bluuebunny/crossref_metadata_2025 huggingface dataset:
In Vitro
and
In Vivo
Evaluation of Synergistic Effects of Everolimus in Combination with Antifungal Agents on
Exophiala dermatitidis
Authors: Jia Gengpei , Hu Jing , Tan Lihua , Li Longting , Gao Lujuan , Sun Yi
Published: May 2023

Cancer patients with
E. dermatitidis
infection have high mortality if untreated. Clinically, the conventional treatment of
E. dermatitidis
is poor due to the long-term use of antifungal drugs.
Supplemental Material: Monazite and xenotime petrochronologic constraints on four Proterozoic tectonic episodes and ca. 1705 Ma age of the Uncompahgre Formation, southwestern Colorado, USA
Authors: Hillenbrand Ian W. , al. et
Published: May 2023

Detailed methods, sample descriptions, additional petrographic images and compositional maps, and tabulated analytical data.
Supplemental Material: Thermal architecture of the Salmon River suture zone, Idaho, USA: Implications for the structural evolution of a ductile accretionary complex during arc-continent collision
Authors: Long Sean P. , al. et
Published: May 2023

Consists of text that provides details on analytical methods for collection of Raman spectroscopy of carbonaceous material (RSCM) thermometry, as well as two tables of supporting data for RSCM analyses. 
Supplemental Material: A late Mesozoic Cu mineralizing event in the eastern Central Asian Orogenic Belt, NE China: Implications from geology and geochronology of the newly discovered Zhalageamu deposit
Authors: Zhao Qingqing , Zhai Degao , al. et
Published: May 2023

Table S1: Results of zircon LA-ICP-MS U-Pb analyses of the granite porphyry in the Zhalageamu copper deposit. Table S2: Results of Re-Os isotope analyses of molybdenite in the Zhalageamu copper deposit. Table S3: Results of Re-Os isotope analyses of arsenopyrite in the Zhalageamu copper deposit. Table S4: Results of Re-Os isotope analyses of chalcopyrite and pyrite in the Zhalageamu copper deposit. Table S5: Ages and Re contents of different deposits in the southern part of the Great Xing’an Range.
Immune-mediated herb-induced liver injury: a potential association with herbal artemisinin use as supported by the updated RUCAM
Authors: Mathavan Akash , Mathavan Akshay , Krekora Urszula , Daily Karen
Published: May 2023

Immune-mediated herb-induced liver injury (HILI) is an acute or chronic inflammatory liver disease precipitated by a hepatotoxic agent with a presentation similar to acute autoimmune hepatitis. It is distinguished in clinical course from true autoimmune hepatitis by remission on drug discontinuation and immunosuppressive treatment. We report a potential case of immune-mediated HILI associated with artemisinin use, an herb underlying first-line malarial treatments, in a woman undergoing radiotherapy for right-sided pelvic sarcoma. A probable association in this case is supported by causality assessment using the updated Roussel Uclaf Causality Assessment Method (score of 6). She achieved clinical improvement with a course of oral corticosteroids and remained stable without relapse following discontinuation. Increased awareness of this complication is imperative, as literature to date only documents direct hepatocellular and cholestatic liver injury from artemisinin use, and should augment clinician counsel regarding complementary medicine administration, especially in high-risk individuals like those with cancer.
Repeatability and reproducibility of a new fully automatic measurement optical low coherence reflectometry biometer and agreement with swept-source optical coherence tomography-based biometer
Authors: Yu Jinjin , Zhao Guoli , Lei Chak Seng , Wan Ting , Ning Rui , Xing Wenqian , Ma Xindi , Pan Hongxian , Savini Giacomo , Schiano-Lomoriello Domenico , Zhou Xingtao , Huang Jinhai
Published: May 2023

Aims

To assess the repeatability and reproducibility of the ocular measurements obtained with the Suoer SW-9000 μm Plus, a new fully automatic biometer based on optical low coherence reflectometry (OLCR) biometer, and to compare them to those obtained by a swept-source optical coherence tomography (SS-OCT)-based biometer.

Methods

This prospective study consisted of 115 eyes of 115 healthy subjects. The measurements were taken by the two optical biometers in random order. The measured parameters were axial length (AL), central corneal thickness (CCT), aqueous depth (AQD), anterior chamber depth (ACD), mean keratometry (Km), lens thickness (LT) and corneal diameter (CD). To evaluate the intraobserver repeatability and interobserver reproducibility, the within-subject SD, test–retest variability, coefficient of variation (CoV) and intraclass correlation coefficient (ICC) were adopted. The Bland-Altman plot was drawn to assess the agreement.

Results

The repeatability and reproducibility of all parameters for the new device were excellent (ICC>0.960 and CoV<0.71%). The Bland-Altman plots showed high agreement between the OLCR-based and SS-OCT-based devices for AL, CCT, AQD, ACD, Km and LT, with narrow 95% limit of agreements (LoAs) (−0.08 mm to 0.06 mm, −15.91 µm to −1.01 µm, −0.09 mm to 0.09 mm, −0.09 mm to 0.08 mm, −0.47 D to 0.35 D, −0.05 mm to 0.16 mm, respectively) and moderate agreement for CD (95% LoA: −0.67 mm to −0.01 mm).

