bluuebunny/crossref_metadata_2025_split huggingface dataset:
BiobankUniverse: automatic matchmaking between datasets for biobank data discovery and integration
Authors: Pang Chao , Kelpin Fleur , van Enckevort David , Eklund Niina , Silander Kaisa , Hendriksen Dennis , de Haan Mark , Jetten Jonathan , de Boer Tommy , Charbon Bart , Holub Petr , Hillege Hans , Swertz Morris A 
Published: August 2017

Abstract

Motivation
Biobanks are indispensable for large-scale genetic/epidemiological studies, yet it remains difficult for researchers to determine which biobanks contain data matching their research questions.

Results
To overcome this, we developed a new matching algorithm that identifies pairs of related data elements between biobanks and research variables with high precision and recall. It integrates lexical comparison, Unified Medical Language System ontology tagging and semantic query expansion. The result is BiobankUniverse, a fast matchmaking service for biobanks and researchers. Biobankers upload their data elements and researchers their desired study variables, BiobankUniverse automatically shortlists matching attributes between them. Users can quickly explore matching potential and search for biobanks/data elements matching their research. They can also curate matches and define personalized data-universes.

Availability and implementation
BiobankUniverse is available at http://biobankuniverse.com or can be downloaded as part of the open source MOLGENIS suite at http://github.com/molgenis/molgenis.

Supplementary information
Supplementary data are available at Bioinformatics online.
Growth and condition in relation to the lack of recovery of northern cod
Authors: Morgan M Joanne , Koen-Alonso Mariano , Rideout Rick M , Buren Alejandro D , Maddock Parsons Dawn 
Published: August 2017

Abstract
Growth and condition in fishes have been taken as indicating levels of energy available for survival and reproduction, major components of a population’s productivity. After a rapid collapse in population size, northern (NAFO Division 2J3KL) cod (Gadus morhua) remained at a very low level of abundance for 20 years. We investigated the potential for poor growth and condition to have played a role in the collapse and lack of recovery of northern cod. Juveniles and adult males and females all showed similar patterns. Perceptions about the importance of growth and condition to population status depended on the metrics and area examined. When the northern cod population was declining, the northern areas of the population clearly had reduced growth and condition, while these metrics improved in the south. Results were equivocal as to the potential role of growth and condition in the continued low abundance of northern cod and, to some extent, depended on the nature of the metric being examined. Indices of condition, which included lipid storage in the form of liver weight, were generally lower in the north while the stock remained at a low level. Metrics associated with longer-term protein storage returned to precollapse levels quickly following the period of collapse. An index of food availability was more closely related to growth and condition than was temperature. These results point to the need both for studies of growth and condition in a population to have a comprehensive time-series of data covering the entire range of the population and the need for a better understanding of the causes and implications of changes in different metrics of condition.
Disruptive Behavior
Authors: Steiner Hans , Daniels Whitney , Stadler Christina , Kelly Michael 
Published: August 2017

Abstract
Disruptive behavior is extremely common in normal and clinical populations. This book addresses its development, the newly grouped diagnoses associated with it (disruptive behavior disorders), and their biopsychosocial causes and treatment. The past decade has seen a great deal of progress in the psychiatric and psychological literature, which has greatly advanced our understanding of these disorders. The book discusses state-of-the-art studies of taxonomy, epidemiology, etiology, and treatment. Each chapter concludes with a thorough discussion of the clinical implications of this new information, exemplified by real case material. A whole chapter is devoted to the forensic implications of this important grouping of disorders. The chapter begins with a discussion of the exemplary cases in the legal literature, providing the clinician and the expert with a concise briefing of the legal underpinnings of these disorders, which in essence seek to bring the world of medicine to the world of crime. The final chapter provides a concise summary of all preceding chapters, summarizing what we have learned and showing the way into the future in terms of basic research, translational research, and clinical practice. Sources and resources are provided for clinicians, researchers, teachers, primary care physicians, criminologists, forensic experts, and interested lay people.
Factors Influencing Physicians' Selection of Continuous Professional Development Activities: A Cross-Specialty National Survey
Authors: Cook David A. , Price David W. , Wittich Christopher M. , West Colin P. , Blachman Morris J. 
Published: August 2017

Introduction:
We sought to understand what influences physicians' decisions about participation in continuous professional development (CPD) activities, and how often physicians engage in specific CPD activities.

