bluuebunny/crossref_metadata_2025_split huggingface dataset:
Detection of Nine Oncogenes Amplification in Lung and Colorectal Cancer Formalin-Fixed Paraffin-Embedded Tissue Samples using Combined Next-Generation Sequencing-Based Script and Digital Droplet Polymerase Chain Reaction
Authors: Bontoux Christophe , Guyard Alice , Lupo Audrey , Diallo Karim , Rebah Khedidja , Hercent Agathe , Guenzi Edouard , Cros Jérome , Lamoril Jérome , Leroy Karen , Theou-Anton Nathalie 
Published: June 2023

Introduction Gene copy number variations have theranostic impact and require reliable methods for their identification. We aimed to evaluate the reliability of combined next-generation sequencing (NGS) and digital droplet PCR (ddPCR) method for gene amplification evaluation. Methods We conducted a retrospective multicentric observational study. MET/ERBB2 amplifications were assessed in patients with lung or colorectal carcinoma (cohort A), from 2016 to 2020, by fluorescence in situ hybridization (FISH)/immunohistochemistry (IHC), NGS and ddPCR. NGS-based script and ddPCR were then used to detect amplifications of 7 additional oncogenes ( EGFR, KRAS, BRAF, FGFR1, FGFR2, FGFR3, PIK3CA) in a cohort of patients (cohort B). Results 55 patients (9 control, 25 ERBB2-amplified and 21 MET-amplified) out of 3779 patients tested were included in cohort A. Correlation coefficient between NGS-based script and FISH/IHC results were .88 for MET (P < .001) and .89 (P < .001) for ERBB2. Using a threshold ratio of 1.56 with the NGS-based script, the sensitivity was 100% for both genes and the specificity 69% for MET and 90% for ERBB2, respectively . With an alternative 1.76 threshold, sensitivity was 94% for MET and 96% for ERBB2, while specificity was 85% for MET and 90% for ERBB2. Correlation coefficient between FISH and ddPCR ratio was .90 for MET and .88 for ERBB2. In both cohorts, NGS-based script and ddPCR results were significantly correlated regarding all genes (P < .001). Conclusion Combined NGS-based script and ddPCR method is reliable and easily feasible for the detection of gene amplifications, providing useful data for guided therapy in cancer.
Believing That We Can Change Our World for the Better: A Triple-A (Agent-Action-Aim) Framework of Self-Efficacy Beliefs in the Context of Collective Social and Ecological Aims
Authors: Hamann Karen R. S. , Wullenkord Marlis C. , Reese Gerhard , van Zomeren Martijn 
Published: June 2023

Social and ecological crises require people to act together, for instance, against climate change or social injustice. Psychological scholarship suggests that human agency, in terms of individuals’ self-efficacy and collective efficacy, plays a crucial role in motivating people to act for a better world. However, progress in this field and hence the utilization of its accumulated knowledge is hindered by manifold conceptualizations and operationalizations. We therefore identify key problems in how the concept of self-efficacy has evolved and been used in the domain of environmental protection and then present a conceptual solution: the triple-A framework. This framework organizes and integrates theoretical insights by differentiating which agents, actions, and aims are involved in assessments of efficacy. We then illustrate the framework’s broader application and highlight recommendations for improved measurement of self-efficacy beliefs. We further offer a research agenda on how human agency can be utilized to promote social and ecological aims. Public Abstract Many people do not act together against climate change or social inequalities because they feel they or their group cannot make a difference. Understanding how people come to feel that they can achieve something (a perception of self-efficacy) is therefore crucial for motivating people to act together for a better world. However, it is difficult to summarize already existing self-efficacy research because previous studies have used many different ways of naming and measuring it. In this article, we uncover the problems that this raises and propose the triple-A framework as a solution. This new framework shows which agents, actions, and aims are important for understanding self-efficacy. By offering specific recommendations for measuring self-efficacy, the triple-A framework creates a basis for mobilizing human agency in the context of climate change and social injustice.
Comparing Individualized Survival Predictions From Random Survival Forests and Multistate Models in the Presence of Missing Data: A Case Study of Patients With Oropharyngeal Cancer
Authors: Abbott Madeline R , Beesley Lauren J , Bellile Emily L , Shuman Andrew G , Rozek Laura S , Taylor Jeremy M G 
Published: June 2023

