Patients With Pulmonary Alveolar Proteinosis
Authors: DiFusco Leigh Ann , Verma Raj K. 
Published: June 2013

AbstractPulmonary alveolar proteinosis (PAP) is a chronic disorder of surfactant clearance from the alveoli. Its prevalence is rare, especially in the pediatric population. Although there is no cure for this condition, symptoms of PAP are managed most effectively through whole‐lung lavage (WLL). Perioperative RNs caring for children with PAP undergoing WLL in the OR should implement patient interventions to maintain vital signs and normothermia and preserve skin integrity. Additionally, perioperative RNs often are responsible for assembling closed‐drainage systems for WLL. Detailed procedural preference cards, targeted education sessions, and multidisciplinary collaboration are crucial for establishing a comprehensive plan of care for the pediatric patient with PAP undergoing WLL in the OR.
On the appropriate objective function for post‐disaster humanitarian logistics models
Authors: Holguín‐Veras José , Pérez Noel , Jaller Miguel , Van Wassenhove Luk N. , Aros‐Vera Felipe 
Published: June 2013

AbstractThe paper argues that welfare economic principles must be incorporated in post‐disaster humanitarian logistic models to ensure delivery strategies that lead to the greatest good for the greatest number of people. The paper's analyses suggest the use of social costs—the summation of logistic and deprivation costs—as the preferred objective function for post‐disaster humanitarian logistic models. The paper defines deprivation cost as the economic valuation of the human suffering associated with a lack of access to a good or service. The use of deprivation costs is evaluated with a review of the philosophy and the economic literature to identify proper foundations for their estimation; a comparison of different proxy approaches to consider human suffering (e.g., minimization of penalties or weight factors, penalties for late deliveries, equity constraints, unmet demands) and their implications; and an analysis of the impacts of errors in estimation. In its final sections, the paper conducts numerical experiments to illustrate the comparative impacts of using the proxy approaches suggested in the literature, and concludes with a discussion of key findings.
Proton acceleration by plasma wakefield driven by an intense proton beam
Authors: Yi Longqing , Shen Baifei , Ji Liangliang , Zhang Xiaomei , Wang Wenpeng , Xu Jiancai , Yu Yahong , Wang Xiaofeng , Shi Yin , Xu Zhizhan 
Published: June 2013

AbstractPlasma wakefield excited by a short TeV-scale proton beam is investigated in the highly nonlinear regime. Analysis of the “bubble” field illustrates that transverse expelling force of the wakefield can be compensated by the attractive force, which originates from the co-propagating electrons within the proton bunch, leading to a collimation effect that stabilizes the beam propagation. The protons located in the beam tail can be well-confined and accelerated forward for a long distance. Two-dimensional simulations show that after a 1-TeV proton bunch propagating through plasma for a distance, several percentages of the protons achieve a remarkable energy gain. This scheme presents a potential that proton beams from conventional accelerators may gain considerable additional energy through plasmas wakefields.
Measuring Subjective Resilience despite Adversity due to Family, Peers and Teachers
Authors: Alonso-Tapia Jesús , Nieto Carmen , Ruíz Miguel A. 
Published: June 2013

AbstractThe objective of this study is to develop and validate a scale of subjective resilience for students 12–17 years old. Items covered adverse situations due to parents’, peers’ and teachers’ actions. The validation process included the analysis on the generalizability of the factor structure and of relationships of resilience scores with different kinds of protective and vulnerability factors -goal orientations and learning-oriented classroom motivational climate (CMC)-. A total of 471 students answered four questionnaires. Confirmatory factor analyses, reliability analysis and correlation and regression analyses were carried out. Results showed: (a) that factor structure was well defined; (b) that resilience scale had good reliability; (c) that scores correlated as expected with protective-vulnerability factors such as goal orientations and CMC defined by teachers’ teaching-patterns, and (d) that students’ attribution of perceived change in resilience to teachers’ work depended on the degree in which CMC was learning oriented. Theoretical and practical implications are discussed.
Cardiovascular Response to Psychosocial Repeated Stress in Caregivers of Offspring with Schizophrenia
Authors: González-Bono Esperanza , de Andrés-Garcia Sara , Romero-Martínez Ángel , Moya-Albiol Luis 
Published: June 2013