Conclusions

The new Suoer SW-9000 μm Plus biometer showed excellent repeatability and reproducibility. All the parameters obtained by this biometer were similar to those measured by SS-OCT-based biometer.
Association of early life physical and sexual abuse with premature mortality among female nurses: prospective cohort study
Authors: Wang Yi-Xin , Sun Yang , Missmer Stacey A , Rexrode Kathryn M , Roberts Andrea L , Chavarro Jorge E , Rich-Edwards Janet W
Published: May 2023

Objective

To explore associations between early life physical and sexual abuse and subsequent risk of premature mortality (death before age 70 years).

Design

Prospective cohort study.

Setting

The Nurses’ Health Study II (2001-19).

Participants

67 726 female nurses aged 37-54 years when completing a violence victimization questionnaire in 2001.

Main outcome measures

Hazard ratios and 95% confidence intervals for total and cause specific premature mortality by childhood or adolescent physical and sexual abuse, estimated by multivariable Cox proportional hazard models.

Results

2410 premature deaths were identified over 18 years of follow-up. Nurses who experienced severe physical abuse or forced sexual activity in childhood and adolescence had a higher crude premature mortality rate than nurses without such abuse in childhood or adolescence (3.15
v
1.83 and 4.00
v
1.90 per 1000 person years, respectively). The corresponding age adjusted hazard ratios for premature deaths were 1.65 (95% confidence interval 1.45 to 1.87) and 2.04 (1.71 to 2.44), respectively, which were materially unchanged after further adjusting for personal characteristics and early life socioeconomic status (1.53, 1.35 to 1.74, and 1.80, 1.50 to 2.15, respectively). Cause specific analyses indicated that severe physical abuse was associated with a greater risk of mortality due to external causes of injury and poisoning (multivariable adjusted hazard ratio 2.81, 95% confidence interval 1.62 to 4.89), suicide (3.05, 1.41 to 6.60), and diseases of the digestive system (2.40, 1.01 to 5.68). Forced sexual activity as a child and adolescent was associated with greater risk of mortality due to cardiovascular disease (2.48, 1.37 to 4.46), external injury or poisoning (3.25, 1.53 to 6.91), suicide (4.30, 1.74 to 10.61), respiratory disease (3.74, 1.40 to 9.99), and diseases of the digestive system (4.83, 1.77 to 13.21). The association of sexual abuse with premature mortality was stronger among women who smoked or had higher levels of anxiety during adulthood. Smoking, low physical activity, anxiety, and depression each explained 3.9-22.4% of the association between early life abuse and premature mortality.

Conclusion

Early life physical and sexual abuse could be associated with a greater risk of adult premature mortality.
Risk of malignant lymphomas in patients with inflammatory bowel disease: a population-based cohort study
Authors: Yu Jingru , Refsum Erle , Wieszczy Paulina , Helsingen Lise M , Perrin Vera , Högdén Amanda , Løberg Magnus , Blom Johannes , Bretthauer Michael , Adami Hans-Olov , Ye Weimin , Kalager Mette
Published: May 2023

Objective

To estimate the risk of non-Hodgkin’s lymphoma (NHL) and Hodgkin’s lymphoma (HL) in patients with inflammatory bowel disease (IBD).

Design

We undertook a two-country population cohort study with all patients diagnosed with IBD in Norway and Sweden from 1987 and 1993 through 2015 and 2016, respectively, and analysed the risk of NHL and HL. In Sweden, we also analysed prescriptions of thiopurines and anti-tumour necrosis factor (TNF)-α therapy from 2005. We calculated standardised incidence ratios (SIRs) with 95% CIs using the general populations as reference.

Results

Among 131 492 patients with IBD with a medium follow-up of 9.6 years, we identified 369 cases of NHL and 44 cases of HL. The SIR of NHL was 1.3 (95% CI 1.1 to 1.5) in ulcerative colitis and 1.4 (95% CI 1.2 to 1.7) in Crohn’s disease. We found no compelling heterogeneity in analyses stratified by patient characteristics. We found a similar pattern and magnitude of excess risks for HL. At 10 years, cumulative incidence was 0.26% (95% CI 0.23% to 0.30%) and 0.06% (95% CI 0.04% to 0.08%) for NHL and HL, respectively. Higher excess risks were found among patients with NHL with concomitant primary sclerosing cholangitis (SIR 3.4; 95% CI 2.1 to 5.2) and in those prescribed thiopurines alone (SIR 2.8; 95% CI 1.4 to 5.7) or with anti-TNF-α agents (SIR 5.7; 95% CI 2.7 to 11.9).

Conclusion

Patients with IBD have a statistically significant increased risk of malignant lymphomas compared with the general population, but the absolute risk remains low.
Process of drug registration in Israel: the correlation between the number of discussions within the Ministry of Health and postapproval variations by EMA and/or FDA
Authors: Hiayev Stephany , Shacham-Shmueli Einat , Berkovitch Matitiahu , Weiss Ilana , Ashkenazi Shai , Vexberg Michal Hirsch , Hershkowitz Rami , Gorelik Einat , Mayan Haim , Steinmetz Yehudit , Yanai Noa Berar , Schlissel Orly , Azem Muhammad , Gutgold Neriya , Shulman Katerina , Divinsky Milly , Yarom Nirit , Vishkautzan Alla , Ganzel Chezi , Gatt Moshe E , Arcavi Lidia , Marom Eli , Uziely Biatrice , Zevin Shoshana , Meirow Hadar , Luxenburg Osnat , Ainbinder Denize
Published: May 2023

Objectives

US FDA and EMA allow facilitated regulatory pathways to expedite access to new treatments. Limited supportive data may result in major postapproval variations. In Israel, partly relying on Food and Drug Administration (FDA) and European Medicines Agency (EMA), clinical data are reviewed independently by the Advisory Committee of Drug Registration (ACDR). In this study, the correlation between the number of discussions at the ACDR and major postapproval variations is examined.