Methods:
From September 2015 to April 2016, we administered a survey to 4648 randomly sampled licensed US physicians. Survey items addressed perceived barriers to CPD, factors that might influence participation in four prototypical CPD activities (reading an article, or completing a local activity, online course, or far-away course), and frequency of CPD engagement.

Results:
Nine hundred eighty-eight (21.6%) physicians responded. The most important barriers were time (mean [SD] 3.5 [1.3], 1 = not important, 5 = extremely important) and cost (2.9 [1.3]). In prioritizing factors influencing participation in four prototypical CPD activities, topical relevance consistently had the highest average rank. Quality of content and time to complete the activity were also frequently selected. Over the past 3 years, most physicians reported having participated in patient-focused learning and self-directed learning on a weekly basis; quality improvement and local continuing medical education (CME) activities several times per year; online learning, on-site courses, and national board-related activities a few times per year; and interprofessional learning less than once per year. Physicians believed that they ought to engage more often in all of these activities except board-related activities. They would like CME credit for these activities much more often than currently obtained.

Discussion:
The reasons physicians select a given CPD activity vary by activity, but invariably include topic and quality of content. Physicians want CME credit for the CPD activities they are already doing.
Advanced Age is Not a Contraindication for Treatment With Curative Intent in Esophageal Cancer
Authors: Voncken Francine E.M. , van der Kaaij Rosa T. , Sikorska Karolina , van Werkhoven Erik , van Dieren Jolanda M. , Grootscholten Cecile , Snaebjornsson Petur , van Sandick Johanna W. , Aleman Berthe M.P. 
Published: August 2017

Objectives:
The objective of this study is to compare long-term outcomes between younger and older (70 y and above) esophageal cancer patients treated with curative intent.

Materials and Methods:
Overall survival (OS), disease-free survival (DFS), and locoregional recurrence-free interval were compared between older (70 y and above) and younger (below 70 y) esophageal cancer patients treated between 1998 and 2013. Treatment consisted of neoadjuvant chemoradiotherapy with surgery or definitive chemoradiotherapy: 36 to 50.4 Gy in 18 to 28 fractions combined with 5-fluorouracil/cisplatin or carboplatin/paclitaxel.

Results:
The study comprised 253 patients, of whom 76 were 70 years and older. Median age was 64 years (range, 41 to 83). Most patients had stage II-IIIA disease (83%). Planned treatment was neoadjuvant chemoradiotherapy with surgery for 169 patients (41 patients aged 70 y and older) and definitive chemoradiotherapy for 84 patients (31 patients aged 70 y and older). The compliance to radiotherapy was 92%, with no difference between older and younger patients. In 33 patients (13 patients aged 70 y and older) planned surgery was not performed. Median follow-up was 4.9 years. Three-year OS was 42%. The multivariable analysis showed no statistical difference in OS or in DFS comparing older and younger patients: OS (hazard ratio [HR], 0.88; 95% confidence interval [CI], 0.61-1.28), DFS (HR, 0.87; 95% CI, 0.60-1.25). Elderly showed a longer locoregional recurrence-free interval; HR, 0.53 (95% CI, 0.30-0.92; P=0.02) and a higher pathologic complete response rate (50% vs. 25%; P=0.02).

Conclusions:
Long-term outcomes of older esophageal cancer patients (70 y and above) selected for treatment with neoadjuvant chemoradiotherapy followed by surgery or definitive chemoradiotherapy were comparable with the outcomes of their younger counterparts. Advanced age alone should not be a contraindication for potentially curative chemoradiotherapy-based treatment in esophageal cancer patients.
Surgical Intervention in Gastric Carcinoid is Associated With Improved Survival in Local and Regional Disease
Authors: Callahan Ann F. , White Michael , Ituarte Philip , Gagandeep Singh , Woo Yanghee , Fong Yuman , Melstrom Laleh 
Published: August 2017

Introduction:
Gastric carcinoid is a rare entity with complex management options. This study aims to determine if surgical intervention in patients with local, regional, and metastatic gastric carcinoid is associated with prolonged survival.