AbstractTaking care of offspring suffering a long-term illness such as schizophrenia is one of the more stressful life experiences. Care conditions may act as a protective factor in the health of the caregiver. The present study assesses heart rate (HR), blood pressure (BP), and mood responses to psychosocial stress in 16 mothers receiving specialised support for the care of their offspring (CARE+) and in 11 mothers caring for their offspring without support (CARE−). The CARE− group take care of less functional and more symptomatic offspring; and display higher basal, but lower HR, responses after stress than the CARE+ group. No significant group effects were found for BP. For mood states, there were significant decreases in the anger subscale in the CARE− group that were not found in the CARE+ group. HR was related to active and passive coping styles, trait anxiety, and years spent providing care. In the total sample, other significant relationships between cardiovascular responses and life events and personality traits have been found. In sum, the data suggests that specialised support for patients may modulate cardiovascular responses to repeated stress in caregivers.
Speech Recognition and Subjective Perceptions of Neck-Loop FM Receivers With Cochlear Implants
Authors: Schafer Erin C. , Huynh Christy , Romine Denise , Jimenez Rebecca 
Published: June 2013

Purpose
The goal of this investigation was to determine the potential benefit of using electromagnetically coupled frequency modulation (FM) neck-loop receivers to address common communication difficulties of adults and adolescents with cochlear implants (CIs).

Method
Fourteen participants with CIs used the neck-loop FM receiver for a trial period and participated in pre- and posttrial sessions consisting of speech-recognition-in-noise measures with and without the FM system and a subjective rating scale. Most participants also recorded their experiences during the FM-system trial period in a journal.

Results
The results suggested significantly improved speech recognition in noise with the neck-loop FM system before and after the trial period, with no changes in performance between test sessions. On average, the rating scale and journals revealed improvements with the FM system, relative to the CI alone, in noisy environments or situations at a distance from the primary talker or sound source.

Conclusion
The results of the study suggest that neck-loop FM receivers significantly improved speech recognition in noise and everyday listening challenges of people using the CIs in 2 separate test sessions. Additional research is warranted for other types of neck-loop receivers and CI sound processors.
Survey of Audiologists and Cerumen Management
Authors: Johnson Carole E. , Danhauer Jeffrey L. , Rice Emma N. , Fisher Sarah Kate 
Published: June 2013

Purpose
Cerumen management (CM) is within the scope of practice of audiology, and the Doctor of Audiology (AuD) is now the entry-level degree for persons practicing the profession. However, little recent information is available about whether and how CM is presently being taught in AuD programs or even if and how audiologists are currently practicing CM. This study surveyed audiologists about their training for, experience with, opinions about, and practices involving CM.

Method
A questionnaire was designed for this study and was e-mailed with a link to Surveymonkey.com in April and May 2011 to 1,575 audiologists with AuD degrees, randomly sampled from the American Academy of Audiology's membership directory.

Results
The return rate was 29% (447 returned). Overall, 69% of these audiologists performed CM compared to only 29% reported in earlier studies. More audiologists in private practice (87%) performed CM than those in medical settings (65%). Almost half (48%) of the audiologists who had completed residential AuD programs believed that their training programs inadequately prepared them to perform CM.

Conclusion
More audiologists are performing CM than in the past. The respondents reported that they were inadequately trained in CM and believed that educational programs need to improve their coverage of CM.
Development of a Formative and Summative Assessment System for AuD Education
Authors: Emanuel Diana C. , Robinson Candace G. , Korczak Peggy 
Published: June 2013

Purpose
This article provides an overview of a comprehensive assessment system that documents that students have obtained the skills and knowledge necessary to obtain a Doctor of Audiology (AuD) degree.

Method
The individual components of the assessment system; rationale for development of each assessment; and grading criteria, outcomes measures, faculty commentary, missteps, and successes of the system are discussed.