Background: In recent years, interest in prognostic calculators for predicting patient health outcomes has grown with the popularity of personalized medicine. These calculators, which can inform treatment decisions, employ many different methods, each of which has advantages and disadvantages. Methods: We present a comparison of a multistate model (MSM) and a random survival forest (RSF) through a case study of prognostic predictions for patients with oropharyngeal squamous cell carcinoma. The MSM is highly structured and takes into account some aspects of the clinical context and knowledge about oropharyngeal cancer, while the RSF can be thought of as a black-box non-parametric approach. Key in this comparison are the high rate of missing values within these data and the different approaches used by the MSM and RSF to handle missingness. Results: We compare the accuracy (discrimination and calibration) of survival probabilities predicted by both approaches and use simulation studies to better understand how predictive accuracy is influenced by the approach to (1) handling missing data and (2) modeling structural/disease progression information present in the data. We conclude that both approaches have similar predictive accuracy, with a slight advantage going to the MSM. Conclusions: Although the MSM shows slightly better predictive ability than the RSF, consideration of other differences are key when selecting the best approach for addressing a specific research question. These key differences include the methods’ ability to incorporate domain knowledge, and their ability to handle missing data as well as their interpretability, and ease of implementation. Ultimately, selecting the statistical method that has the most potential to aid in clinical decisions requires thoughtful consideration of the specific goals.
Changes in loneliness prevalence in Denmark in the 21st century: Age-period-cohort analysis
Authors: Girault Clara , Schramm Stine , Tolstrup Janne S. , Ekholm Ola , Bramming Maja 
Published: June 2023

Aim: The aim of this study was to investigate changes in the prevalence of loneliness in Denmark from 2000 to 2021 by conducting age-period-cohort analysis. Methods: Our study was based on a sample ( N=83,437; age: ⩾16 years) of the Danish Health and Morbidity Surveys conducted in Denmark in 2000, 2005, 2010, 2013, 2017 and 2021. We used logistic regression models by gender to estimate the age-period-cohort effects, with loneliness as the dependent variable and age, survey year and birth cohort as independent variables, mutually adjusted. Results: The prevalence of adult loneliness increased by each survey year over the entire period (from 13.2% in 2000 to 27.4% in 2021 among men and from 18.8% to 33.7% among women). Overall, a U-shaped curve, for the prevalence of loneliness among different age groups, was observed, which was most pronounced among women. The greatest increase in the prevalence of loneliness from 2000 to 2021 was observed among the youngest age group (16–24 years), with 28.4 and 30.7 percentage points for men and women. No significant cohort effect was observed. Conclusions: The observed increase in loneliness prevalence from 2000 to 2021 was driven by period and age effects rather than cohort effects. It should be noted that data from 2021 were collected during a national lockdown due to an outbreak of COVID-19, which could explain part of the large increase in loneliness from 2017 to 2021.
Associations of breastfeeding duration with serum lipid values from infancy until age 20 years – the STRIP study
Authors: Laitinen Tomi T. , Saha Emma , Pahkala Katja , Kartiosuo Noora , Nuotio Joel , Lagström Hanna , Viikari Jorma , Rönnemaa Tapani , Jula Antti , Raitakari Olli , Niinikoski Harri 
Published: June 2023

