cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Deliverable 5.4 - Regulations and recommendations related to remote and face-to-face genetic counselling quality, access, and sustainability
Creators: name: McCrary, J. Matt
name: Bergmann, Anke Katharina
Publisher: name: Zenodo
Year: 2025

description: Genetic counselling is critical to the effective integration of genetic and genomic technologies into cancer care, providing a human interface point that enables patients to make informed decisions about how to engage with these technologies. Missing and poor-quality counselling leads to avoidable costs (e.g. unnecessary genetic tests), inaccurate diagnoses, suboptimal clinical management, and negative psychosocial outcomes in both patients and family members. Common European barriers to high-quality genetic counselling in cancer were identified in preliminary work (Deliverable 5.3 + survey of cancer patient organizations): genetic literacy (of patients and non-genetics health professionals); workforce capacity; and insurance reimbursement. Through a Delphi survey of 77 genetics, oncology, and patient stakeholders from all 27 Member States, five priority European solutions were identified to address these barriers: 

1) EU-wide recognition of genetic counsellors 

2) Mandatory inclusion of genetics expertise in the creation and updating of oncology guidelines 

3) EU system of registration, accreditation, and education for genetic counsellors 

4) Mandatory fellowship and continuing education in genetics for oncologists 

5) Mandatory full reimbursement of genetic counselling when clinical guidelines are met 

Feasibility ratings from Delphi survey participants indicate that changes to oncology guidelines and fellowship/continuing education will likely be the most straightforward and quickest to implement. Solutions related to reimbursement and genetic counsellor recognition/registration/accreditation/ education are still high priority but will likely require more extended timeframes and additional effort to ensure sustainable implementation. Immediate next steps are proposed for each solution, including mapping, multi-stakeholder discussion, and economic analysis activities.
Supplementary_Methods – Supplemental material for Mast cell activation in the systemic sclerosis esophagus
Creators: name: Tom, Kevin
name: Bhaven K Mehta
name: Hoffmann, Aileen
name: Aren, Kathleen
name: Carns, Mary
name: Jungwha Lee
name: Martyanov, Viktor
name: Popovich, Dillon
name: Kosarek, Noelle
name: Tammara A. Wood
name: Brenner, Darren
name: Carlson, Dustin A
name: Ostilla, Lorena
name: Willcocks, Emma
name: Bryce, Paul
name: Wechsler, Joshua B
name: Whitfield, Michael L
name: Hinchcliff, Monique
Publisher: name: SAGE Journals
Year: 2020
Subjects: subject: 110322 Rheumatology and Arthritis
subject: FOS: Clinical medicine

description: Supplemental material, Supplementary_Methods for Mast cell activation in the systemic sclerosis esophagus by Kevin Tom, Bhaven K Mehta, Aileen Hoffmann, Kathleen Aren, Mary Carns, Jungwha Lee, Viktor Martyanov, Dillon Popovich, Noelle Kosarek, Tammara A. Wood, Darren Brenner, Dustin A Carlson, Lorena Ostilla, Emma Willcocks, Paul Bryce, Joshua B Wechsler, Michael L Whitfield and Monique Hinchcliff in Journal of Scleroderma and Related Disorders
Functionality Assessment Checklist for Evaluating Geoportals
Creators: name: Krol, Karol
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 460912
subject: Knowledge and information management
classificationCode: 350715
subject: Quality management
classificationCode: 460907
subject: Information systems for sustainable development and the public good
classificationCode: 460908
subject: Information systems organisation and management
classificationCode: 370403
subject: Geoscience data visualisation

description: Sustainable tourism minimises the adverse impact of tourism on the natural environment and local culture while stimulating the socioeconomic development of regions or even countries. Geoportals and (geo)informational mashup portals significantly affect sustainable tourism planning through modern computer solutions for more sustainable planning of tourist activities on the demand and supply sides. This study had two research aims: (1) to develop a checklist for assessing the functionality of tourist geoportals and evaluate it and (2) to assess the inventory of functions useful for sustainable tourism planning available at selected geoportals with the checklist. The aims were pursued with an original research tool, the Functionality Assessment Checklist (FAC). The FAC is a set of original criteria useful for assessing the quality of tourist geoportals. This study investigated the following research questions: (Q1) What functions should be included on a checklist for assessing the functionality of geoportals useful for sustainable tourism planning? (Q2) What functions should be included in a geoportal to facilitate sustainable tourism planning? The original contributions of this article are (1) the checklist for assessing the functionality of tourist geoportals and (2) the assessment of the impact of geoportal’s functionality on the possibility of planning sustainable tourism. The functionality assessment revealed that the tested geoportals have most of the tourism, informational, educational, and use-related functions. This suggests they can be useful for sustainable tourism planning.Król, K.; Zdonek, D.; Sroka, W. Functionality Assessment Checklist for Evaluating Geoportals Useful in Planning Sustainable Tourism. Sustainability 2024, 16, 5242. https://doi.org/10.3390/su16125242
Supplemental Material, Appendix_Table_1_-_3_Vasc_Endovasc_Surg - Amputation-Free Survival in Patients With Diabetes Mellitus and Peripheral Arterial Disease With Heel Ulcer: Open Versus Endovascular Surgery
Creators: name: Talha Butt
name: Lilja, Erika
name: Örneholm, Hedvig
name: Apelqvist, Jan
name: Gottsäter, Anders
name: Eneroth, Magnus
name: Acosta, Stefan
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: Cardiology
subject: 110323 Surgery
subject: FOS: Clinical medicine

