bluuebunny/crossref_metadata_2025_split huggingface dataset:
Implementation and Feasibility of Electronic Patient-Reported Outcome (ePRO) Data Entry in the PRAEGNANT Real-Time Advanced and Metastatic Breast Cancer Registry
Authors: Wallwiener Markus , Heindl Felix , Brucker Sara , Taran Florin-Andrei , Hartkopf Andreas , Overkamp Friedrich , Kolberg Hans-Christian , Hadji Peyman , Tesch Hans , Ettl Johannes , Lux Michael , Rauh Claudia , Blum Simon , Nabieva Naiba , Brodkorb Tobias , Faschingbauer Cornelia , Langemann Hanna , Schulmeyer Carla , Volz Bernhard , Rübner Matthias , Lüftner Diana , Müller Volkmar , Belleville Erik , Janni Wolfgang , Fehm Tanja , Wallwiener Diethelm , Ganslandt Thomas , Beckmann Matthias , Schneeweiss Andreas , Fasching Peter , Gass Paul 
Published: December 2017

Abstract
Purpose Patient-reported outcomes (PROs) have been incorporated into clinical trials for many symptoms and medical conditions. A transition from paper-based capture of PROs to electronic PROs (ePROs) has recently started. This study reports on the feasibility of ePRO assessment in a prospective registry including molecular data for patients with advanced breast cancer.
Methods As part of the PRAEGNANT network, patients were invited by clinical trial staff, physicians, and nurses to complete three standardized Internet-based questionnaires (EQ-5D-5L, CES-D and IPAQ). Feasibility was assessed by the staff members who assigned the user accounts by the patients. The completeness of the questionnaires was also assessed.
Results Fifteen of 17 patients who were asked agreed to participate to complete the PRO questionnaires (EQ-5D-5L and CES-D). However, the IPAQ (physical activity) questionnaire was only validly completed by 9 patients. Feasibility was ranked better by the physicians and dedicated clinical trial staff than by the nursing staff.
Conclusions Incorporating ePRO questionnaires into an advanced breast cancer registry is feasible, and no major hurdles were reported. Involving stakeholders from the start, the application is tailored to the capacities and abilities of both patients and clinical staff. The patients’ compliance was better with some questionnaires, butothers may present difficulties.
Genetic Engineering and Risk in Varietal Selection of Potatoes
Authors: Fuller Kate Binzen , Brester Gary W , Boland Michael A 
Published: December 2017

AbstractThe objective of this case study is to examine the farm management decision of whether to adopt a new, genetically engineered potato variety. We describe the potato supply chain from seed production to final consumer products and explore how price and production risk interact to influence decision making at each link in that chain. We provide extensive supplemental material as well, including a teaching note with assignment and/or discussion questions, an introduction to and application of stakeholder theory, and a tool that assists students in calculating expected and simulated actual returns from their choice of potato variety.
GIGI-Quick: a fast approach to impute missing genotypes in genome-wide association family data
Authors: Kunji Khalid , Ullah Ehsan , Nato Alejandro Q , Wijsman Ellen M , Saad Mohamad 
Published: December 2017

Abstract

Summary
Genome-wide association studies have become common over the last ten years, with a shift towards targeting rare variants, especially in pedigree-data. Despite lower costs, sequencing for rare variants still remains expensive. To have a relatively large sample with acceptable cost, imputation approaches may be used, such as GIGI for pedigree data. GIGI is an imputation method that handles large pedigrees and is particularly good for rare variant imputation. GIGI requires a subset of individuals in a pedigree to be fully sequenced, while other individuals are sequenced only at relevant markers. The imputation will infer the missing genotypes at untyped markers. Running GIGI on large pedigrees for large numbers of markers can be very time consuming. We present GIGI-Quick as a method to efficiently split GIGI’s input, run GIGI in parallel and efficiently merge the output to reduce the runtime with the number of cores. This allows obtaining imputation results faster, and therefore all subsequent association analyses.

Availability and and implementation
GIGI-Quick is open source and publicly available via: https://cse-git.qcri.org/Imputation/GIGI-Quick.

