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  1. Article ; Online: Ethical challenges in pathogen sequencing

    Stephanie Johnson / Michael Parker

    Wellcome Open Research, Vol

    a systematic scoping review [version 1; peer review: 2 approved]

    2020  Volume 5

    Abstract: Background: Going forward, the routine implementation of genomic surveillance activities and outbreak investigation is to be expected. We sought to systematically identify the emerging ethical challenges; and to systematically assess the gaps in ethical ... ...

    Abstract Background: Going forward, the routine implementation of genomic surveillance activities and outbreak investigation is to be expected. We sought to systematically identify the emerging ethical challenges; and to systematically assess the gaps in ethical frameworks or thinking and identify where further work is needed to solve practical challenges. Methods: We systematically searched indexed academic literature from PubMed, Google Scholar, and Web of Science from 2000 to April 2019 for peer-reviewed articles that substantively engaged in discussion of ethical issues in the use of pathogen genome sequencing technologies for diagnostic, surveillance and outbreak investigation. Results: 28 articles were identified; nine United States, five United Kingdom, five The Netherlands, three Canada, two Switzerland, one Australia, two South Africa, and one Italy. Eight articles were specifically about the use of sequencing in HIV. Eleven were not specific to a particular disease. Results were organized into four themes: tensions between public and private interests; difficulties with translation from research to clinical and public health practice; the importance of community trust and support; equity and global partnerships; and the importance of context. Conclusion: While pathogen sequencing has the potential to be transformative for public health, there are a number of key ethical issues that must be addressed, particularly around the conditions of use for pathogen sequence data. Ethical standards should be informed by public values, and further empirical work investigating stakeholders’ views are required. Development in the field should also be under-pinned by a strong commitment to values of justice, in particular global health equity.
    Keywords Medicine ; R ; Science ; Q
    Subject code 170 ; 306
    Language English
    Publishing date 2020-06-01T00:00:00Z
    Publisher Wellcome
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: Meta-analytic evidence for a robust and positive association between individuals’ pro-environmental behaviors and their subjective wellbeing

    Stephanie Johnson Zawadzki / Linda Steg / Thijs Bouman

    Environmental Research Letters, Vol 15, Iss 12, p

    2020  Volume 123007

    Abstract: While it is often suggested that individuals’ pro-environmental behaviors may be linked with their subjective wellbeing, the strength and direction (e.g. positive or negative) of this relation is unclear. Because pro-environmental behaviors impact ... ...

    Abstract While it is often suggested that individuals’ pro-environmental behaviors may be linked with their subjective wellbeing, the strength and direction (e.g. positive or negative) of this relation is unclear. Because pro-environmental behaviors impact peoples’ everyday lives, understanding this relation is critical for promoting long-term environmental solutions. Using a series of meta-analyses, we systematically reviewed the literature on the association between individuals’ pro-environmental behaviors and their subjective wellbeing. We hypothesized that the relation between pro-environmental behavior and subjective wellbeing would be positive and strongest among types of behaviors (e.g. sustainable purchase decisions) and indicators of subjective wellbeing which more clearly reflect personal meaning (e.g. warm glow). We sourced studies via PsychINFO, PsychARTICLES, GreenFile, SocINDEX, Web of Science, and Scopus, as well as professional email lists, direct contact with authors who publish in this domain, data from the authorship team, and the European Social Survey (2016). We included studies with quantitative data on the relation between individuals’ pro-environmental behavior and their subjective wellbeing, ultimately identifying 78 studies (73 published, 5 unpublished) for synthesis. Across multiple indicators of pro-environmental behaviors and subjective wellbeing, we found a significant, positive relation (overall r = .243), and this relation did not meaningfully differ across study characteristics (e.g. sample, design). As predicted, the relation was particularly strong for indicators of pro-environmental behavior and subjective wellbeing which clearly reflect meaning, such as sustainable purchase decisions ( r = .291) and for warm glow ( r = .408). We found a robust, positive relation between people’s pro-environmental behaviors and subjective wellbeing, and initial evidence that this relation may be stronger the more clearly behaviors and indicators of subjective wellbeing reflect meaning. Our results ...
    Keywords pro-environmental behavior ; subjective wellbeing ; psychology ; happiness ; meta-analysis ; Environmental technology. Sanitary engineering ; TD1-1066 ; Environmental sciences ; GE1-350 ; Science ; Q ; Physics ; QC1-999
    Subject code 501
    Language English
    Publishing date 2020-01-01T00:00:00Z
    Publisher IOP Publishing
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Alternative sources of cautery may improve post-operative hematoma rates but increase operative time in thyroid surgery