description: Supplemental Material, Appendix_Table_1_-_3_Vasc_Endovasc_Surg for Amputation-Free Survival in Patients With Diabetes Mellitus and Peripheral Arterial Disease With Heel Ulcer: Open Versus Endovascular Surgery by Talha Butt, Erika Lilja, Hedvig Örneholm, Jan Apelqvist, Anders Gottsäter, Magnus Eneroth, and Stefan Acosta in Vascular and Endovascular Surgery
Supplemental material for A comparative study of subgroup identification methods for differential treatment effect: Performance metrics and recommendations
Creators: name: Alemayehu, Demissie
name: Chen, Yang
name: Markatou, Marianthi
Publisher: name: SAGE Journals
Year: 2017
Subjects: Health and Community Services
Nursing not elsewhere classified
Sociological Methodology and Research Methods

description: Supplemental Material for A comparative study of subgroup identification methods for differential treatment effect: Performance metrics and recommendations by Demissie Alemayehu, Yang Chen and Marianthi Markatou in Statistical Methods in Medical Research
Supplemental material for Reward Ameliorates Posttraumatic Stress Disorder-Related Impairment in Sustained Attention
Creators: name: Dutra, Sunny J.
name: Marx, Brian P.
name: McGlinchey, Regina
name: DeGutis, Joseph
name: Esterman, Michael
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 110904 Neurology and Neuromuscular Diseases
subject: FOS: Clinical medicine
subject: 170199 Psychology not elsewhere classified
subject: FOS: Psychology
subject: 110319 Psychiatry (incl. Psychotherapy)
subject: 111799 Public Health and Health Services not elsewhere classified
subject: FOS: Health sciences

description: Supplemental Material for Reward Ameliorates Posttraumatic Stress Disorder-Related Impairment in Sustained Attention by Sunny J. Dutra, Brian P. Marx, Regina McGlinchey, Joseph DeGutis and Michael Esterman in Chronic Stress
Imami_OnlineAppendix – Supplemental material for Self-Disclosure and Perceived Responsiveness Among Youth With Asthma: Links to Affect and Anti-Inflammatory Gene Expression
Creators: name: Imami, Ledina
name: Stanton, Sarah C. E.
name: Zilioli, Samuele
name: Tobin, Erin T.
name: Farrell, Allison K.
name: Luca, Francesca
name: Slatcher, Richard B.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 170199 Psychology not elsewhere classified
subject: FOS: Psychology

description: Supplemental material, Imami_OnlineAppendix for Self-Disclosure and Perceived Responsiveness Among Youth With Asthma: Links to Affect and Anti-Inflammatory Gene Expression by Ledina Imami, Sarah C. E. Stanton, Samuele Zilioli, Erin T. Tobin, Allison K. Farrell, Francesca Luca and Richard B. Slatcher in Personality and Social Psychology Bulletin
A New Multi-Atlas Registration Framework for Multimodal Pathological Images Using Conventional Monomodal Normal Atlases
Creators: name: Shen, Dinggang
name: Tang, Zhenyu
name: Yap, Pew-Thian
Publisher: name: Institute of Electrical and Electronics Engineers (IEEE)
Year: 2018

description: Using multi-atlas registration (MAR), information carried by atlases can be transferred onto a new input image for the tasks of region of interest (ROI) segmentation, anatomical landmark detection, and so on. Conventional atlases used in MAR methods are monomodal and contain only normal anatomical structures. Therefore, the majority of MAR methods cannot handle input multimodal pathological images, which are often collected in routine image-based diagnosis. This is because registering monomodal atlases with normal appearances to multimodal pathological images involves two major problems: (1) missing imaging modalities in the monomodal atlases, and (2) influence from pathological regions. In this paper, we propose a new MAR framework to tackle these problems. In this framework, a deep learning based image synthesizers are applied for synthesizing multimodal normal atlases from conventional monomodal normal atlases. To reduce the influence from pathological regions, we further propose a multimodal lowrank approach to recover multimodal normal-looking images from multimodal pathological images. Finally, the multimodal normal atlases can be registered to the recovered multimodal images in a multi-channel way. We evaluate our MAR framework via brain ROI segmentation of multimodal tumor brain images. Due to the utilization of multimodal information and the reduced influence from pathological regions, experimental results show that registration based on our method is more accurate and robust, leading to significantly improved brain ROI segmentation compared with state-of-the-art methods.
Additional file 1 of Offering a lifestyle intervention to women of premenopausal age as primary prevention for cardiovascular disease? – assessing its cost-effectiveness
Creators: name: Gao, Lan
name: Moodie, Marj
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Mathematical Sciences not elsewhere classified

description: Additional file 1: Supplementary Table 1. Beta-coefficient for estimating the probability of first-ever CVD event. Supplementary Table 2. Details of each type of CVD_ first ever CVD. Supplementary Table 3. Beta-coefficient for estimating the probability of recurrent CVD event. Supplementary Table 4. Non-CVD related background mortality. Supplementary Table 5. Australia female population size. Supplementary Table 6. Index of Relative Socioeconomic Disadvantage. Supplementary Table 7. History of smoking and diabetes. Supplementary Table 8. Level of systolic blood pressure by age. Supplementary Table 9. Systolic blood pressure increases by age. Supplementary Table 10. Level of total cholesterol and high-density lipid by age. Supplementary Table 11. Extreme value analysis by assuming a 0% adherence rate after one year of the intervention.
A Limited Information Estimator for Dynamic Factor Models
Creators: name: Fisher, Zachary F.
name: Bollen, Kenneth A.
name: Gates, Kathleen M.
Publisher: name: Taylor & Francis
Year: 2019