Supplementary information
Supplementary data are available at Bioinformatics online.
Sustaining the ‘Good Life’: Buen Vivir as an alternative to sustainable development
Authors: Chassagne Natasha 
Published: December 2017

AbstractThis article analyses the ways the Latin American concept of Buen Vivir has been discussed by postdevelopment scholars as a possible alternative to development that goes beyond the traditional anthropocentric development model towards sustainability and wellbeing. Instituted as a reaction to the need for development to consider the biophysical limits of the environment, sustainable development (SD) critics argue that it has not achieved its aims of ensuring social wellbeing and protecting the world’s natural resources for future generations. There is now an impetus towards alternatives to the status quo. Rather than becoming a radically opposing ideology, Buen Vivir provides the opportunity to meet the core aims of SD through a plural, yet alternative approach. This conceptual article is a critical review of academic, policy and popular discourse on the concept of Buen Vivir as an alternative to development. It analyses its strengths and weaknesses as an alternative to SD discourse, examining its core principles and contested definitions, discussing its viability to translate from an emergent alternative discourse to a plural and practical resource for communities to achieve the common aims for sustainability and wellbeing.
Thom Polynomials and the Green–Griffiths–Lang Conjecture for Hypersurfaces with Polynomial Degree
Authors: Bérczi Gergely 
Published: December 2017

Abstract
Green and Griffiths [25] and Lang [29] conjectured that for every complex projective algebraic variety X of general type there exists a proper algebraic subvariety of X containing all nonconstant entire holomorphic curves $f:{\mathbb{C}} \to X$. We construct a compactification of the invariant jet differentials bundle over complex manifolds motivated by an algebraic model of Morin singularities and we develop an iterated residue formula using equivariant localisation for tautological integrals over it. Using this we show that the polynomial Green–Griffiths–Lang conjecture for a generic projective hypersurface of degree $\deg (X)>2n^{9}$ follows from a positivity conjecture for Thom polynomials of Morin singularities.
The immune checkpoint molecule VISTA regulates allergen-specific Th2-mediated immune responses
Authors: Ohno Tatsukuni , Zhang Chenyang , Kondo Yuta , Kang Siwen , Furusawa Emi , Tsuchiya Kimitake , Miyazaki Yasunari , Azuma Miyuki 
Published: December 2017

AbstractV-domain immunoglobulin suppressor of T-cell activation (VISTA) is a novel immune checkpoint receptor and ligand that regulates T-cell activation. We investigated the functional involvement of VISTA in Th2 cell-mediated immune responses using an ovalbumin (OVA)-induced allergic asthma model. Treatment with an anti-VISTA monoclonal antibody (mAb) during allergen sensitization increased the production of antibodies, including total IgE, OVA-specific IgG1 and IgG2a and allergen-specific IL-5 and IL-13; it also increased the expression of IL-13 by splenic CD4+ T cells. However, treatment with the anti-VISTA mAb during sensitization did not accelerate asthmatic responses, including airway hyper-responsiveness (AHR) or the number of eosinophils in bronchoalveolar lavage (BAL) fluid. In contrast, treatment with the anti-VISTA mAb during allergen challenge significantly augmented AHR and BAL fluid eosinophilia. This treatment also increased the production of IL-5 and IL-13 in BAL fluid and the expression of IL-13 by CD4+ T cells in draining lymph nodes. These results suggest that VISTA is involved in the regulation of Th2 cell generation and Th2 cell-mediated antibody production and regulates asthmatic responses, especially in the effector phase.
Residual Squamous Cell Carcinoma After Shave Biopsy in Solid Organ Transplant Recipients
Authors: Ilyas Muneeb , Zhang Nan , Sharma Amit 
Published: December 2017

BACKGROUND
After histopathological confirmation of a biopsy sample, cutaneous squamous cell carcinoma (cSCC) is often treated surgically; yet, residual tumor within the excision sample is not always found. The prevalence of residual cSCC after shave biopsy in solid organ transplant recipients (SOTRs) is unknown.

OBJECTIVE
Determine the prevalence of residual cSCC after shave biopsy in SOTRs.

METHODS
A retrospective case-controlled review was performed from a single center. Data were collected for 117 SOTRs and 117 age-matched nonimmunosuppressed controls diagnosed with shave biopsy–proven cSCC who underwent subsequent wide local excision from January 2004 to December 2016. Multivariable conditional logistic regression was used to determine variables associated with residual tumor in the combined population. Univariate logistic regression was used to investigate if transplant-related variables were associated with residual tumor in the SOTR group.

RESULTS
Of the 117 SOTRs, 57 (48.7%) had residual tumor within the excisional specimen. Of the 117 controls, 31 (26.5%) had residual tumor within the excisional specimen. Solid organ transplant recipients have 2.59 times greater odds of having residual cSCC after shave biopsy (95% confidence interval: 1.29–5.22, p = .0076).