Conclusion
Carefully planned and dynamic assessments can be integrated successfully into the AuD students' program of study with generally reasonable expectations for faculty workload. It is crucial for program directors to continually assess the system used to document student learning and to make modifications based on formal and informal feedback from students, faculty, alumni, evidence-based clinical practice, and clinical preceptors.
Design of compact dual‐band quadruple planar inverted‐F antenna
Authors: Tae H.S. , Oh K.S. , Lee W.S. , Moon S.M. , Yu J.W. 
Published: June 2013

Presented is a new compact dual‐band quadruple planar inverted‐F antenna (QPIFA) radiating right‐hand circular polarisation characteristics. The size of the proposed dual‐band QPIFA is 35 × 35 × 10 mm3 and the experimental results exhibit a peak gain of 2.5/4.5 dBic and an axial ratio under 1.5 dB in two target frequencies.
Compact 50–62 GHz current‐reused low‐noise amplifier with gate‐drain transformer feedback
Authors: Feng Chen , Yu Xiaopeng , Lim Wei Meng , Gu Jiangmin , Sui Wenquan 
Published: June 2013

A compact two‐stage 50–62 GHz low‐noise amplifier is proposed. Gate‐drain transformer feedback and the current‐reuse technique are employed to achieve input impedance matching, a low noise figure and low power dissipation simultaneously. The proposed low‐noise amplifier, implemented in the Global Foundries 65 nm CMOS process, exhibits a peak gain of 11.8 dB at 58.5 GHz and a minimum noise figure of 5.6 dB. It consumes 15.4 mW from 1.5 V supply with a small area of 0.12 mm2 including all testing pads.
Compact dual‐band bandpass filter with ultra‐wide upper‐stopband
Authors: Wei X.B. , Yue G.T. , Liao J.X. , Wang P. , Xu Z.Q. , Shi Y. 
Published: June 2013

Proposed is a compact dual‐band bandpass filter (BPF) using stepped impedance resonators (SIRs). To improve the upper‐stopband of the proposed filter, tri‐section folded SIRs are used. By adjusting the impedance ratio and electronical length ratio of the tri‐section SIR, the out‐of‐band of the filter can be improved. A 2.09/2.62 GHz dual‐band experimental BPF has been designed and fabricated to demonstrate the proposed method. The measured results are in good agreement with the electromagnetic simulation. The spurious frequencies of the upper‐stopband are suppressed below 20 dB from 2.79 to 22.13 GHz. The circuit only occupies 0.29 λg × 0.13 λg.
Trapezoid UWB antenna with dual band‐notched characteristics for WiMAX/WLAN bands
Authors: Wang Junhui , Yin Yingzeng , Liu Xianglong , Wang Tuo 
Published: June 2013

A trapezoid monopole antenna with dual band‐notched characteristics for UWB is presented. The antenna consists of a trapezoid patch and a rectangular ground plane. To realise dual notched‐band characteristics, a U‐shaped stub and a T‐shaped stub are embedded in two trapezoid slots of the radiation patch, respectively. The measured results show that the proposed dual notched‐bands planar has an impedance bandwidth of 3–11 GHz for VSWR < 2, except two frequency notched bands of 3.3–3.7 GHz (WiMAX band) and 5.15–5.825 GHz (WLAN band). Both the measured and simulated results of the proposed antenna are presented, indicating that the antenna is a good candidate for UWB applications.
Sipros/ProRata: a versatile informatics system for quantitative community proteomics
Authors: Wang Yingfeng , Ahn Tae-Hyuk , Li Zhou , Pan Chongle 
Published: June 2013

Abstract
Summary: Sipros/ProRata is an open-source software package for end-to-end data analysis in a wide variety of community proteomics measurements. A database-searching program, Sipros 3.0, was developed for accurate general-purpose protein identification and broad-range post-translational modification searches. Hybrid Message Passing Interface/OpenMP parallelism of the new Sipros architecture allowed its computation to be scalable from desktops to supercomputers. The upgraded ProRata 3.0 performs label-free quantification and isobaric chemical labeling quantification in addition to metabolic labeling quantification. Sipros/ProRata is a versatile informatics system that enables identification and quantification of proteins and their variants in many types of community proteomics studies.
Availability: Both programs are freely available under the GNU GPL license at Sipros.omicsbio.org and ProRata.omicsbio.org.
Contact: panc@ornl.gov
Supplementary information: Supplementary data are available at Bioinformatics online.
Multilabel classification for exploiting cross-resistance information in HIV-1 drug resistance prediction
Authors: Heider Dominik , Senge Robin , Cheng Weiwei , Hüllermeier Eyke 
Published: June 2013