Materials and Methods:
The California Cancer Registry merged with the California Office of Statewide Health Planning and Development was queried for patients with a diagnosis of gastric carcinoid (2000 to 2011). Clinicopathologic characteristics, management, and outcomes were evaluated.

Results:
There were 1012 patients with a diagnosis of gastric carcinoid identified. The median age was 63 (range, 18 to 99) and the majority of patients were women (615, 60.7%). Most patients had localized disease (644, 64%), whereas 9.4% (95) had regional and 13.4% (133) had distant metastases at diagnosis. The majority of patients underwent gastric surgery (56.7%, n=574 vs. 43.2%, n=438). Prolonged survival was associated with gastric surgery in patients with both local (median survival not reached; P<0.0001) and regional disease (27 mo with surgery vs. 5 mo with no surgery; P=0.0007). In patients who underwent gastrectomy and resection of hepatic metastasis, the survival approached those patients who had surgery for only regional disease (26 vs. 27 mo, P=0.8721).

Conclusions:
Although the biology of the disease is the most significant predictor of overall outcome, when technically feasible and where comorbidities allow, aggressive endoscopic or surgical intervention should be offered for local and locoregional diseases, respectively.
A Phase I Clinical Trial of the Phosphatidylserine-targeting Antibody Bavituximab in Combination With Radiation Therapy and Capecitabine in the Preoperative Treatment of Rectal Adenocarcinoma
Authors: Meyer Jeffrey , Arriaga Yull , Anandam Joselin , Karri Sirisha , Syed Samira , Verma Udit , Abdelnaby Abier , Raja Grace , Dong Ying , Beg Muhammad Shaalan , Balch Glen 
Published: August 2017

Objectives:
There is interest in improving the tumoricidal effects of preoperative radiotherapy for rectal carcinoma by studying new radiosensitizers. The safety and toxicity profile of these combination regimens needs rigorous clinical evaluation. The primary objective of this study was to evaluate the toxicity of combining bavituximab, an antibody that targets exposed phosphatidylserine, with capecitabine and radiation therapy.

Materials and Methods:
Patients with stage II or III rectal adenocarcinoma were enrolled on a phase I study combining radiation therapy, capecitabine, and bavituximab. A standard 3+3 trial designed was used.

Results:
In general, bavituximab was safe and well tolerated in combination with radiation therapy and capecitabine in the treatment of rectal adenocarcinoma. One patient at the highest dose level experienced a grade III infusion reaction related to the bavituximab. One tumor demonstrated a complete pathologic response to the combination treatment.

Conclusions:
Bavituximab is safe in combination with capecitabine and radiation therapy at the doses selected for the study. Further clinical investigation would be necessary to better define the efficacy of this combination.
Application of the 21-item Vulvovaginal Symptoms Questionnaire in postmenopausal Spanish women
Authors: Fernández-Alonso Ana M. , Alcaide-Torres Javier , Fernández-Alonso Isabel M. , Chedraui Peter , Pérez-López Faustino R. 
Published: August 2017

Abstract

Objective:
To assess vulvovaginal symptoms and urinary incontinence in postmenopausal women. Secondarily to evaluate factors related to the severity of vulvovaginal symptoms and the internal consistency of the used tools.

Methods:
In this cross-sectional study, the Spanish language version of the 21-item Vulvovaginal Symptoms Questionnaire (VSQ) and the 3-item International Consultation on Incontinence Questionnaire (ICIQ-SF) were applied to 122 postmenopausal Spanish women aged 45 to 75 years.

Results:
Mean age of the whole sample was 59.5 ± 4.9 years; 89.3% had natural menopause, 77.9% reported vulvovaginal symptoms, 54.9% had urinary incontinence, 54.1% were sexually active, and 77.0% currently had a partner. Calculated Cronbach's alpha coefficients were 0.87 and 0.88 for the VSQ and the ICIQ-SF, respectively. Multiple linear regression analysis determined that total VSQ scores (more severe vulvovaginal symptoms) were positively correlated with female age, parity, surgical menopause, being sexually active, economic problems, phytoestrogen use, and more severe urinary incontinence. An inverse correlation was found with urban residency and time since menopause onset.