Background and aims: The effect of breastfeeding duration on childhood lipid levels has remained controversial. In this study, we aimed to establish the long-term associations of breastfeeding duration with future levels of total cholesterol, high-density lipoprotein (HDL) cholesterol, non-HDL cholesterol and low-density lipoprotein cholesterol. In addition, we report lipid levels at the age of seven months depending on the child receiving any breastmilk. Methods: The sample comprised 999 children participating in the prospective Special Turku Coronary Risk Factor Intervention Project (STRIP). Serum lipid profile was studied at the ages of seven months and 13 months, and annually thereafter until the age of 20 years. Duration of breastfeeding was inquired, and infants were divided into those who received or did not receive any breast milk at the age of seven months ( n=533 and n=466, respectively). In addition, breastfeeding duration groups (any breastfeeding for 0–4 months, 4–6 months, 6–9 months, and >9 months) were formed. Results: At the age of seven months infants who at that time received breast milk had higher serum HDL cholesterol (0.95±0.21mmol/l vs. 0.90±0.19 mmol/l; p=0.0018), non-HDL cholesterol (3.38±0.78 mmol/l vs. 3.01±0.67 mmol/l; p<0.001) and total cholesterol levels (4.33±0.80 mmol/l vs. 3.91±0.69 mmol/l; p<0.001) than their peers who did not receive breast milk. From two to 20 years of age serum lipid levels showed no consistent differences between the breastfeeding duration groups. Conclusions: Our long-term data showed that duration of breastfeeding has no consistent associations with serum lipid concentrations in healthy individuals aged two to 20 years. Clinical Trial Registration: www.clinicaltrials.gov , unique identifier NCT00223600.
Cardiometabolic risk factors, peripheral arterial tonometry and metformin in adults with type 1 diabetes participating in the REducing with MetfOrmin Vascular Adverse Lesions trial
Authors: Chen David , Jenkins Alicia J , Greenlaw Nicola , Dudman Katie , Fernandes Tamsin , Carty David M , Hughes Alun D , Januszewski Andrzej S , Stehouwer Coen DA , Petrie John R 
Published: June 2023

Background Peripheral arterial tonometry (PAT) provides non-invasive measures of vascular health. Beneficial effects of metformin on vascular function have been reported in youth with type 1 diabetes (T1D). In the REducing with MetfOrmin Vascular Adverse Lesions (REMOVAL) trial in adults with T1D and high cardiovascular risk, we examined: (i) the extent to which routinely-measured cardiometabolic risk factors explain variance in baseline PAT; and (ii) the effects of metformin on PAT measures. Methods Cross-sectional univariable and multivariable analyses of baseline reactive hyperaemia index (RHI) and augmentation index (AI) (EndoPAT® (Itamar, Israel); and analysis of 36-months metformin versus placebo on vascular tonometry. Results In 364 adults ((mean ± SD) age 55.2 ± 8.5 years, T1D 34.0 ± 10.6 years, HbA1c 64.5 ± 9.0 mmol/mol (8.1 ± 0.8%)), RHI was 2.26 ± 0.74 and AI was 15.9 ± 19.2%. In an exhaustive search, independent associates of (i) RHI were smoking, waist circumference, systolic blood pressure and vitamin B12 (adjusted R2 = 0.11) and (ii) AI were male sex, pulse pressure, heart rate and waist circumference (adjusted R2 = 0.31). Metformin did not significantly affect RHI or AI. Conclusion Cardiometabolic risk factors explained only a modest proportion of variance in PAT measures of vascular health in adults with T1D and high cardiovascular risk. PAT measures were not affected by metformin.
Factors affecting women’s decision between uterine-preserving versus hysterectomy-based surgery for pelvic organ prolapse
Authors: Ramage Kaylee , Ducey Ariel , Scime Natalie V , Knox Erin , Brennand Erin A 
Published: June 2023