Abstract
Motivation: Antiretroviral treatment regimens can sufficiently suppress viral replication in human immunodeficiency virus (HIV)-infected patients and prevent the progression of the disease. However, one of the factors contributing to the progression of the disease despite ongoing antiretroviral treatment is the emergence of drug resistance. The high mutation rate of HIV can lead to a fast adaptation of the virus under drug pressure, thus to failure of antiretroviral treatment due to the evolution of drug-resistant variants. Moreover, cross-resistance phenomena have been frequently found in HIV-1, leading to resistance not only against a drug from the current treatment, but also to other not yet applied drugs. Automatic classification and prediction of drug resistance is increasingly important in HIV research as well as in clinical settings, and to this end, machine learning techniques have been widely applied. Nevertheless, cross-resistance information was not taken explicitly into account, yet.
Results: In our study, we demonstrated the use of cross-resistance information to predict drug resistance in HIV-1. We tested a set of more than 600 reverse transcriptase sequences and corresponding resistance information for six nucleoside analogues. Based on multilabel classification models and cross-resistance information, we were able to significantly improve overall prediction accuracy for all drugs, compared with single binary classifiers without any additional information. Moreover, we identified drug-specific patterns within the reverse transcriptase sequences that can be used to determine an optimal order of the classifiers within the classifier chains. These patterns are in good agreement with known resistance mutations and support the use of cross-resistance information in such prediction models.
Contact: dominik.heider@uni-due.de
Supplementary information: Supplementary data are available at Bioinformatics online.
Optimizing multiple sequence alignments using a genetic algorithm based on three objectives: structural information, non-gaps percentage and totally conserved columns
Authors: Ortuño Francisco M. , Valenzuela Olga , Rojas Fernando , Pomares Hector , Florido Javier P. , Urquiza Jose M. , Rojas Ignacio 
Published: June 2013

Abstract
Motivation: Multiple sequence alignments (MSAs) are widely used approaches in bioinformatics to carry out other tasks such as structure predictions, biological function analyses or phylogenetic modeling. However, current tools usually provide partially optimal alignments, as each one is focused on specific biological features. Thus, the same set of sequences can produce different alignments, above all when sequences are less similar. Consequently, researchers and biologists do not agree about which is the most suitable way to evaluate MSAs. Recent evaluations tend to use more complex scores including further biological features. Among them, 3D structures are increasingly being used to evaluate alignments. Because structures are more conserved in proteins than sequences, scores with structural information are better suited to evaluate more distant relationships between sequences.
Results: The proposed multiobjective algorithm, based on the non-dominated sorting genetic algorithm, aims to jointly optimize three objectives: STRIKE score, non-gaps percentage and totally conserved columns. It was significantly assessed on the BAliBASE benchmark according to the Kruskal–Wallis test (P &lt; 0.01). This algorithm also outperforms other aligners, such as ClustalW, Multiple Sequence Alignment Genetic Algorithm (MSA-GA), PRRP, DIALIGN, Hidden Markov Model Training (HMMT), Pattern-Induced Multi-sequence Alignment (PIMA), MULTIALIGN, Sequence Alignment Genetic Algorithm (SAGA), PILEUP, Rubber Band Technique Genetic Algorithm (RBT-GA) and Vertical Decomposition Genetic Algorithm (VDGA), according to the Wilcoxon signed-rank test (P &lt; 0.05), whereas it shows results not significantly different to 3D-COFFEE (P &gt; 0.05) with the advantage of being able to use less structures. Structural information is included within the objective function to evaluate more accurately the obtained alignments.
Availability: The source code is available at http://www.ugr.es/∼fortuno/MOSAStrE/MO-SAStrE.zip.
Contact: fortuno@ugr.es
Supplementary Information: Supplementary material is available at Bioinformatics online.