description: Structural equation modeling (SEM) is an increasingly popular method for examining multivariate time series data. As in cross-sectional data analysis, structural misspecification of time series models is inevitable, and further complicated by the fact that errors occur in both the time series and measurement components of the model. In this article, we introduce a new limited information estimator and local fit diagnostic for dynamic factor models within the SEM framework. We demonstrate the implementation of this estimator and examine its performance under both correct and incorrect model specifications via a small simulation study. The estimates from this estimator are compared to those from the most common system-wide estimators and are found to be more robust to the structural misspecifications considered.
Deliverable 5.3 - Description of regulations in remote genetic counselling in EU
Creators: name: J. Matt, McCrary
Publisher: name: Zenodo
Year: 2025

description: Germline and somatic genetic alterations are key drivers of cancer. New next generation sequencing technologies capable of profiling these alterations provide excellent opportunities to improve preventive and clinical care but require quality genetic counselling to facilitate informed decision-making by patients and their families and accurate diagnoses. Rapidly increasing usage of clinical genetic services necessitates new strategies to ensure timely, equitable, and high-quality counselling delivery. Remote genetic counselling shows promise as a more efficient alternative to face-to-face counselling for both patients and clinicians.

This project reviewed genetic counselling and remote genetic counselling legislation through searches of national legislation databases in all 27 EU Member States to illuminate barriers to and opportunities for improving genetic counselling access and quality across Member States. Interviews with relevant experts from each Member State were conducted to validate legislation search results. Results demonstrate that genetic counselling is addressed in an international treaty (Oveido Convention) signed by 23 of 27 Member States, EU Regulation 2017/746, and in national legislation of 19 of 27 Member States. Substantial variation in legal mechanisms and prescribed details (i.e. the ‘who, what, when, and where’ of genetic counselling) exists across Member States. Remote genetic counselling is not specifically addressed in legislation, falling under broader healthcare and data protection statutes.

This review highlights substantial variability in genetic counselling legislation across EU Member States, with no specific governance of remote delivery. Future discussions and action will focus on the identification and implementation of optimal legislative, regulatory and/or strategic approaches at the EU, national, regional and/or local levels to ensure equitable, high-quality remote and in-person genetic counselling.
A Pre-Exposure Prophylaxis Adherence Intervention (LifeSteps) for Young Men Who Have Sex With Men: Protocol for a Pilot Randomized Controlled Trial
Creators: name: Biello, Katie B
name: Safren, Steven A
name: Hightow-Weidman, Lisa
name: Psaros, Christina
name: Mimiaga, Matthew J
name: Marrow, Elliot
name: Krakower, Douglas S
name: Sullivan, Patrick
name: Mayer, Kenneth H
Publisher: name: JMIR Publications
Year: 2019

description: BACKGROUND: New HIV infections occur at a disproportionately high rate among young men who have sex with men (YMSM). It is, therefore, essential that comprehensive HIV prevention strategies, specifically tailored to their needs and perceptions, are developed, tested, and disseminated. Antiretroviral pre-exposure prophylaxis (PrEP) is effective in decreasing HIV transmission among men who have sex with men; however, adherence is critical to its efficacy. In open-label studies among YMSM, adherence was suboptimal. Hence, behavioral approaches that address the unique challenges to YMSM PrEP adherence are needed. OBJECTIVE: This study aims to describe the protocol for intervention refinement and a pilot randomized controlled trial (RCT) of a PrEP adherence intervention, LifeSteps for pre-exposure prophylaxis for young men who have sex with men (LSPY). METHODS: This study includes the following 2 phases: formative qualitative interviews with approximately 20 YMSM and 10 key informants for intervention adaptation and refinement and a pilot RCT of up to 50 YMSM to assess the feasibility, acceptability, and preliminary efficacy of the LSPY, compared with the PrEP standard of care, to improve PrEP adherence. Participants will be recruited at 3 iTech subject recruitment venues in the United States. RESULTS: Phase 1 is expected to begin in June 2018, and enrollment of phase 2 is anticipated to begin in early 2019. CONCLUSIONS: Few rigorously developed and tested interventions have been designed to increase PrEP adherence among YMSM in community settings, despite this population's high HIV incidence. The long-term goal of this intervention is to develop scalable protocols to optimize at-risk YMSM's PrEP uptake and adherence to decrease the HIV incidence.
UTILIZATION OF SECONDARY ENERGY RESOURCES AT GAS PUMPING UNITS OF BOOSTER COMPRESSOR STATIONS OF THE MANAGEMENT FOR THE PROCESSING AND PRODUCTION OF BUTANE SULFATE (GPU BCS MPPBS)
Creators: name: Umid Ibragimov  Alisher Shaislamov  Dildora Badalova
Publisher: name: Zenodo
Year: 2024