    Corliss A. E. Best / Alexandra E. Quimby / Stephanie Johnson-Obaseki

    Scientific Reports, Vol 11, Iss 1, Pp 1-

    2021  Volume 8

    Abstract: Abstract A retrospective risk-adjusted analysis was completed using data from the National Surgical Quality Improvement Program (NSQIP) to (1) compare the risks of post-operative hematoma for thyroid surgery using conventional cautery compared ... ...

    Abstract Abstract A retrospective risk-adjusted analysis was completed using data from the National Surgical Quality Improvement Program (NSQIP) to (1) compare the risks of post-operative hematoma for thyroid surgery using conventional cautery compared alternative energy devices (defined as LigaSure and Harmonic Scalpel), and (2) compare operative times for the same. The primary outcome variable was post-operative hematoma occurrence. The secondary outcome variable was operative time. The exposure variable was use of conventional or alternative sources of cautery. All adult patients who underwent a total thyroidectomy, subtotal thyroidectomy or completion thyroidectomy between 2016 and 2018 were included. Multivariable linear and logistic regression analyses were performed to control for potentially confounding variables. A total of 13,330 cases were analyzed; 4342 used conventional cautery, and 8988 used alternative sources. There was a statistically significant decrease in post-operative hematoma risk using alternative sources of cautery compared to conventional cautery (OR 0.75; 95% CI 0.58–0.98) (p = 0.04). Use of alternative sources of cautery added 4.95 min onto operative time (95% CI 2.45–7.45) which was statistically significant (p < 0.0001). After controlling for confounding variables, there was a statistically significant lower rate of post-operative hematoma in thyroidectomies performed using alternative sources of cautery compared to those performed with traditional hemostatic methods. Alternative sources of cautery increased operative time by 4.95 min.
    Keywords Medicine ; R ; Science ; Q
    Subject code 630
    Language English
    Publishing date 2021-11-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: Isolated oropharyngeal abscess with hypopharyngeal extension recurring 12 years after initial surgical management

    Michel Khoury / Selina Xiangxu Dong / Hussain Alsaffar / Stephanie Johnson-Obaseki / Lisa Caulley

    SAGE Open Medical Case Reports, Vol

    A case report and review of the literature

    2022  Volume 10

    Abstract: Pharyngeal abscesses require urgent management as they have the propensity to cause severe and life-threatening complications. The introduction of antibiotics has led to a dramatic decline in the incidence of these infections. Regardless, abscess ... ...

    Abstract Pharyngeal abscesses require urgent management as they have the propensity to cause severe and life-threatening complications. The introduction of antibiotics has led to a dramatic decline in the incidence of these infections. Regardless, abscess formation continues to be observed in the peritonsillar, parapharyngeal, and retropharyngeal spaces. Oropharyngeal and hypopharyngeal abscesses that cause airway obstruction are scarcely reported and tend to be secondary to other processes. Herein, we describe the case of an 83-year-old man presenting with an idiopathic, obstructive, oropharyngeal wall abscess, extending from the infratonsillar region to the hypopharynx, which recurred after initial surgical management 12 years prior for the same process. He required reintervention during both episodes for rapid reaccumulation. A detailed electronic literature search of PubMed and MedLine was performed for studies reporting on recurrent pharyngeal abscesses and their management. Results were limited to articles published in English from inception to August 2021. The timely management of pharyngeal infections acutely obstructing the airway is crucial. Physicians should adopt close and frequent monitoring and have a low threshold for reimaging should symptoms worsen or fail to improve after the initial surgical intervention.
    Keywords Medicine (General) ; R5-920
    Language English
    Publishing date 2022-04-01T00:00:00Z
    Publisher SAGE Publishing
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article ; Online: Base of the tongue hyalinizing clear cell carcinoma