Conclusions:
Internal consistency of the VSQ and the ICIQ-SF was good in this postmenopausal sample in which age, sexual activity, urinary incontinence, drug use, and other personal aspects were important covariates determining the severity of vulvovaginal symptoms.
Relative contribution of obesity and menopause to the association between serum adiponectin and incident metabolic syndrome
Authors: Ahn Song Vogue , Jung Dong-Hyuk , Yadav Dhananjay , Kim Jang-Young , Koh Sang-Baek 
Published: August 2017

Abstract

Objective:
Metabolic syndrome is closely linked to obesity. Menopause may play a critical role in understanding the pathophysiology of metabolic syndrome in women. We investigated the relative contribution of obesity and menopause to the association between serum adiponectin levels and the development of metabolic syndrome.

Methods:
A prospective cohort study was conducted in which a total of 1,219 women without metabolic syndrome were examined at baseline (2005-2008) and followed up (2008-2011). Women were divided according to tertiles of serum adiponectin levels and menopause status, and then stratified into four groups: the nonobese with high adiponectin; the nonobese with low adiponectin; the obese with high adiponectin; and the obese with low adiponectin.

Results:
During an average 2.5-year follow-up, 44 premenopausal women (9.8%) and 161 postmenopausal women (20.9%) developed metabolic syndrome. The obese group with low serum adiponectin demonstrated an increased risk for developing metabolic syndrome in both premenopausal (odds ratio [OR] 5.92, 95% confidence interval [CI] 2.24-15.66) and postmenopausal women (OR 4.22, 95% CI 2.41-7.36). However, the inverse association between serum adiponectin levels and incidence of metabolic syndrome was observed in premenopausal women with obesity (OR 0.16, 95% CI 0.03-0.81), but not in postmenopausal women with obesity (OR 0.55, 95% CI 0.27-1.14).

Conclusions:
High serum adiponectin levels showed no inverse association with metabolic syndrome in postmenopausal women with obesity. These findings may suggest a need for closer management of metabolic risk in postmenopausal women.
Optic Nerve Head Drusen: Imaging Using Optical Coherence Tomography Angiography
Authors: Flores-Reyes Elsa , Hoskens Kirsten , Mansouri Kaweh 
Published: August 2017

Purpose:
To describe findings and utility of optical coherence tomography angiography (OCTA) in optic nerve head drusen (ONHD).

Observations:
A 57-year-old white man presented with a decrease in contrast sensitivity of the inferior visual field in both eyes. Clinical examination, visual fields, optical coherence tomography, fundus autofluorescence and OCTA revealed ONHD bilaterally. A focal decrease in vessel density within the localization of ONHD in both eyes was demonstrated suggesting a connection between those findings.

Conclusions and Importance:
This is the first report in which peripapillary vessel density is analyzed using OCTA technology for this entity. OCTA could confirm the diagnosis and has the potential to assist with the diagnosis and evaluation of progression of ONHD.
Cytomegalovirus Infection in Pediatric Severe Ulcerative Colitis—A Multicenter Study from the Pediatric Inflammatory Bowel Disease Porto Group of the European Society of Pediatric Gastroenterology, Hepatology and Nutrition
Authors: Cohen Shlomi , Martinez-Vinson Christine , Aloi Marina , Turner Dan , Assa Amit , de Ridder Lissy , Wolters Victorien M. , de Meij Tim , Alvisi Patrizia , Bronsky Jiri , Kopylov Uri 
Published: August 2017

Background:
Data on the clinical course and outcomes of pediatric patients with cytomegalovirus (CMV) infection complicating acute severe ulcerative colitis (ASC) are very limited. The aim of our study was to compare outcomes of children with ASC who were CMV positive or CMV negative.

Methods:
This was a multicenter retrospective case-controlled study, from centers affiliated with the Pediatric Inflammatory Bowel Disease Porto Group of European Society of Pediatric Gastroenterology, Hepatology, and Nutrition. We included CMV-positive children hospitalized for ASC and compared their colectomy rate during hospitalization and up to 1 year thereafter, matched with CMV-negative controls.