Background: Given the prevalence of women seeking surgical treatment for pelvic organ prolapse (POP), there is a need to understand women’s decision-making regarding uterine-preserving versus hysterectomy-based surgeries. Historically, hysterectomy-based surgeries have been the preferred treatment for pelvic organ prolapse; however, contemporary evidence supports uterine-preserving surgeries as equivalent. At present, the lack of information available to the general public and limited options presented at surgical consultation for pelvic organ prolapse may hinder women’s autonomy as they navigate surgical treatment. Objectives: To examine the factors affecting women’s decision-making processes regarding uterine-preserving or hysterectomy-based surgery for pelvic organ prolapse. Design: This is a qualitative study. Methods: We conducted semi-structured, qualitative interviews with women seeking surgery for pelvic organ prolapse to explore the factors affecting women’s decision-making between hysterectomy-based and uterine-preserving surgeries. Results: Women (n = 26) used clinical and personal factors to determine which surgery was best. Women noted that the lack of evidence (clinical and/or anecdotal) available to them hindered their decision-making, causing them to rely more on their own interpretations of the evidence, what they perceived to be “normal,” and what their surgeon recommended. Even with standardized discussion regarding the existing clinical equipoise between surgeries at the clinical consultation, some women still had misperceptions that hysterectomy-based surgery would convey the lowest risk of prolapse recurrence and be best for severe prolapse. Conclusion: There is a need for more transparency in discussions about prolapse and the factors affecting women’s decision-making for surgical repair of pelvic organ prolapse. Clinicians should be prepared to offer the option of hysterectomy-based or uterine-preserving surgeries and to clearly explain the clinical equipoise between these procedures.
Spatiotemporal analysis of small bowel capsule endoscopy videos for outcomes prediction in Crohn’s disease
Authors: Kellerman Raizy , Bleiweiss Amit , Samuel Shimrit , Margalit-Yehuda Reuma , Aflalo Estelle , Barzilay Oranit , Ben-Horin Shomron , Eliakim Rami , Zimlichman Eyal , Soffer Shelly , Klang Eyal , Kopylov Uri 
Published: June 2023

Background: Deep learning techniques can accurately detect and grade inflammatory findings on images from capsule endoscopy (CE) in Crohn’s disease (CD). However, the predictive utility of deep learning of CE in CD for disease outcomes has not been examined. Objectives: We aimed to develop a deep learning model that can predict the need for biological therapy based on complete CE videos of newly-diagnosed CD patients. Design: This was a retrospective cohort study. The study cohort included treatment-naïve CD patients that have performed CE (SB3, Medtronic) within 6 months of diagnosis. Complete small bowel videos were extracted using the RAPID Reader software. Methods: CE videos were scored using the Lewis score (LS). Clinical, endoscopic, and laboratory data were extracted from electronic medical records. Machine learning analysis was performed using the TimeSformer computer vision algorithm developed to capture spatiotemporal characteristics for video analysis. Results: The patient cohort included 101 patients. The median duration of follow-up was 902 (354–1626) days. Biological therapy was initiated by 37 (36.6%) out of 101 patients. TimeSformer algorithm achieved training and testing accuracy of 82% and 81%, respectively, with an Area under the ROC Curve (AUC) of 0.86 to predict the need for biological therapy. In comparison, the AUC for LS was 0.70 and for fecal calprotectin 0.74. Conclusion: Spatiotemporal analysis of complete CE videos of newly-diagnosed CD patients achieved accurate prediction of the need for biological therapy. The accuracy was superior to that of the human reader index or fecal calprotectin. Following future validation studies, this approach will allow for fast and accurate personalization of treatment decisions in CD.
Exploring usability problems of mHealth applications developed for cervical cancer: An empirical study
Authors: Razzak Md Abdur , Islam Muhammad Nazrul , Broti Tanjila , Kamal Elma Shumsun , Zahan Samia 
Published: June 2023