Design

This is an observational retrospective comparative cohort study.

Setting

Applications with FDA and/or EMA approval at time of assessment in Israel were included. The timeframe was chosen to allow a minimum of 3 years of postmarketing approval experience for potential major label variations. Data regarding the number of discussions at ACDR were extracted from protocols. Data on postapproval major variations were extracted from the FDA and EMA websites.

Results

Between 2014 and 2016, 226 (176 drugs) applications, met the study criteria. 198 (87.6%) and 28 (12.4%) were approved following single and multiple discussions, respectively. A major postapproval variation was recorded in 129 (65.2%) compared with 23 (82.1%) applications approved following single and multiple discussions, respectively (p=0.002). Increased risk for major variation was found for medicines approved following multiple discussions (HR=1.98, 95% CI: 1.26 to 3.09) with a median time of 1.2 years, applications approved based on phase II trials (HR=2.58, 95% CI: 1.72 to 3.87), surrogate endpoints (HR=1.99, 95% CI: 1.44 to 2.74) and oncologic indications (HR=2.48, 95% CI: 1.78 to 3.45).

Conclusions

Multiple ACDR discussions associated with limited supportive data are predictive for major postapproval variations. Moreover, our findings demonstrate that approval by the FDA and/or EMA does not pave the way to automatic approval in Israel. In a substantial per cent of the cases, submission of the same clinical data resulted in different safety and efficacy considerations, requiring additional supporting data in some cases or even rejection of the application in others.
Reporting of adverse events associated with spinal manipulation in randomised clinical trials: an updated systematic review
Authors: Gorrell Lindsay M , Brown Benjamin T , Engel Roger , Lystad Reidar P
Published: May 2023

Objectives

To describe if there has been a change in the reporting of adverse events associated with spinal manipulation in randomised clinical trials (RCTs) since 2016.

Design

A systematic literature review.

Data sources

Databases were searched from March 2016 to May 2022: MEDLINE (Ovid), Embase, CINAHL, ICL, PEDro and Cochrane Library. The following search terms and their derivatives were adapted for each platform: spinal manipulation; chiropractic; osteopathy; physiotherapy; naprapathy; medical manipulation and clinical trial.

Methods

Domains of interest (pertaining to adverse events) included: completeness and location of reporting; nomenclature and description; spinal location and practitioner delivering manipulation; methodological quality of the studies and details of the publishing journal. Frequencies and proportions of studies reporting on each of these domains were calculated. Univariable and multivariable logistic regression models were fitted to examine the effect of potential predictors on the likelihood of studies reporting on adverse events.

Results

There were 5399 records identified by the electronic searches, of which 154 (2.9%) were included in the analysis. Of these, 94 (61.0%) reported on adverse events with only 23.4% providing an explicit description of what constituted an adverse event. Reporting of adverse events in the abstract has increased (n=29, 30.9%) while reporting in the results section has decreased (n=83, 88.3%) over the past 6 years. Spinal manipulation was delivered to 7518 participants in the included studies. No serious adverse events were reported in any of these studies.

Conclusions

While the current level of reporting of adverse events associated with spinal manipulation in RCTs has increased since our 2016 publication on the same topic, the level remains low and inconsistent with established standards. As such, it is imperative for authors, journal editors and administrators of clinical trial registries to ensure there is more balanced reporting of both benefits and harms in RCTs involving spinal manipulation.
Area-based comparison of risk factors and testing rates to improve sexual health care access: cross-sectional population-based study in a Dutch multicultural area
Authors: Twisk Denise E. , Meima Abraham , Richardus Jan Hendrik , Götz Hannelore M.
Published: May 2023

Objectives

Areas with high sexually transmitted infection (STI) testing rates may not require additional strategies to improve testing. However, it may be necessary to intervene in areas with elevated STI risk, but with low STI testing rates. We aimed to compare STI-related risk profiles and STI testing rates by geographical area to determine areas for improvement of sexual healthcare access.

Design

Cross-sectional population-based study.

Setting

Greater Rotterdam area, the Netherlands (2015–2019).

Participants

All residents aged 15–45 years. Individual population-based register data were matched with laboratory-based STI testing data of general practitioners (GPs) and the only sexual health centre (SHC).

Outcome measures

Postal code (PC) area-specific STI risk scores (based on age, migratory background, education level and urbanisation), STI testing rates and STI positivity.

Results

The study area consists of approximately 500 000 residents aged 15–45 years. Strong spatial variation in STI testing, STI positivity and STI risk was observed. PC area testing rate ranged from 5.2 to 114.9 tests per 1000 residents. Three PC clusters were identified based on STI risk and testing rate: (1) high–high; (2) high–low; (3) low, independently of testing rate. Clusters 1 and 2 had comparable STI-related risk and STI positivity, but the testing rate differed greatly (75.8 vs 33.2 per 1000 residents). Multivariable logistic regression analysis with generalised estimating equation was used to compare residents in cluster 1 and cluster 2. Compared with cluster 1, residents in cluster 2 more often did not have a migratory background, lived in less urbanised areas with higher median household income, and more distant from both GP and SHC.