description: This article explores the utilization of secondary energy resources at gas pumping units (GPUs) of booster compressor stations (BCS) within the management for the processing and production of butane sulfate (MPPBS). The study examines the potential for recovering and repurposing waste energy generated during the compression process, with a focus on enhancing overall energy efficiency and reducing operational costs. Through the implementation of heat recovery systems, integration of cogeneration units, and optimization of process parameters, significant energy savings and environmental benefits can be achieved. The findings underscore the importance of sustainable practices in industrial operations and provide a framework for the effective utilization of secondary energy resources in the gas processing industry.
Bionettoyage : les techniques de la police scientifique s’invitent au bloc opératoire
Creators: name: Meunier, Olivier
name: Burger, Sandrine
name: Landry, Maureen
name: Garniche, Cécile
Publisher: name: Health & Co
Year: 2024
Subjects: Bloc opératoire
Bionettoyage
Désinfection des surfaces
Luminol

description: Pour vérifier l’efficacité de la procédure de bionettoyage du bloc opératoire, nous avons utilisé le luminol, qui est habituellement utilisé par la police judiciaire pour l’analyse des scènes de crime à la recherche de traces de sang non visibles à l’œil nu. En fin de programme opératoire et après la mise en œuvre de la procédure de bionettoyage, alors que l’ensemble paraissait propre et qu’aucune trace résiduelle de sang n’était visible, notre équipe s’est déplacée pour pulvériser une solution de luminol sur l’ensemble des surfaces de la salle d’intervention (sol, pied de table, pédales des bistouris électrique et des poubelles). Les résultats montrent une coloration bleue caractéristique de la chimiluminescence due à la réaction du luminol avec l’hémoglobine du sang à de nombreux endroits : sur le sol sous forme de traces laissées par le bandeau de nettoyage qui étale le sang sans l’éliminer, dans les coins de la salle d’opération et sur les surfaces difficilement accessibles. En parallèle nous montrons que le nettoyage des surfaces au bloc opératoire par la vapeur permet d’éliminer toutes les traces de sang même dans les endroits les plus inaccessibles. Nous proposons l’utilisation du luminol comme indicateur de la qualité du bionettoyage partout à l’hôpital où des traces de sang sont possibles, et de généraliser l’usage de la vapeur comme méthode de bionettoyage efficace.
A Proximal-to-Distal Survey of Healthy Adult Human Small Intestine and Colon Epithelium by Single-Cell Transcriptomics
Creators: name: Bhatt, Aadra P.
name: Breau, Keith A.
name: Ranek, Jolene S.
name: Magness, Scott T.
name: Burclaff, Joseph
name: Purvis, Jeremy E.
name: Gomez-Martinez, Ismael
name: Ok, Meryem T.
name: Woosley, John T.
name: Bliton, R. Jarrett
Publisher: name: Elsevier
Year: 2022

description: BACKGROUND & AIMS: Single-cell transcriptomics offer unprecedented resolution of tissue function at the cellular level, yet studies analyzing healthy adult human small intestine and colon are sparse. Here, we present single-cell transcriptomics covering the duodenum, jejunum, ileum, and ascending, transverse, and descending colon from 3 human beings. METHODS: A total of 12,590 single epithelial cells from 3 independently processed organ donors were evaluated for organ-specific lineage biomarkers, differentially regulated genes, receptors, and drug targets. Analyses focused on intrinsic cell properties and their capacity for response to extrinsic signals along the gut axis across different human beings. RESULTS: Cells were assigned to 25 epithelial lineage clusters. Multiple accepted intestinal stem cell markers do not specifically mark all human intestinal stem cells. Lysozyme expression is not unique to human Paneth cells, and Paneth cells lack expression of expected niche factors. Bestrophin 4 (BEST4)+ cells express Neuropeptide Y (NPY) and show maturational differences between the small intestine and colon. Tuft cells possess a broad ability to interact with the innate and adaptive immune systems through previously unreported receptors. Some classes of mucins, hormones, cell junctions, and nutrient absorption genes show unappreciated regional expression differences across lineages. The differential expression of receptors and drug targets across lineages show biological variation and the potential for variegated responses. CONCLUSIONS: Our study identifies novel lineage marker genes, covers regional differences, shows important differences between mouse and human gut epithelium, and reveals insight into how the epithelium responds to the environment and drugs. This comprehensive cell atlas of the healthy adult human intestinal epithelium resolves likely functional differences across anatomic regions along the gastrointestinal tract and advances our understanding of human intestinal physiology.
Additional file 10 of Creation of new germplasm resources, development of SSR markers, and screening of monoterpene synthases in thyme
Creators: name: Sun, Meiyu
name: Zhu, Li
name: Zhang, Yanan
name: Liu, Ningning
name: Zhang, Jinzheng
name: Li, Hui
name: Bai, Hongtong
name: Shi, Lei
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 10: Supplementary Fig. S3. Alignment of the deduced amino acid sequence of Tq04G005190.1 with the reported amino acid sequence of geraniol synthase ObGES.
A Scoping Review of HIV Pre-exposure Prophylaxis Stigma and Implications for Stigma-Reduction Interventions for Men and Transwomen Who Have Sex with Men
Creators: name: Lelutiu-Weinberger, Corina
name: Rosengren, A. Lina
name: Hightow-Weidman, Lisa B.
name: Sandanapitchai, Priyadharshiny
name: Woodhouse, E. Wilbur
Publisher: name: Springer Nature
Year: 2021