Objectives: Nowadays, mobile health applications are developed to raise awareness and facilitate screening and treatment of cervical cancer, while a very few studies have been conducted focusing on the measurement and assurance of usability and exploring the acceptable user experience of such applications. Usability issues become a crucial concern for such cervical-cancer-related applications because users with diverse backgrounds in terms of education, information technology literacy, and geographic reasons are required to access those applications. The objective of this research is to evaluate the usability of mobile health applications developed for cervical cancer patients. Methods: Two evaluation studies were conducted following the expert evaluation and a questionnaire-based user study. A total of four cervical-cancer-related applications that are focusing on the Awareness and Diagnosis theme were selected and each of the applications was evaluated by four usability experts. Then, a user study ( n = 80) based on the Goal Question Metric was conducted to reveal the usability problems of four selected applications. Finally, findings of both evaluations were aggregated and analyzed. Results: Both approaches showed that all applications suffer from several usability problems while “Cervical Cancer Guide” performs better and “Cervical Cancer Tracker” showed the least in performance from the usability perspective. Again, the Goal Question Metric performs noticeably better in assessing the learnability of the applications, while the analytical heuristic evaluation performs better in identifying the issues that cause user annoyance. Conclusion: The methodology adopted and the usability problems revealed through this study can be well utilized by the information technology professionals or user interface designers for designing, evaluating, and developing the cervical-cancer-related applications with enhanced usability and user experience.
A Systematic Review of the Impact of Remote Working Referenced to the Concept of Work–Life Flow on Physical and Psychological Health
Authors: Wells John , Scheibein Florian , Pais Leonor , Rebelo dos Santos Nuno , Dalluege C.- Andreas , Czakert Jan Philipp , Berger Rita 
Published: June 2023

Background: COVID-19 accelerated the adoption of remote working in which employers’ obligations for employees’ health and well-being extended into the home. This paper reports on a systematic review of the health impacts of remote working within the context of COVID-19 and discusses the implications of these impacts for the future role of the occupational health nurse. Method: The review protocol was registered with PROSPERO (CRD42021258517) and followed the PRISMA guidelines. The review covered 2020-2021 to capture empirical studies of remote working during the COVID-19 pandemic, their physical and psychological impacts and mediating factors. Results: Eight hundred and thirty articles were identified. After applying the inclusion criteria, a total of 34 studies were reviewed. Most studies showed low to very low strength of evidence using the GRADE approach. A minority of studies had high strength of evidence. These focused on the reduced risk of infection and negative effects in terms of reduced physical activity, increased sedentary activity, and increased screen time. Conclusion/Application to Practice: The synergy of work and personal well-being with the accelerated expansion of remote working suggests a more active role in the lives of workers within the home setting on the part of occupational health nurses. That role relates to how employees organize their relationship to work and home life, promoting positive lifestyles while mitigating adverse impacts of remote working on personal well-being.
Use of the PRECEDE–PROCEED Model to Pilot an Occupational Physical Activity Intervention: Tailored Through a Community Partnership
Authors: Fetherman Debra L. , Cebrick-Grossman Joan 
Published: June 2023

Background: Healthcare and social assistance workers are at increased risk for obesity. This industry has limited access to workplace health promotion resources and reports low rates of physical activity programs for workers. Methods: This article describes the application of the PRECEDE–PROCEED Model (PPM) to plan, implement, and evaluate a pilot physical activity intervention, Project Move, tailored to promote occupational physical activity and reduce sedentary behaviors among female workers. Actions taken by the community-based participatory research partnership assisted in the identification of the predisposing, reinforcing, and enabling factors that influenced the physical activity behaviors of female workers. The resources and capacities of the partnership were leveraged to implement and evaluate the pilot intervention. Findings: After the 12-week intervention, the participants’ daily average steps while at work met the recommended minimum 7,000 steps/day, and the time spent sitting decreased along with positive changes in health-related psychosocial measures. Conclusions/Application to Practice: The PPM represents a feasible approach for community-based participatory partnerships to create a tailored intervention to address the occupational physical activity and sedentary behaviors of at-risk female healthcare and social assistance workforce.