    Fahad Al Zadjali / Hussain Alsaffar / Michael Odell / Jason K Wasserman / Angelina Tohme / Stephanie Johnson-Obaseki

    SAGE Open Medical Case Reports, Vol

    Case report and literature review

    2023  Volume 11

    Abstract: Hyalinizing clear cell carcinoma is an uncommon neoplasm arising in minor salivary glands. We present a rare case of hyalinizing clear cell carcinoma in the base of the tongue. We report a case of a 38-year-old female presented with a progressive history ...

    Abstract Hyalinizing clear cell carcinoma is an uncommon neoplasm arising in minor salivary glands. We present a rare case of hyalinizing clear cell carcinoma in the base of the tongue. We report a case of a 38-year-old female presented with a progressive history of hemoptysis and dysphagia over the course of 4 years. Examination revealed a mass originating from the base of the tongue with a biopsy confirmed as hyalinizing clear cell carcinoma . An Ovid MEDLINE and PubMed literature review was conducted due to the rarity of this type of tumor. The patient underwent surgical excision with immediate reconstruction with radial forearm free flap followed with adjuvant radiotherapy and was disease free at her most recent follow-up (12 months). Our review included a total of 13 new cases, including our case. The majority of the cases presented with dysphagia. Surgical excision is the mainstay of treatment, and overall these patients have a good prognosis. Our case highlights a rare presentation of hyalinizing clear cell carcinoma of the base of the tongue, successfully treated with surgical excision, free tissue reconstruction and adjuvant radiotherapy.
    Keywords Medicine (General) ; R5-920
    Subject code 616
    Language English
    Publishing date 2023-11-01T00:00:00Z
    Publisher SAGE Publishing
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article: The value of what others value: When perceived biospheric group values influence individuals’ pro-environmental engagement

    Bouman, Thijs / Steg, Linda / Zawadzki, Stephanie Johnson

    Journal of environmental psychology. 2020 Oct., v. 71

    2020  

    Abstract: It is well-understood that biospheric personal values (i.e., finding it important to care about nature and the environment) predict individuals' pro-environmental engagement (i.e., motivations, beliefs, attitudes, actions). Yet, little is known about the ...

    Abstract It is well-understood that biospheric personal values (i.e., finding it important to care about nature and the environment) predict individuals' pro-environmental engagement (i.e., motivations, beliefs, attitudes, actions). Yet, little is known about the potential influence group's biospheric values may have on individuals' pro-environmental engagement. In the current paper we hypothesized that when individuals perceive their group to prioritize biospheric values more strongly, their pro-environmental engagement becomes stronger (H1), and that this relationship is particularly pronounced among individuals who strongly identify with the group (H2) and who do not already strongly endorse biospheric values themselves (H3). Our study among 1711 Americans, who depending on the condition answered questions about either their American or political identity (i.e., liberal or conservative, depending on the respondent's political affiliation), found consistent support for our hypotheses across all groups. Our findings have important implications for theory on values and groups, as well for practice. Discussion provides new avenues for future research and interventions, particularly for how to motivate individuals who are not strongly personally motivated.
    Keywords biosphere ; politics ; psychology
    Language English
    Dates of publication 2020-10
    Publishing place Elsevier Ltd
    Document type Article
    Note NAL-AP-2-clean
    ISSN 0272-4944
    DOI 10.1016/j.jenvp.2020.101470
    Database NAL-Catalogue (AGRICOLA)

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  7. Article ; Online: Influence of the 2015–2016 El Niño on the record-breaking mangrove dieback along northern Australia coast

    S. Abhik / Pandora Hope / Harry H. Hendon / Lindsay B. Hutley / Stephanie Johnson / Wasyl Drosdowsky / Josephine R. Brown / Norman C. Duke

    Scientific Reports, Vol 11, Iss 1, Pp 1-

    2021  Volume 12

    Abstract: Abstract This study investigates the underlying climate processes behind the largest recorded mangrove dieback event along the Gulf of Carpentaria coast in northern Australia in late 2015. Using satellite-derived fractional canopy cover (FCC), variation ... ...