description: HIV remains a public health concern in the United States. Although pre-exposure prophylaxis (PrEP) can be expected to reduce HIV incidence, its uptake, adherence, and persistence remain limited, particularly among highest priority groups such as men who have sex with men and transwomen (MSMTW). Using a socioecological framework, we conducted a scoping review to examine PrEP-related stigma to inform future research, policy, and programmatic planning. Using the PRISMA extension for scoping reviews, we conducted database searches from August 2018 to April 2020 for articles addressing PrEP stigma. Studies were independently screened and coded by three authors, resulting in thematic categorization of several types of PrEP stigma on four socioecological levels. Of 557 references, a final sample of 23 studies was coded, 61% qualitative, and 87% focusing exclusively on MSMTW. Most instances of PrEP-related stigma occurred on the interpersonal level and included associations of PrEP with risk promotion, HIV-related stigma, and promiscuity. Other frequent themes across socioecological levels included provider distrust and discrimination, government and pharmaceutical industry distrust, internalized homonegativity, PrEP efficacy distrust, and anticipated homonegativity. Notably, PrEP was also framed positively as having physical and psychological benefits, and assuming responsibility for protecting one's community via PrEP awareness-raising. PrEP-related stigma persists, demanding interventions to modify its impact. Leveraging PrEP-positive discourses to challenge PrEP stigma is an emerging avenue, alongside efforts to increase provider willingness to promote PrEP routinely by reducing provider bias, aligning with the national strategy to End the HIV Epidemic.
Computational Insights Into Alpha-Synuclein Interactions: Exploring Therapeutic Avenues for Parkinson's Disease
Creators: name: Gowrisankari.R, Anbarasi.P, Dr.U.Kanagavalli
Publisher: name: Zenodo
Year: 2025

description: This research assesses the ADME (Absorption, Distribution, Metabolism, and Excretion) characteristics andmolecular docking interactions of five phytochemicals—Apigenin, Luteolin, Quercetin, Bacoside A, andBacoside B—with alpha-synuclein (PDB ID: 8A9L), a critical protein implicated in the pathogenesis ofParkinson's disease (PD). Parkinson's disease is an age-related progressive neurodegenerative disorder that ischaracterized by motor dysfunction and the deposition of alpha-synuclein aggregates within the brain. ADMEprofiling showed that flavonoids (Apigenin, Luteolin, and Quercetin) have good drug-likeness, excellentgastrointestinal absorption, and good oral bioavailability, hence can be used for oral delivery. On the contrary,Bacoside A and B showed poor pharmacokinetic features such as high molecular weight and numerousviolations of drug-likeness parameters. Molecular docking analyses revealed similar binding affinities of allthe compounds with alpha-synuclein, although Bacoside A and B were slightly better binders (docking scores-6.6 and -6.7 kcal/mol, respectively) than the flavonoids. The poor pharmacokinetics and bioavailability renderthe Bacosides poor candidates as drugs. Hence, the flavonoids become interesting leads for further studies ondeveloping therapeutic agents against Parkinson's disease.
Additional file 11 of Creation of new germplasm resources, development of SSR markers, and screening of monoterpene synthases in thyme
Creators: name: Sun, Meiyu
name: Zhu, Li
name: Zhang, Yanan
name: Liu, Ningning
name: Zhang, Jinzheng
name: Li, Hui
name: Bai, Hongtong
name: Shi, Lei
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 11: Supplementary Table S8. Primer sequence, amplification length, amplification efficiency (%), and linear correlation coefficient (R2) of four TPS genes and two reference genes (18 S rRNA and β-actin).
A Standardized, Pragmatic Approach to Knee Ultrasound for Clinical Research in Osteoarthritis: The Johnston County Osteoarthritis Project
Creators: name: Renner, Jordan B.
name: Lin, Janice
name: Bakewell, Catherine J.
name: Nelson, Amanda E.
name: Schwartz, Todd A.
name: Kohler, Minna J.
name: Yerich, Nadiya V.
name: Alvarez, Carolina
name: Savage-Guin, Serena
name: Samuels, Jonathan
Publisher: name: Wiley
Year: 2020

description: OBJECTIVE: This study sought to develop and employ a comprehensive and standardized ultrasound (US) protocol and scoring atlas for the evaluation of features relevant to knee osteoarthritis (KOA) in a community-based cohort in the United States, with the goals of demonstrating feasibility, reliability, and validity. METHODS: We utilized data from the fourth follow-up (2016-2018) of the Johnston County OA Project, which includes individuals with (~50%) and without radiographic KOA. All participants underwent standardized knee radiography and completed standard questionnaires including the Knee Injury and Osteoarthritis Outcome Score (KOOS). Bilateral knee US images were obtained by a trained sonographer using a standardized protocol and scored by trained rheumatologists using an atlas developed for this study. A total of 396 knees were each scored by two readers according to the atlas. Associations between US features, radiographic findings (graded by an expert radiologist), and KOOS scores were assessed. RESULTS: Overall interreader reliability for US scoring was fair to moderate. The strongest correlations between US and radiographic features were seen for osteophytes, and similarly strong correlations were seen between US osteophytes and overall radiographic Kellgren-Lawrence Grade, demonstrating criterion validity. Features of effusion/synovitis and osteophytes were most associated with KOOS pain and impaired function. CONCLUSION: US is a feasible, reliable, and valid method to assess features relevant to KOA in clinical and research settings. The protocol and atlas developed in this study can be utilized to evaluate KOA in a standardized fashion in future clinical studies, enabling greater utilization of this valuable modality in osteoarthritis.
Additional file 5 of Higher circulating Trimethylamine N-oxide levels are associated with worse severity and prognosis in pulmonary hypertension: a cohort study
Creators: name: Yang, Yicheng
name: Yang, Beilan
name: Li, Xin
name: Xue, Lin
name: Liu, Bingyang
name: Liang, Yanru
name: Zhao, Zhihui
name: Luo, Qin
name: Liu, Zhihong
name: Zeng, Qixian
name: Xiong, Changming
Publisher: name: figshare
Year: 2024
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 5: Table S2. Correlation between TMAO and clinical indicators.
A Systematic Review of Technology-Assisted HIV Testing Interventions
Creators: name: Horvath, Keith J.
name: Hightow-Weidman, Lisa
name: Walker, Teresa
name: Stephenson, Rob
name: Mireles, Linda
name: Bauermeister, Jose A.
Publisher: name: Springer Nature
Year: 2020