Conclusion

The determinants associated with individuals living in areas with high STI-related risk scores and low testing rates provide leads for improvement of sexual healthcare access. Opportunities for further exploration include GP education, community-based testing and service (re)allocation.
Authority and medical expertise: Arthur Conan Doyle inThe Idler
Authors: Chapman Anne
Published: May 2023

Arthur Conan Doyle’s medical and writing careers intertwined and his work has a history of being read in the light of his medical expertise. He wrote at a time when the professionalisation and specialisation of medicine had resulted in an increasing distance between the profession and the public, yet general practitioners relied financially on maintaining good relationships with their patients and popular medical journalism proliferated. A variety of contrasting voices often disseminated narratives of medical science. These conflicting developments raised questions of authority and expertise in relation to the construction of medicine in the popular imagination: how is knowledge constructed? Who should disseminate it? How and by whom is authority conferred? How can the general population judge experts in medical science? These are questions explored more widely in Conan Doyle’s writing as he examines the relationship between expertise and authority. In the early 1890s, Conan Doyle wrote for the popular, mass-market periodicalThe Idler: An Illustrated Magazine. His contributions to it address these questions of authority and expertise for a lay audience. First establishing the medical context of doctor/patient relationships in which these questions arose, this article undertakes a close reading of these mostly rarely studied single-issue stories and articles as a means of ascertaining how Conan Doyle and his illustrators identified the relationship between competing narratives, expertise and authority. It argues that rather than maintaining a distance between public and professional, Conan Doyle’s illustrated work demonstrates to his readers that there are ways to successfully navigate the appearance of authority and recognise expertise as they confront entangled representations of advances in medical science.
The fundamental 1/f noise in monolayer graphene
Authors: Kazakov Kirill A.
Published: May 2023

A lower bound on the voltage noise power spectrum set by quantum indeterminacy exists in any conducting material. This bound is calculated explicitly for monolayer graphene taking into account graphene pseudospin/valley band structure. It is found to be of the form characteristic of the observed [Formula: see text] noise. It is shown that the deviation of [Formula: see text] from unity is a result of the piezoelectric interaction of charge carriers with acoustic phonons. A comparison with the measured [Formula: see text] noise in graphene and graphene-based heterostructures shows that the observed noise intensity is near the quantum bound. It is demonstrated that the recently observed sharp peak in [Formula: see text] at small gate voltages in the field-effect transistors based on graphene/boron nitride heterostructure is well reproduced by the theory, and is to be attributed to the out-of-plane piezoelectric activity in this heterostructure. A simple kinetic model is proposed to describe the effect of the charge carrier trapping on [Formula: see text].
Ethylbenzene oxidation by a hybrid catalysis system of reconstituted myoglobin and silica-protected PdAu nanoparticles under a hydrogen-oxygen mixed atmosphere
Authors: Oohora Koji , Kagawa Yoshiyuki , Kuwahara Yasutaka , Yamashita Hiromi , Hayashi Takashi
Published: May 2023

C–H bond oxidation using molecular oxygen as a terminal oxidant is an important reaction in molecular conversions. This reaction is achieved by several enzymes such as cytochrome P450s in biological systems, whereas artificial catalytic systems for this reaction are limited. In this work, the oxidation of ethylbenzene was promoted by a hybrid catalysis system consisting of myoglobin reconstituted with manganese porphycene as an artificial peroxygenase in combination with PdAu nanoparticles encapsulated in hollow mesoporous silica spheres as a solid catalyst to produce hydrogen peroxide, respectively. Neither catalyst alone provides hydroxylated products. Favorable conditions for hydrogen peroxide generation and subsequent C–H bond hydroxylation are different from each other and require optimization of pH and salt concentration. The optimized conditions are found to be 0.5 atm of H2 and 0.5 atm of O2 at pH 8.5 in the presence of 10 mM NaCl. The total optimized turnover number of the hybrid catalysis system for ethyl benzene hydroxylation is 3.6, which is consistent with 97% of the turnover number value of the same reaction catalyzed by reconstituted myoglobin using 0.5 mM hydrogen peroxide under the hydrogen-oxygen mixed atmosphere. This finding indicates that the hybrid catalyst system operates without any negative effects for both catalytic reactions.
Protein-conjugated iron complexes for catalyzing asymmetric carbene insertions into S-H and Si-H bonds
Authors: Saltsman Irena , Gross Zeev
Published: May 2023

Demonstrated herein are two conceptually different approaches for enantioselective activation of S-H and Si-H bonds, by using protein-conjugated iron complexes for catalyzing the reactions of carbenoids with either racemic thiol or non-chiral silane to form enantiomerically enriched products. Catalysts examined were native myoglobin and transferrin and the spontaneously formed conjugates of serum albumins with properly designed iron(III) corroles. Reactions proceed very fast in all cases and lead to products with significant enantiomeric enrichment for some of them. This extremely simple bio-catalytic approach is very useful for creating new S-C and Si-C bonds in aqueous media and may serve as the starting point for the directed evolution of artificial enzymes for such purposes.
EFFECT OF KNOWLEDGE ABSORPTIVE CAPACITY ON INNOVATION ORIENTATION IN BUSINESS SERVICES
Authors: BORODAKO KRZYSZTOF , BERBEKA JADWIGA , RUDNICKI MICHAL , LAPCZYŃSKI MARIUSZ
Published: May 2023