CONCLUSION
Solid organ transplant recipients have a higher prevalence of residual cSCC after shave biopsy when compared with nonimmunosuppressed controls and should be prioritized for margin-controlled surgery.
Intraoperative Immunostaining for Cytokeratin-7 During Mohs Micrographic Surgery Demonstrates Low Local Recurrence Rates in Extramammary Paget's Disease
Authors: Damavandy Ali A. , Terushkin Vitaly , Zitelli John A. , Brodland David G. , Miller Christopher J. , Etzkorn Jeremy R. , Shin Thuzar M. , Cappel Mark A. , Mitkov Mario , Hendi Ali 
Published: December 2017

BACKGROUND
Extramammary Paget's disease (EMPD) is a rare intraepithelial malignancy with high recurrence rates following standard surgical treatments, ranging from 22% to 60% in large retrospective reviews.

OBJECTIVE
To evaluate the local recurrence rate of Mohs micrographic surgery (MMS) supplemented with intraoperative immunohistochemistry for cytokeratin-7 (MMS + CK-7) for primary and recurrent EMPD.

MATERIALS AND METHODS
Retrospective, multi-center, cross-sectional study of patients treated using MMS + CK-7. Demographic, clinicopathologic, treatment, and follow-up data were obtained by chart review.

RESULTS
The observed local recurrence rate for MMS + CK-7 is 3.3% (2/61 tumors) with a mean follow-up of 43.5 months (1–120 months). Local recurrence occurred in 2.3% (1/43) of primary tumors and 5.6% (1/18) of recurrent tumors. Kaplan–Meier 5-year tumor-free rates are 94.6% overall, 97.1% for primary tumors, and 80.0% for recurrent tumors. The Kaplan–Meier 5-year tumor-free rates for all EMPD tumors treated with MMS + CK-7 versus a historical cohort of MMS alone are 94.6% versus 72.0% (p = .012).

CONCLUSION
MMS + CK-7 is an effective treatment for EMPD, demonstrating improved outcomes compared with historical controls.
Static and Dynamic Balance Performance and Balance Confidence in Individuals With and Without Pulmonary Arterial Hypertension
Authors: Ozcan Kahraman Buse , Ozsoy Ismail , Savci Sema , Acar Serap , Ozpelit Ebru , Sevinc Can , Akdeniz Bahri 
Published: December 2017

Purpose:
Assessment of balance performance is important for both diagnostic and therapeutic reasons in clinical practice. Although the ideal exercise prescription is unknown for patients with pulmonary arterial hypertension (PAH), balance training may be effective for this population if they have balance impairments, such as other patients with cardiopulmonary diseases. The present study aimed to evaluate static and dynamic balance performance and balance confidence in individuals with and without PAH.

Methods:
Eighteen participants with PAH and 12 apparently healthy volunteers were included in this cross-sectional study. Balance performance was assessed by Balance Master System. Static balance performance was assessed by the modified Clinical Test of Sensory Interaction on Balance and unilateral stance test. Limits of stability was used for the assessment of dynamic balance performance. Balance confidence was determined using the Activities Balance Confidence scale.

Results:
There was no significant difference in age, gender, and body mass index between the 2 groups. There was no significant difference in modified Clinical Test of Sensory Interaction on Balance and unilateral stance variables between the patients and healthy controls. Reaction time (forward), movement velocity (backward), directional control (backward), endpoint excursion (backward), and maximum excursion (backward) variables that were the subgroups of limits of stability were significantly different between the 2 groups (P < .05). Balance confidence was significantly lower in patients with PAH (P < .001).

Conclusion:
This study suggests that although static balance performance was preserved, patients with PAH had decreased dynamic balance performance and balance confidence without a significant fall history compared with healthy controls.
SWEPT-SOURCE OPTICAL COHERENCE TOMOGRAPHY ANGIOGRAPHY ASSESSMENT OF FELLOW EYES IN COATS DISEASE
Authors: Stanga Paulo E. , Romano Francesco , Chwiejczak Katarzyna , Tsamis Emmanouil , Stringa Francesco , Biswas Susmito , Bento Goncalo , Arrigo Alessandro , Parodi Maurizio Battaglia , Bandello Francesco 
Published: December 2017