    Abstract Abstract This study investigates the underlying climate processes behind the largest recorded mangrove dieback event along the Gulf of Carpentaria coast in northern Australia in late 2015. Using satellite-derived fractional canopy cover (FCC), variation of the mangrove canopies during recent decades are studied, including a severe dieback during 2015–2016. The relationship between mangrove FCC and climate conditions is examined with a focus on the possible role of the 2015–2016 El Niño in altering favorable conditions sustaining the mangroves. The mangrove FCC is shown to be coherent with the low-frequency component of sea level height (SLH) variation related to the El Niño Southern Oscillation (ENSO) cycle in the equatorial Pacific. The SLH drop associated with the 2015–2016 El Niño is identified to be the crucial factor leading to the dieback event. A stronger SLH drop occurred during austral autumn and winter, when the SLH anomalies were about 12% stronger than the previous very strong El Niño events. The persistent SLH drop occurred in the dry season of the year when SLH was seasonally at its lowest, so potentially exposed the mangroves to unprecedented hostile conditions. The influence of other key climate factors is also discussed, and a multiple linear regression model is developed to understand the combined role of the important climate variables on the mangrove FCC variation.
    Keywords Medicine ; R ; Science ; Q
    Language English
    Publishing date 2021-10-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article ; Online: Elevated Total Serum Immunoglobulin A Levels in Patients with Suspicion for Celiac Disease

    Twan Sia / Leeon Bacchus / Evan Cunningham / Katie Hsia / Megan Miller / Taylor Epstein / Yasmine Myftija / Albert Mousad / Yerramalla Sai Dinesh / Harika Maddisetty / Vinay Chandra / Ziqi Guo / Anya Gupta / Stephanie Johnson / Julia Logan / Emily Mawyer / Ally Scheve / Haitong Yu / John Leung

    Journal of Clinical Medicine, Vol 12, Iss 5101, p

    2023  Volume 5101

    Abstract: Patients with classic symptoms of celiac disease are often initially tested for serum tissue transglutaminase-immunoglobulin A (tTG-IgA) and total serum immunoglobulin A (IgA) levels concurrently, as IgA deficiency can lead to falsely low tTG-IgA. There ... ...

    Abstract Patients with classic symptoms of celiac disease are often initially tested for serum tissue transglutaminase-immunoglobulin A (tTG-IgA) and total serum immunoglobulin A (IgA) levels concurrently, as IgA deficiency can lead to falsely low tTG-IgA. There are no guidelines for incidental findings of elevated total serum IgA when testing for celiac disease. In our study, we described the proportion of patients with suspicion of celiac disease who had elevated total serum IgA and the factors that may be associated with these findings. We studied the management of these patients with incidental findings of elevated total serum IgA to identify its clinical significance. To investigate, we performed a retrospective chart review of patients who underwent celiac disease serologic testing at a single clinic from January 2017 to June 2022. We reported further laboratory workup and follow-up for patients with incidental findings of elevated total serum IgA by board-certified immunologists. In our chart review, 848 patients were identified, 85 (10.0%) of whom were found to be negative for celiac disease but had elevated total serum IgA levels (median IgA 351 mg/dL, interquartile range 324–382). Out of 85 patients, 73 were further evaluated by immunologists, with 55 patients undergoing additional laboratory workup. None were diagnosed with specific immunologic conditions. Male sex was identified as associated with elevated total serum IgA findings, and constipation was found in a statistically significant greater frequency of patients with normal total serum IgA rather than elevated total serum IgA. To provide external validation of our findings, we created a second patient cohort within the Stanford Research Repository database. Out of 33,875 patients identified, a similarly high proportion of patients were negative for celiac disease but had elevated total serum IgA levels (9.3%, 3140 patients). In this separate patient cohort, male sex was also identified as being associated with elevated total serum IgA. Our study also ...
    Keywords IgA ; tissue transglutaminase-immunoglobulin A ; tTG-IgA ; serology ; celiac ; Medicine ; R
    Subject code 610 ; 616
    Language English
    Publishing date 2023-08-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article ; Online: Anticipating hopes, fears and expectations towards COVID-19 vaccines