The purpose of this paper is to examine the impact of knowledge absorptive capacity (KAC) on innovation orientation in business services. An empirical analysis was conducted on two samples (scientific experts and—in the next step, business service companies). The authors applied one-way ANOVA, HSD Tukey’s post hoc tests, and structural equation modelling. Approached from a knowledge-based view, this research has found that the impact of KAC on all six innovation orientation dimensions is significant and positive. This empirical evidence also supports the thesis that KAC impacts the business performance of firms. Managers should raise a company’s competitive advantage by introducing an innovation orientation, which requires a high level of KAC. This study advances the literature on KAC and innovation orientation by confirming the significant impact of KAC on business performance and a firm’s innovation orientation.
A Paradigm Shift in Experimental Biochemistry: A Priori Estimation of Physical Parameters of Biomolecules
Authors: Kulikov K. G. , Koshlan T. V. , Golovitsky A. P.
Published: May 2023

This paper proposes a new paradigm for the biophysical concept of measuring the affinity of molecular complexes, based on a matrix representation of biological interactions and subsequent numerical analysis of the stability of this matrix. Our numerical criterion of stability (lg(cond([Formula: see text]))) correlates well with experimental values such as [Formula: see text] and IC[Formula: see text] as well as with experimental data of aggregation kinetics in studies of amyloid peptides. The main goal of this work is to reduce the cost of biochemical experiments by obtaining preliminary information on the interaction of chemical compounds. The paper also presents our numerical calculations in comparison with a large amount of experimental data on the examples of binding of small chemical molecules gefitinib, erlotinib, imatinib, naquatinib, and CO-1686 with proteins, protein–peptide interactions of the Bcl-2 protein family, antibody–antigen CD20–rituximab, and aggregation of amyloid peptides. The description of the software package that implements the presented algorithm is given on the website: https://binomlabs.com/ .
Injective edge coloring of some standard graph products
Authors: Priyamvada  , Panda B. S.
Published: May 2023

An injective [Formula: see text]-edge-coloring of a graph [Formula: see text] is an assignment [Formula: see text] of colors to the edges of [Formula: see text] such that any two edges [Formula: see text] and [Formula: see text] receive distinct colors if there exists an edge [Formula: see text] different from [Formula: see text] and [Formula: see text] such that [Formula: see text] is incident on [Formula: see text] and [Formula: see text] is incident on [Formula: see text]. The least number of colors required by any injective edge coloring of [Formula: see text] is called the injective chromatic index of [Formula: see text] and is denoted by [Formula: see text]. In this paper, we give tight upper bounds of the injective chromatic index of various standard graph products and operations, including the Cartesian product, lexicographic product, corona product, edge corona product, join, subdivision and Mycielskian of a graph.
THE IMPACTS OF GLOBAL ECONOMIC SANCTIONS ON CORRUPTION: A GLOBAL ANALYSIS
Authors: TRAN HOA MAI THI , NGUYEN MY HA , LE HA THANH
Published: May 2023

This paper investigates the influences of global economic sanctions on corruption by using the structural gravity model for 148 sanctioned countries (108 developing countries and 40 developed countries) during the 1995–2018 period. We consider various forms of sanction, including arms, military, trade, finance, travel, and others. The results reveal that the imposition of sanctions, especially arm, financial, travel, and other sanctions have a significantly negative effect on the prevalence of corruption of target countries. The effects are also largely heterogeneous across sanctioned countries in terms of their economic development. Furthermore, the properties of the institutional quality of the sanctioned state critically affect the relationship between global sanctions and national corruption. Particularly, the well-developed institutional quality helps target countries address the consequences of global sanctions on national corruption. The empirical findings of this study are expected to provide vital insightful lessons for economists and policymakers in the target countries in combating the corruption pervasiveness.
Beyond the Repository
Authors: Casari Amanda , Ferraioli Julia , Lovato Juniper
Published: May 2023

Much of the existing research about open source elects to study software repositories instead of ecosystems. An open source repository most often refers to the artifacts recorded in a version control system and occasionally includes interactions around the repository itself. An open source ecosystem refers to a collection of repositories, the community, their interactions, incentives, behavioral norms, and culture. The decentralized nature of open source makes holistic analysis of the ecosystem an arduous task, with communities and identities intersecting in organic and evolving ways. Despite these complexities, the increased scrutiny on software security and supply chains makes it of the utmost importance to take an ecosystem-based approach when performing research about open source. This article provides guidelines and best practices for research using data collected from open source ecosystems, encouraging research teams to work with communities in respectful ways.
Confessions of a converted anatomist: teaching without anatomical donors
Authors: Rompolski Krista
Published: May 2023

This article provides an overview of how to design an anatomy course without anatomical donors for doctor of physical therapy students and includes recommendations for instructors who need to reduce or eliminate anatomical donors from their anatomy curriculum.
Computer-based inquiry to enhance science process skills in undergraduate students using physiological data
Authors: Leyva-Figueroa Eugenio , Orozco-Valdivia Magdiel , Gonzalez-Fraga Jose , Bardullas Ulises
Published: May 2023