Purpose:To assess foveal and parafoveal vasculature at superficial capillary plexus (SCP), deep capillary plexus, and choriocapillaris using optical coherence tomography angiography in the fellow eyes of patients with Coats disease.Methods:Observational and prospective case series. Thirteen patients with unilateral Coats and 14 healthy age- and sex-matched controls were consecutively recruited at Manchester Royal Eye Hospital and the Department of Ophthalmology of San Raffaele Hospital. Both groups underwent complete ophthalmologic examination, including optical coherence tomography angiography (Topcon Corp) 3 mm × 3 mm scans. Images were imported into ImageJ software and binarized; foveal avascular zone area was manually outlined and vessel density analyzed in inner (foveal) and outer (parafoveal) areas of SCP, deep capillary plexus, and choriocapillaris.Results:Fellow eyes disclosed a significant increase in the foveal vessel density of SCP (P= 0.04); in particular, superior and temporal quadrants showed more marked alterations (P= 0.02 and 0.04, respectively). Analysis of foveal avascular zone area revealed a significant enlargement in the SCP (P= 0.04). No correlation was found between fellow eyes and the stage of affected eyes.Conclusion:Fellow eyes of Coats patients carry quantitative foveal vascular alterations at SCP. These may represent markers of altered inner blood–retinal barrier, due to a bilateral defect in midcapillary angiogenesis.
LONG-TERM OBSERVATION OF MULTIFOCAL METASTATIC INTRAOCULAR CARCINOID WITH ACQUIRED IRIS HETEROCHROMIA
Authors: Wolkow Natalie , Jakobiec Frederick A. , Gragoudas Evangelos S. 
Published: December 2017

Background/Purpose:
To report a unique case of a pulmonary carcinoid tumor unilaterally metastatic to the iris and ciliary body and bilaterally to the choroid that was conservatively followed.

Methods:
A 46-year-old woman presented with bilateral choroidal lesions and a left iris tumor. Ultrasound biomicroscopy disclosed a ciliary body component. A diagnosis of metastatic carcinoid tumor was made based on the clinical features. Rather than an excision, photodynamic therapy, or radiation treatment, as has been reported in all previous cases of carcinoid tumor metastatic to the iris, the patient was observed.

Results:
Excellent vision was maintained for 8 years. The iris tumor gradually enlarged, but the choroidal lesions remained unchanged. The iris with the carcinoid tumor gradually acquired a brown pigmentation; this is the first reported case of acquired iris heterochromia in the setting of carcinoid tumor.

Conclusion:
We conclude, in cases of metastatic carcinoid in which visual acuity is excellent and the patient is asymptomatic, that observation of the ocular lesions is an acceptable course of action. The iris heterochromia is believed to have been caused by secretory factors produced by the tumor.
The Effect of Perioperative Cimetidine Administration on Time to Colorectal Cancer Recurrence
Authors: Ali Ahmad H. , Hale Laurie , Yalamanchili Bindu , Ahmed Mashrafi , Ahmed Marwa , Zhou Rixin , Wright Stephen E. 
Published: December 2017

Background:
Studies have reported that the perioperative use of cimetidine, a histamine type 2 receptor antagonist, in addition to chemotherapy in patients with lymph node–positive colorectal cancer (CRC) improves the survival.

Study Question:
To determine if time to CRC recurrence could be prolonged with cimetidine.

Study Design:
Cimetidine was prescribed to American Joint on Cancer Committee (AJCC) stage III CRC patients perioperatively. Tumor recurrence was defined as the time (in days) between tumor resection and CRC recurrence. Medical charts of patients diagnosed with CRC between 1996 and 2006 were reviewed. Inclusion criteria were patients with (a) AJCC stage III CRC, (b) who had undergone surgical resection of the tumor, and (c) who received chemotherapy (5-fluorouracil).

Measures and Outcomes:
AJCC stage III CRC patients who did and did not receive cimetidine as part of the treatment regimen were compared with respect to their clinical outcomes using univariate analysis and Kaplan–Meier modeling.

Results:
Between 1996 and 2006, 38 patients met our inclusion criteria. Twenty-six percent (10/38) received perioperative cimetidine (mean daily dose, 750 mg; mean duration, 369 days; mean total cumulative cimetidine dose, 274,070 mg/d) in addition to chemotherapy. Time to recurrence and cancer deaths were prolonged in the chemotherapy plus cimetidine group compared with the group that received chemotherapy alone (mean ± SD: 1078 ± 290 vs. 446 ± 62; P = 0.03). In addition, we found a significant positive relationship between the duration of cimetidine therapy (days) and survival duration (correlation coefficient = 0.94, P = 0.02) and time until cancer recurrence (correlation coefficient = 0.99, P = 0.04). Moreover, there was a significant positive relationship between the total cumulative cimetidine dose and survival duration (correlation coefficient = 0.92, P = 0.03).