description: Purpose of ReviewThe purpose of this review is to describe and assess the literature on mobile health (mHealth) and other technology-based HIV testing interventions published in the 5-year period from 2015 to 2020.Recent FindingsWe identified 18 published technology-based studies, 6 of which were efficacy trials and the remaining 12 were either pilot randomized controlled trials (RCTs) or quasi-experimental studies. Most (n=10) interventions were conducted outside the USA, including countries in Sub-Saharan Africa (n=4), China (n=3), Latin America (n=2), and India (n=1). All efficacy trials showed some evidence of efficacy, although uptake of HIV testing was low among in intervention trials that consisted of a low number of text messages. Most pilot RCTs demonstrated high levels of feasibility and acceptability, as well as some evidence that the intervention participants benefited more than the control group. Many non-randomized trials similarly reported positive appraisal by study participants. Recommendations for future research and practice by the authors of the studies reviewed here are summarized.SummaryTechnology-assisted HIV testing interventions may be an important strategy to reach national and global targets for HIV status awareness in the general population and for most at-risk groups. Although there appears to be growing evidence of their benefit, questions linger regarding how to leverage existing social media platforms to promote HIV testing, which interventions work for what populations, and best practices for scaling up mHealth and other technology-based interventions.
SEN_conjoint_Appendix_online_supp – Supplemental material for How Political Signals Affect Public Support for Judicial Nominations
Creators: name: Sen, Maya
Publisher: name: SAGE Journals
Year: 2017
Subjects: subject: 160607 International Relations
subject: FOS: Political science

description: Supplemental material, SEN_conjoint_Appendix_online_supp for How Political Signals Affect Public Support for Judicial Nominations by Maya Sen in Political Research Quarterly
Additional file 4 of Higher circulating Trimethylamine N-oxide levels are associated with worse severity and prognosis in pulmonary hypertension: a cohort study
Creators: name: Yang, Yicheng
name: Yang, Beilan
name: Li, Xin
name: Xue, Lin
name: Liu, Bingyang
name: Liang, Yanru
name: Zhao, Zhihui
name: Luo, Qin
name: Liu, Zhihong
name: Zeng, Qixian
name: Xiong, Changming
Publisher: name: figshare
Year: 2024
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 4: Table S1. Baseline characteristics of PH patients with different etiologies.
Acceptability of a trial of vaginal progesterone for the prevention of preterm birth among HIV-infected women in Lusaka, Zambia: A mixed methods study
Creators: name: Vwalika, Bellington
name: Chibwe, Kasapo
name: Stringer, Jeffrey S. A.
name: Mabula-Bwalya, Chileshe M.
name: Golin, Carol E.
name: Carda-Auten, Jessica
name: Freeman, Bethany L.
name: Price, Joan T.
name: Phiri, Winifreda M.
name: Kantumoya, Patricia
Publisher: name: Public Library of Science (PLoS)
Year: 2020

description: Antenatal progesterone prevents preterm birth (PTB) in women with a short cervix or prior PTB in daily vaginal or weekly injectable formulations, respectively. Neither has been tested for the indication of maternal HIV, which is associated with an elevated risk of PTB. The Vaginal Progesterone (VP) Trial was a pilot feasibility study of VP to prevent HIV-related PTB in Lusaka, Zambia. Using mixed methods, we concurrently evaluated the acceptability of the trial and the study product among participants. Over a 1-year period, we enrolled 140 pregnant women living with HIV into a double-masked, placebo-controlled, randomized trial of daily self-administered VP or placebo. We administered an endline questionnaire to all participants and conducted in-depth interviews with 30 participants to assess barriers and facilitators to uptake and retention in the trial and to study product adherence. All interviews were audiotaped, transcribed, translated into English as needed, and independently coded by two analysts to capture emerging themes. Of 131 participants who completed the questionnaire, 128 (98%) reported that nothing was difficult when asked the hardest part about using the study product. When given a hypothetical choice between vaginal and injectable progesterone, 97 (74%) chose vaginal, 31 (24%) injectable, and 3 (2%) stated no preference. Most interviewees reported no difficulties with using the study product; others cited minor side effects and surmountable challenges. Strategies that supported adherence included setting alarms, aligning dosing with antiretrovirals, receiving encouragement from friends and family, sensing a benefit to their unborn baby, and positive feedback from study staff. Participants who reported preference of a vaginal medication over injectable described familiarity with the vaginal product, a fear of needles and resulting pain, and inconvenience of a weekly clinic visit. Those who would prefer weekly injections cited fewer doses to remember. Perceived barriers to study participation included mistrust about the motivations behind research, suspicion of Satanism, and futility or possible harm from a placebo. We report key influences on acceptability of a randomized trial of VP to prevent PTB among HIV-infected women in Zambia, which should inform methods to promote uptake, adherence, and retention in a full-scale trial.
Additional file 1 of SNCA genetic lowering reveals differential cognitive function of alpha-synuclein dependent on sex
Creators: name: Brown, Jennifer L.
name: Hart, Damyan W.
name: Boyle, Gabriel E.
name: Brown, Taylor G.
name: LaCroix, Michael
name: Baraibar, Andrés M.
name: Pelzel, Ross
name: Kim, Minwoo
name: Sherman, Mathew A.
name: Boes, Samuel
name: Sung, Michelle
name: Cole, Tracy
name: Lee, Michael K.
name: Araque, Alfonso
name: Lesné, Sylvain E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Mental Health
subject: Computational Biology