ZebraSTMe is a novel computer-based educational module that utilizes spontaneous tail coiling analysis in zebrafish embryos to enhance undergraduate students’ scientific inquiry skills. By addressing the challenges of time, cost, and laboratory resources, the module improves students’ science process skills and promotes reflection on their professional strengths and weaknesses. The innovative ZebraSTMe exemplifies the potential of integrating cutting-edge research topics into undergraduate education, leading to more engaging and effective learning experiences in physiology and other scientific disciplines.
Assessment of Selected Heavy Metals Concentration Level of Drinking Water in Gazer Town and Selected Kebele, South Ari District, Southern Ethiopia
Authors: Bafe Dilebo Woldesenbet , Desta Anchiso Misganew , Tereke kidane Tsirsit , Eskezia Ayalew Meselu
Published: May 2023

Drinking water quality is fundamental to human physiology and health. The aim of this study was to assess the quality of drinking water in Gazer Town and selected kebele, in south Ari district, South Omo zone, Southern Ethiopia. A total of four drinking water samples were collected from densely populated urban areas of the Gazer Town and one rural Kebele. All the collected samples were analyzed for eight heavy metals, (Cd, Co, Cu, Cr, Fe, Mn, Pb, and Zn) using standard procedures. The results were compared with other national and international standards. Among the analyzed samples, drinking water samples collected from selected kebele (Aynalem kebele), show mean concentrations heavy metals in (μg/L), (Mn (973 ± 10), Cu (1068 ± 1.5), Cr (2785 ± 25), Fe (4302 ± 15), Cd (1218 ± 18), Pb (720 ± 12), Co (1478 ± 3), and Zn (1790 ± 5)), and the results revel except, Co and Zn metals, all show concentrations higher than the national and international standards (such as USEPA (2008), WHO (2011), and New Zealand) recommended values. Among the eight heavy metals analyzed from drinking waters in Gazer Town, Cd and Cr were below the method detection than that of all sampling area. However, the concentration of Mn, Pb, Co, Cu, Fe, and Zn were ranged from mean values of 9 μg/L, 17.6 μg/L, 7.6 μg/L, 12 μg/L, 765 μg/L, and 494 μg/L, respectively. Except Pb metals, the analyzed metals in waters were below the currently recommended guidelines for drinking. Therefore, the government should adopt some treatment technologies such as sedimentation and aeration to minimize the concentration of zinc for safe drinking the water to the community of Gazer Town.
An Efficient and Robust Numerical Solver for Impulsive Control of Fractional Chaotic Systems
Authors: Moniri Zahra , Moghaddam Behrouz Parsa , Roudbaraki Morteza Zamani
Published: May 2023

This paper derives a computationally efficient and fast-running solver for the approximate solution of fractional differential equations with impulsive effects. In this connection, for approximating the fractional-order integral operator, a B-spline version of interpolation by corresponding equal mesh points is adopted. An illustrative example illustrates the accuracy of the new solver results as compared with those of the previous study. The proposed solver’s performance is evaluated by the fractional Rössler and susceptible-exposed-infectious impulsive systems. Moreover, the effect of impulsive behaviors is shown for various values of impulsive.
Designing Tasks through Second Life for CFL Learners in the UK University
Authors: Li Jiantao , Kou Qingjia
Published: May 2023

The development of technology has brought some alternative means in education. The enabling role of technology has been widely recognized in second language teaching and learning. Second Life (SL) is an online virtual world and is popular with digital natives. Some language educators apply this application to foreign-language teaching in university courses because of its benefits to students’ immersion and focus, imagination, and creativity in language learning. Language learners can immerse themselves in the target language environment to imitate real-world tasks, which promotes the provision of reality-oriented tasks and optimizes task-based language teaching tenets such as learning by doing, authenticity, negotiation of meaning, and exposure to abundant and authentic input. Based on the definition of tasks, the role of SL in foreign-language teaching, and previous pedagogic models and studies on designing tasks with SL, this study proposed two types of SL tasks for Chinese as a foreign-language learner in university settings, along with the rationale behind them. Additionally, challenges in designing tasks in SL were identified. Overall, this study offered valuable insights and guidance for the application of SL in teaching Chinese to speakers of other languages in UK universities.
The Microflora Structure in the Digestive Tract, Culture Water, and Feed of Hybrid Grouper (Epinephelus fuscoguttatus♀ × E. polyphekadion♂) Cultured in an Outdoor Pond Based on a High-Throughput Sequencing Technique
Authors: Yang Er-Jun , Amenyogbe Eric , Li Rong-Xin , Zhang Jian-Dong , Xie Rui-Tao , Wang Zhong-Liang , Chen Gang , Huang Jian-Sheng
Published: May 2023