    Katharina T. Paul / Bettina M. Zimmermann / Paolo Corsico / Amelia Fiske / Susi Geiger / Stephanie Johnson / Janneke M.L. Kuiper / Elisa Lievevrouw / Luca Marelli / Barbara Prainsack / Wanda Spahl / Ine Van Hoyweghen

    SSM: Qualitative Research in Health, Vol 2, Iss , Pp 100035- (2022)

    A qualitative interview study in seven European countries

    2022  

    Abstract: Vaccine uptake is essential to managing the ongoing COVID-19 pandemic, and vaccine hesitancy is a persistent concern. At the same time, both decision-makers and the general population have high hopes for COVID-19 vaccination. Drawing from qualitative ... ...

    Abstract Vaccine uptake is essential to managing the ongoing COVID-19 pandemic, and vaccine hesitancy is a persistent concern. At the same time, both decision-makers and the general population have high hopes for COVID-19 vaccination. Drawing from qualitative interview data collected in October 2020 as part of the pan-European SolPan study, this study explores early and anticipatory expectations, hopes and fears regarding COVID-19 vaccination across seven European countries. We find that stances towards COVID-19 vaccines were shaped by personal lived experiences, but participants also aligned personal and communal interests in their considerations. Trust, particularly in expert institutions, was an important prerequisite for vaccine acceptance, but participants also expressed doubts about the rapid vaccine development process. Our findings emphasise the need to move beyond the study of factors driving vaccine hesitancy, and instead to focus on how people personally perceive vaccination in their particular social and political context.
    Keywords SARS-CoV-2 ; Vaccine hesitancy ; Europe ; Pandemic ; Qualitative research ; Vaccination policy ; Public aspects of medicine ; RA1-1270
    Subject code 320
    Language English
    Publishing date 2022-12-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article ; Online: Poly(dA:dT)-rich DNAs are highly flexible in the context of DNA looping.

    Stephanie Johnson / Yi-Ju Chen / Rob Phillips

    PLoS ONE, Vol 8, Iss 10, p e

    2013  Volume 75799

    Abstract: Large-scale DNA deformation is ubiquitous in transcriptional regulation in prokaryotes and eukaryotes alike. Though much is known about how transcription factors and constellations of binding sites dictate where and how gene regulation will occur, less ... ...

    Abstract Large-scale DNA deformation is ubiquitous in transcriptional regulation in prokaryotes and eukaryotes alike. Though much is known about how transcription factors and constellations of binding sites dictate where and how gene regulation will occur, less is known about the role played by the intervening DNA. In this work we explore the effect of sequence flexibility on transcription factor-mediated DNA looping, by drawing on sequences identified in nucleosome formation and ligase-mediated cyclization assays as being especially favorable for or resistant to large deformations. We examine a poly(dA:dT)-rich, nucleosome-repelling sequence that is often thought to belong to a class of highly inflexible DNAs; two strong nucleosome positioning sequences that share a set of particular sequence features common to nucleosome-preferring DNAs; and a CG-rich sequence representative of high G+C-content genomic regions that correlate with high nucleosome occupancy in vivo. To measure the flexibility of these sequences in the context of DNA looping, we combine the in vitro single-molecule tethered particle motion assay, a canonical looping protein, and a statistical mechanical model that allows us to quantitatively relate the looping probability to the looping free energy. We show that, in contrast to the case of nucleosome occupancy, G+C content does not positively correlate with looping probability, and that despite sharing sequence features that are thought to determine nucleosome affinity, the two strong nucleosome positioning sequences behave markedly dissimilarly in the context of looping. Most surprisingly, the poly(dA:dT)-rich DNA that is often characterized as highly inflexible in fact exhibits one of the highest propensities for looping that we have measured. These results argue for a need to revisit our understanding of the mechanical properties of DNA in a way that will provide a basis for understanding DNA deformation over the entire range of biologically relevant scenarios that are impacted by DNA deformability.
    Keywords Medicine ; R ; Science ; Q
    Subject code 612
    Language English
    Publishing date 2013-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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