Conclusions:
Prolonged duration of cimetidine may be superior to shorter courses in prolonging recurrence of CRC and thus survival.
Iranian Women’s Breast Health–Seeking Behaviors
Authors: Mazloomy-Mahmoodabad Seyed Saeed , Khodayarian Mahsa , Morowatisharifabad Mohammad Ali , Lamyian Minoor , Tavangar Hossein 
Published: December 2017

Background
Breast cancer has become the most common cancer among Yazdi women in Iran. Thus, it is necessary to encourage these women to participate in breast health–seeking behaviors. In this regard, husbands can play an effective role.

Objective
The aim of this study was to explore women’s perceptions about the effect of their husband’s role on breast health–seeking protection motivation.

Methods
This study used a directed qualitative content analysis approach based on the Protection Motivation Theory. Participants were selected using purposive sampling; in-depth semistructured interviews with 14 Yazdi women were completed.

Results
One major category named “motivator role of husband” emerged from the analysis. The following subcategories underlying this category were “indifference and a lack of support as long as the women can continue with expected duties,” “what women want for support,” “facilitating and restrictive factors of husband’s supportive role,” “public health education needed,” and “husband’s agreement with preventive actions.”

Conclusions
Voluntary participation in breast health–seeking behaviors is a culturally sensitive topic. The qualitative methodology allowed this sensitive topic and its different aspects to be explored. The findings indicated that the major source of support for women was their husband’s behavior toward breast health–seeking actions. Family cohesion and love among couples were identified as strong determinant factors pertaining to husband’s supportive behaviors.

Implications for Practice
The study findings provided deeper understanding about the effective factors related to a husband’s role in motivating a wife to practice breast cancer prevention. These new findings are relevant for health educators and practitioners to develop culturally based interventions.
A Patient-Centered Antipsychotic Medication Adherence Intervention
Authors: Pyne Jeffrey M. , Fischer Ellen P. , Mittal Dinesh , Owen Richard 
Published: December 2017

AbstractThe purpose of this study was to develop and test a patient-centered and sustainable antipsychotic medication adherence intervention. The study design was a randomized controlled trial. Data from 61 patients diagnosed with schizophrenia or schizoaffective disorder were analyzed. The intervention included a checklist of barriers, facilitators, and motivators (BFM) for taking antipsychotic medications. The results of the checklist were summarized and a note was placed in the electronic medical record (EMR) and a hard copy was given to the patient. However, less than half of the BFM progress notes were placed in the EMR before the clinician visit as planned. The intervention significantly improved adherence at 6 months but not at 12 months and the intervention's effect on total Positive and Negative Syndrome Scale scores was not statistically significant. The BFM intervention is promising, but future studies are needed to improve the integration of the BFM intervention into typical clinic workflow.
Effect of a Rapid Test Algorithm on Linkage to Medical Care and Viral Suppression Among New Jersey Residents, 2007 to 2015
Authors: Mohammed Debbie Y. , Davidow Amy , Martin Eugene , Ibrahim Abdel , Paul Sindy , Ryan John , Bolden Barbara 
Published: December 2017

Background
Efforts to identify and link human immunodeficiency virus-infected persons to medical care are the first steps to achieving viral suppression. In the United States, the goals are to link 85% of newly diagnosed persons to medical care in 30 days or less and for 80% to become virally suppressed by 2020. Among newly diagnosed residents from 2007 to 2015, in New Jersey, we evaluated the impact of a rapid testing algorithm (RTA) on linkage to medical care and viral suppression.

Methods
This is a retrospective review of data from New Jersey’s Enhanced HIV/AIDS Reporting System for residents, newly diagnosed at 13 years or older, from 2007 to 2015. We used survival analysis methods to estimate the proportion of residents and time to linkage to medical care and viral suppression.

Results
Of 8508 newly diagnosed residents, 60.3% and 72.3% were linked to medical care in 30 days or less and 90 days or less, respectively; 45.7% achieved viral suppression in 365 days or less. Linkage to medical care in 90 days or less and viral suppression in 365 days or less were more likely among those tested by RTA than laboratory testing. The adjusted hazard ratios for linkage to medical care, in clinical sites were 1.41, (95% confidence interval [CI], 1.22–1.63 and 1.08, 95% CI, 0.97–1.2 in community sites. The adjusted hazard ratios for viral suppression in clinical sites were 1.25 (95% CI, 1.05–1.47 and 1.16, 95% CI, 1.01–1.32, in community sites.

Conclusions
Implementation of a RTA may eliminate barriers to linkage to medical care and viral suppression leading to decreased morbidity, mortality, and transmission.