Nutrition, disease, and general wellbeing can be affected by the microbial communities associated with the digestive tracts of aquaculture species. Different sections of aquaculture species’ digestive tracts have distinctive surfaces and structures, which can change microbial communities. The present study examined the composition and distribution of bacterial species in the intestine of hybrid grouper (Epinephelus fuscoguttatus E. polyphekadion) and its aquaculture environment. Using high-throughput pyrosequencing, a 16S rRNA sequence analysis was performed on hybrid grouper foregut, midgut, and hindgut, as well as cultured water and feed. There were 610,452 sequences obtained from five components (foregut, midgut, hindgut, water, and feed). Among operational taxa (OTUs), 506 of them were detected in the foregut, 605 in the midgut, 510 in the hindgut, and 573 in aquaculture water and feed samples. A total of 113 were detected in 5 samples. A species annotation revealed that hybrid grouper intestinal tracts were dominated by Proteobacteria (67.3%–73.7%), Firmicutes (8.4%–14.0%), and Actinobacteria (6.9%–10.5%). In aquaculture culture water, Proteobacteria were predominant (36.3%), Actinobacteria (30.0%), and Planctomycetes (14.0%). Acinetobacter (1.4%–17.9%) and Photobacterium (32.0%–57.5%) dominated the intestine. Photobacterium (3.6%) and Mycobacterium (7.1%) dominated the water bacteria. The water and intestine contained five potentially pathogenic bacteria: Pseudomonas, Flavobacterium, Escherichia coli, Aeromonas bacteria, and Vibrio. The highest proportion of Vibrio was found in the water (1.7%), while Pseudomonas dominated the midgut (2.6%). Six potential probiotics were detected in the aquaculture water and intestine (Lactococcus, Streptococcus, Bdellovibrio, Lactobacillus, Bacillus, and Bacteroides). Aquaculture water and intestines contained Bacillus, Bacteroides, and Lactobacillus. According to the findings, the intestinal flora of hybrid grouper is closely correlated with its pond culture environment. Results from the study provide an experimental basis for the controlled breeding of hybrid groupers and the regulation of their microecological processes in the breeding environment deepen our understanding of the intestinal bacterial population of healthy hybrid groupers.
CellMinerCDB: NCATS Is a Web-Based Portal Integrating Public Cancer Cell Line Databases for Pharmacogenomic Explorations
Authors: Reinhold William C. , Wilson Kelli , Elloumi Fathi , Bradwell Katie R. , Ceribelli Michele , Varma Sudhir , Wang Yanghsin , Duveau Damien , Menon Nikhil , Trepel Jane , Zhang Xiaohu , Klumpp-Thomas Carleen , Micheal Samuel , Shinn Paul , Luna Augustin , Thomas Craig , Pommier Yves
Published: May 2023

Major advances have been made in the field of precision medicine for treating cancer. However, many open questions remain that need to be answered to realize the goal of matching every patient with cancer to the most efficacious therapy. To facilitate these efforts, we have developed CellMinerCDB: National Center for Advancing Translational Sciences (NCATS; https://discover.nci.nih.gov/rsconnect/cellminercdb_ncats/), which makes available activity information for 2,675 drugs and compounds, including multiple nononcology drugs and 1,866 drugs and compounds unique to the NCATS. CellMinerCDB: NCATS comprises 183 cancer cell lines, with 72 unique to NCATS, including some from previously understudied tissues of origin. Multiple forms of data from different institutes are integrated, including single and combination drug activity, DNA copy number, methylation and mutation, transcriptome, protein levels, histone acetylation and methylation, metabolites, CRISPR, and miscellaneous signatures. Curation of cell lines and drug names enables cross-database (CDB) analyses. Comparison of the datasets is made possible by the overlap between cell lines and drugs across databases. Multiple univariate and multivariate analysis tools are built-in, including linear regression and LASSO. Examples have been presented here for the clinical topoisomerase I (TOP1) inhibitors topotecan and irinotecan/SN-38. This web application provides both substantial new data and significant pharmacogenomic integration, allowing exploration of interrelationships.

Significance:

CellMinerCDB: NCATS provides activity information for 2,675 drugs in 183 cancer cell lines and analysis tools to facilitate pharmacogenomic research and to identify determinants of response.
TIGIT Expression Delineates T-cell Populations with Distinct Functional and Prognostic Impact in Pancreatic Cancer
Authors: Heiduk Max , Klimova Anna , Reiche Charlotte , Digomann David , Beer Carolin , Aust Daniela E. , Distler Marius , Weitz Jürgen , Seifert Adrian M. , Seifert Lena
Published: May 2023

Purpose:

Immunotherapy has led to a fundamental shift in the treatment of several cancers. However, its efficacy in pancreatic ductal adenocarcinoma (PDAC) is limited. Understanding the expression of inhibitory immune checkpoint receptors (ICR) by intratumoral T cells may help to unravel their involvement in insufficient T-cell–mediated antitumor immunity.

Experimental Design:

Using multicolor flow cytometry, we analyzed circulating and intratumoral T cells from blood (n = 144) and matched tumor samples (n = 107) of patients with PDAC. We determined the expression of programmed cell death protein 1 (PD-1) and T-cell immunoreceptor with Ig and immunoreceptor tyrosine-based inhibition motif (ITIM) domains (TIGIT) by CD8+ T-cells, conventional CD4+ T-cells (Tconv) and regulatory T cells (Treg) and their association with T-cell differentiation, tumor reactivity, and cytokine expression. A comprehensive follow-up was used to determine their prognostic value.

Results:

Intratumoral T cells were characterized by increased PD-1 and TIGIT expression. Both markers delineated distinct T-cell subpopulations. PD-1+TIGIT− T cells highly expressed proinflammatory cytokines and markers of tumor reactivity (CD39, CD103), whereas TIGIT expression was linked to antiinflammatory and exhausted phenotypes. In addition, the enhanced presence of intratumoral PD-1+TIGIT− Tconv was associated with improved clinical outcomes, while high ICR expression on blood T cells was a significant hazard for overall survival (OS).