description: Additional file 1: Summary table of statistical tests and outcomes.
Accurate delineation of cell cycle phase transitions in living cells with PIP-FUCCI
Creators: name: Kedziora, Katarzyna M.
name: Grant, Gavin D.
name: Purvis, Jeremy E.
name: Cook, Jeanette Gowen
name: Limas, Juanita C.
Publisher: name: Taylor & Francis
Year: 2018

description: Cell cycle phase transitions are tightly orchestrated to ensure efficient cell cycle progression and genome stability. Interrogating these transitions is important for understanding both normal and pathological cell proliferation. By quantifying the dynamics of the popular FUCCI reporters relative to the transitions into and out of S phase, we found that their dynamics are substantially and variably offset from true S phase boundaries. To enhance detection of phase transitions, we generated a new reporter whose oscillations are directly coupled to DNA replication and combined it with the FUCCI APC/C reporter to create "PIP-FUCCI". The PIP degron fusion protein precisely marks the G1/S and S/G2 transitions; shows a rapid decrease in signal in response to large doses of DNA damage only during G1; and distinguishes cell type-specific and DNA damage source-dependent arrest phenotypes. We provide guidance to investigators in selecting appropriate fluorescent cell cycle reporters and new analysis strategies for delineating cell cycle transitions.
Additional file 3 of Higher circulating Trimethylamine N-oxide levels are associated with worse severity and prognosis in pulmonary hypertension: a cohort study
Creators: name: Yang, Yicheng
name: Yang, Beilan
name: Li, Xin
name: Xue, Lin
name: Liu, Bingyang
name: Liang, Yanru
name: Zhao, Zhihui
name: Luo, Qin
name: Liu, Zhihong
name: Zeng, Qixian
name: Xiong, Changming
Publisher: name: figshare
Year: 2024
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 3: Figure S3. TMAO levels in patients with different risk stratification and TMAO changes after clinical management. (A) Different TMAO levels in patients classified as low risk, intermediate risk and high risk group. (B-D) Changes of TMAO levels before and after treatment in total, non-deterioration, and deterioration patients. Analyses were explored using paired-samples t tests. *P < 0.05. TMAO: trimethylamine-N-oxide.
Supplemental Material2 - Supplemental material for Availability of secondary prevention services after stroke in Europe: An ESO/SAFE survey of national scientific societies and stroke experts
Creators: name: A Webb
name: MR Heldner
name: D Aguiar De Sousa
name: EC Sandset
name: G Randall
name: Y Bejot
name: B Van Der Worp
name: V Caso
name: U Fischer
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: Cardiology
subject: Medicine
subject: 110904 Neurology and Neuromuscular Diseases
subject: FOS: Clinical medicine

description: Supplemental material, Supplemental Material2 for Availability of secondary prevention services after stroke in Europe: An ESO/SAFE survey of national scientific societies and stroke experts by A Webb, MR Heldner, D Aguiar de Sousa, EC Sandset, G Randall, Y Bejot, B van der Worp, V Caso, U Fischer and On behalf of the ESO-SAFE Secondary Prevention Survey Steering Group: on behalf of the Queen of Hearts and the RECONNECT consortia in European Stroke Journal
title: Advancing Exposure Science in Europe – today‘s results for a safer future
Creators: name: :None
Publisher: name: German Federal Institute for Risk Assessment (BfR)
Year: 2024
Subjects: subject: 500

description: Exposure science is essential to assess possible health or environmental risks in the different regulatory and non-regulatory frameworks. As all parts of our lives, exposure science has also been challenged in the recent years, e.g. by climate change, by growing industrialisation or by technical enhancements, especially connected to artificial intelligence. The 2024 annual workshop of ISES Europe will bring together scientists from all fields of exposure science (dietary exposure, occupational exposure, environmental exposure, consumer exposure, radiation exposure) to share new approaches and results addressing those challenges and contributing to today‘s results for a safer future.
Adapting digital health interventions for the evolving HIV landscape: examples to support prevention and treatment research
Creators: name: Kiszla, B. Matthew
name: Hightow-Weidman, Lisa B.
name: Budhwani, Henna
Publisher: name: Wolters Kluwer
Year: 2022