Results:
A total of 56 children were included; 15 CMV positive and 41 CMV negative. More CMV-positive patients were resistant to intravenous corticosteroids as compared with CMV negative (93% and 56% respectively, P = 0.009). Fourteen of the CMV-positive children (93%) were treated with ganciclovir [5/14 (36%) with 5 mg/kg and 9/14 (64%) with 10 mg/kg]. During hospitalization, 3 (20%) CMV-positive and 3 (7.8%) CMV-negative patients required colectomy (P = 0.17). By 12 months, 5 (33%) and 5 (13%) CMV-positive and CMV-negative patients required colectomy, respectively (P = 0.049); the significance was not retained on multivariate analysis.

Conclusions:
A higher prevalence of CMVpositivity was found in pediatric ulcerative colitis patients who required colectomy within 12 months of hospitalization for ASC. Further studies are needed to clarify the impact of CMV infection on the outcome of acute severe colitis in pediatric patients.
Congenital Cytomegalovirus Infection After a Multiple Birth Pregnancy
Authors: Shmueli Einat , Hadar Eran , Pardo Joseph , Attias Joseph , Amir Jacob , Bilavsky Efraim 
Published: August 2017

Background:
Congenital cytomegalovirus (cCMV) infection is an important cause of hearing loss and neurodevelopment delay. While data on vertical transmission and neonatal outcome after singleton pregnancy with cCMV are well established, only scarce reports have addressed cCMV in multiple birth pregnancies. Furthermore, no studies have yet compared the outcome after birth and long-term follow-up of children with cCMV born after a singleton versus multiple pregnancies.

Methods:
Infant outcome after birth of symptomatic versus asymptomatic infection was compared for infants born with cCMV after multiple (study group) and singleton (control group) pregnancies in a 1:2 ratio.

Results:
Of 508 infants diagnosed with cCMV, 25 (4.9%) were born after a multiple pregnancy. Children in the study and control groups did not differ in terms of specific prenatal CMV investigations including amniocentesis and brain magnetic resonance imaging studies. However, prematurity rates were significantly higher in the study compared with control group (52% vs. 4%, P < 0.001). There was a higher rate of symptomatic cCMV infection in the study group than in the controls (48% vs. 14%, P < 0.001). Hearing impairment at birth was also more frequent in the study group (32% vs. 8%, P = 0.016). A long-term follow-up demonstrated that children in the study group had higher rates of neurologic sequelae (hearing impairment or neurodevelopmental delay) compared with children in the control group (20% vs. 4%, P = 0.016).

Conclusions:
Infants with cCMV born after multiple birth pregnancies are born earlier and have a higher risk of symptomatic disease at birth and worse long-term neurologic outcome than those born after a singleton pregnancy. This important group of children warrants meticulous prenatal and postnatal care.
Psychological interventions that target sleep reduce pain catastrophizing in knee osteoarthritis
Authors: Lerman Sheera F. , Finan Patrick H. , Smith Michael T. , Haythornthwaite Jennifer A. 
Published: August 2017

Abstract
Pain catastrophizing is a significant risk factor for patients with knee osteoarthritis (KOA) and thus is a target for many psychological interventions for pain. This study examined if interventions targeting sleep found to be effective in improving sleep in KOA also reduce pain catastrophizing measured as a trait through the pain catastrophizing scale and measured as a daytime and nocturnal state through daily diaries. Secondary analyses were conducted on data collected as part of a randomized controlled trial assessing the effectiveness of cognitive behavioral therapy for insomnia in patients with KOA at 5 different time points: pretreatment, midtreatment and posttreatment and at 3- and 6-month follow-up. One hundred patients diagnosed with KOA and insomnia were randomized to receive either 8 sessions of cognitive behavioral therapy for insomnia or a placebo intervention of behavioral desensitization. Multilevel modeling revealed that both intervention groups showed a significant reduction pretreatment to posttreatment in all 3 measures of pain catastrophizing and maintained stable levels through the 6-month follow-up. Increased sleep continuity early in treatment (pretreatment to midtreatment), but not reductions in pain, was associated with a reduction in trait and nocturnal catastrophizing later in treatment (midtreatment to posttreatment). These results suggest that short interventions focusing on sleep can significantly reduce pain catastrophizing even in a clinical population with low baseline levels of catastrophizing, possibly through improving sleep continuity.