description: PURPOSE OF REVIEW: Although many HIV prevention and/or treatment digital health interventions (DHIs) have shown feasibility and acceptability, fewer have indicated efficacy, and only a subset have been adapted for new contexts. Adaptation is a key element of pragmatic implementation science research. Adaptation is cost effective and time efficient compared with new development. Leveraging adaptation can lead to accelerated scale-up and enhanced public health impact. Considering the value of adaptation, the purpose of this piece is to present examples of DHI to DHI adaptation sequences to inform future HIV prevention and/or treatment research. RECENT FINDINGS: From an examination of recent academic articles (01 November 2016 to 31 October 2021), we identified adaptation sequences that included an original DHI with at least two adaptations. Four models are presented herein; examples consist of adapted DHIs for new population, health outcome, geography, or a combination thereof. SUMMARY: Adaptation is a promising scientific approach to expeditiously respond to the evolving HIV landscape. We present examples of DHI adaptations alongside considerations for each type of adaptation; we also present adaptation challenges with responsive strategies. We suggest when conducted with attention to rigor (leveraging adaptation frameworks, community engagement, and tailoring content), adaptation is a powerful tool to pragmatically address the HIV epidemic.
KimOpenPracticesDisclosure – Supplemental material for Self–Other Agreement in Personality Reports: A Meta-Analytic Comparison of Self- and Informant-Report Means
Creators: name: Kim, Hyunji
name: Di Domenico, Stefano I.
name: Connelly, Brian S.
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: Neurology and Neuromuscular Diseases
subject: FOS: Clinical medicine
subject: Psychology not elsewhere classified
subject: Psychiatry (incl. Psychotherapy)
subject: Neuroscience

description: Supplemental material, KimOpenPracticesDisclosure for Self–Other Agreement in Personality Reports: A Meta-Analytic Comparison of Self- and Informant-Report Means by Hyunji Kim, Stefano I. Di Domenico and Brian S. Connelly in Psychological Science
Addressing engagement in technology-based behavioural HIV interventions through paradata metrics
Creators: name: Muessig, Kathryn E.
name: Bauermeister, Jose A.
name: Golinkoff, Jesse M.
name: Horvath, Keith J.
name: Hightow-Weidman, Lisa B.
Publisher: name: Wolters Kluwer
Year: 2017

description: PURPOSE OF REVIEW: The goal of this review was to examine how often researchers report participants' online engagement using paradata (i.e. intervention usage metrics) when describing the outcomes of online behavioural HIV prevention and care interventions. We also highlight the utility of paradata collection and analysis in future technology-based trials. RECENT FINDINGS: We focused on studies indexed on PubMed and published between 1 January 2016 and 31 March 2017 that reported the development and testing of online behavioural interventions for HIV prevention and/or care. Of the 705 extracted citations, six met study criteria. SUMMARY: Only one study reported paradata reflecting participants' engagement with a technology-based intervention. Researchers should systematically collect and analyse paradata to strengthen the evidence base for technology-based interventions (do they work?), advance the use of behaviour change theory across modalities and platforms (how/why do they work?) and inform reach and scale-up efforts (for whom do they work?). Researchers may also rely on paradata to examine dose-response relationships due to user engagement, to identify replicable core components linked to behaviour change outcomes, to allocate resources judiciously and drive down development costs, and to pool these metrics for use in future meta-analyses.
Table_4_supplementary – Supplemental material for Participants’ Understanding of Informed Consent for Biobanking: A Systematic Review
Creators: name: Eisenhauer, Elizabeth R.
name: Tait, Alan R.
name: Rieh, Soo Young
name: Arslanian-Engoren, Cynthia M.
Publisher: name: SAGE Journals
Year: 2017
Subjects: subject: 111099 Nursing not elsewhere classified
subject: FOS: Health sciences

description: Supplemental material, Table_4_supplementary for Participants’ Understanding of Informed Consent for Biobanking: A Systematic Review by Elizabeth R. Eisenhauer, Alan R. Tait, Soo Young Rieh and Cynthia M. Arslanian-Engoren in Clinical Nursing Research
Supplemental Material, MRX806891_Supplemental_Material - Class Background, Reception Context, and Intergenerational Mobility: A Record Linkage and Surname Analysis of the Children of Irish Immigrants
Creators: name: Connor, Dylan Shane
Publisher: name: SAGE Journals
Year: 2018
Subjects: subject: 160607 International Relations
subject: FOS: Political science

description: Supplemental Material, MRX806891_Supplemental_Material for Class Background, Reception Context, and Intergenerational Mobility: A Record Linkage and Surname Analysis of the Children of Irish Immigrants by Dylan Shane Connor in International Migration Review
Adolescent Medicine Trials Network for HIV/AIDS Interventions Data Harmonization: Rationale and Development of Guidelines
Creators: name: Psioda, Matthew A
name: Murphy, Debra A
name: LeGrand, Sara
name: Mayer, Kenneth H
name: Starks, Tyrel J
name: Se±a, Arlene C
name: Hudgens, Michael
name: McCumber, Micah
name: Cain, Demetria
Publisher: name: JMIR Publications
Year: 2018

description: BACKGROUND: The Adolescent Medicine Trials Network for HIV/AIDS Interventions (ATN) research program aims to defeat the rising HIV epidemic among adolescents and young adults in the United States. OBJECTIVE: This study aims to optimize cross-study analyses and comparisons of standardized measures (variables) collected in the ATN. METHODS: Guidelines were developed for harmonizing measures to be collected across ATN studies. RESULTS: Eight domains were identified for harmonization-Demographics and Socioeconomic Characteristics, Sexual Behavior and Risk, Substance Use and Abuse, HIV-Positive Cascade, HIV-Negative Cascade, Mental Health, Social Support and Isolation, and Pre-exposure Prophylaxis Cascade. CONCLUSIONS: The collection of selected key measures in a uniform manner across studies facilitates the characterization of participant populations, comparisons between studies, and pooled analysis of data from multiple studies.