Conclusions:

Our results uncover the association between ICR expression and T-cell functionality. PD-1 and TIGIT characterized intratumoral T cells with highly divergent phenotypes linked to clinical outcomes, further underscoring the relevance of TIGIT for immunotherapeutic approaches in PDAC. The prognostic value of ICR expression in patient blood may be a valuable tool for patient stratification.
Table 3 from Targeting Senescence as a Therapeutic Opportunity for Triple-Negative Breast Cancer
Authors: de Paula Bruno , Kieran Rosalind , Koh Samantha Shui Yuan , Crocamo Susanne , Abdelhay Eliana , Muñoz-Espín Daniel
Published: May 2023

Examples of senolytics clinical performance in solid tumors and breast cancer.
Figure S6 from Loss of LGR5 through Therapy-induced Downregulation or Gene Ablation Is Associated with Resistance and Enhanced MET-STAT3 Signaling in Colorectal Cancer Cells
Authors: Posey Tressie A. , Jacob Joan , Parkhurst Ashlyn , Subramanian Shraddha , Francisco Liezl E. , Liang Zhengdong , Carmon Kendra S.
Published: May 2023

shows effects of combination treatment on antitumor efficacy and survival in LoVo LGR5 KD xenografts and body weights of xenografts during treatment
Figure S5 from Loss of LGR5 through Therapy-induced Downregulation or Gene Ablation Is Associated with Resistance and Enhanced MET-STAT3 Signaling in Colorectal Cancer Cells
Authors: Posey Tressie A. , Jacob Joan , Parkhurst Ashlyn , Subramanian Shraddha , Francisco Liezl E. , Liang Zhengdong , Carmon Kendra S.
Published: May 2023

shows LGR5 expression and cytotoxicity of irinotecan, stattic, and anti-LGR5 ADCs in PDO model
Figure S3 from Loss of LGR5 through Therapy-induced Downregulation or Gene Ablation Is Associated with Resistance and Enhanced MET-STAT3 Signaling in Colorectal Cancer Cells
Authors: Posey Tressie A. , Jacob Joan , Parkhurst Ashlyn , Subramanian Shraddha , Francisco Liezl E. , Liang Zhengdong , Carmon Kendra S.
Published: May 2023

shows cytotoxicity of inhibitors of MET, STAT3, and Wnt in CTL and LGR5 KD/KO CRC cells
Figure S1 from Loss of LGR5 through Therapy-induced Downregulation or Gene Ablation Is Associated with Resistance and Enhanced MET-STAT3 Signaling in Colorectal Cancer Cells
Authors: Posey Tressie A. , Jacob Joan , Parkhurst Ashlyn , Subramanian Shraddha , Francisco Liezl E. , Liang Zhengdong , Carmon Kendra S.
Published: May 2023

shows effects of chemotherapies and ADC on LGR5 protein and mRNA expression and LGR5 knockdown effects on clonogenicity, signaling pathways, and expression of STAT3 target genes.
Supplementary Figure 5 from Novel Arginase Inhibitor, AZD0011, Demonstrates Immune Cell Stimulation and Antitumor Efficacy with Diverse Combination Partners
Authors: Doshi Aatman S. , Cantin Susan , Hernandez Marylens , Srinivasan Srimathi , Tentarelli Sharon , Griffin Matthew , Wang Yanjun , Pop-Damkov Petar , Prickett Laura B. , Kankkonen Cecilia , Shen Minhui , Martin Maryann San , Wu Song , Castaldi M. Paola , Ghadially Hormas , Varnes Jeffrey , Gales Sonya , Henry David , Hoover Clare , Mele Deanna A. , Simpson Iain , Gangl Eric T. , Mlynarski Scott N. , Finlay M. Raymond V. , Drew Lisa , Fawell Stephen E. , Shao Wenlin , Schuller Alwin G.
Published: May 2023

Supplementary Figure 5
Supplementary Figure 4 from Novel Arginase Inhibitor, AZD0011, Demonstrates Immune Cell Stimulation and Antitumor Efficacy with Diverse Combination Partners
Authors: Doshi Aatman S. , Cantin Susan , Hernandez Marylens , Srinivasan Srimathi , Tentarelli Sharon , Griffin Matthew , Wang Yanjun , Pop-Damkov Petar , Prickett Laura B. , Kankkonen Cecilia , Shen Minhui , Martin Maryann San , Wu Song , Castaldi M. Paola , Ghadially Hormas , Varnes Jeffrey , Gales Sonya , Henry David , Hoover Clare , Mele Deanna A. , Simpson Iain , Gangl Eric T. , Mlynarski Scott N. , Finlay M. Raymond V. , Drew Lisa , Fawell Stephen E. , Shao Wenlin , Schuller Alwin G.
Published: May 2023

Supplementary Figure 4
Supplementary Figure 3 from Novel Arginase Inhibitor, AZD0011, Demonstrates Immune Cell Stimulation and Antitumor Efficacy with Diverse Combination Partners
Authors: Doshi Aatman S. , Cantin Susan , Hernandez Marylens , Srinivasan Srimathi , Tentarelli Sharon , Griffin Matthew , Wang Yanjun , Pop-Damkov Petar , Prickett Laura B. , Kankkonen Cecilia , Shen Minhui , Martin Maryann San , Wu Song , Castaldi M. Paola , Ghadially Hormas , Varnes Jeffrey , Gales Sonya , Henry David , Hoover Clare , Mele Deanna A. , Simpson Iain , Gangl Eric T. , Mlynarski Scott N. , Finlay M. Raymond V. , Drew Lisa , Fawell Stephen E. , Shao Wenlin , Schuller Alwin G.
Published: May 2023

Supplementary Figure 3
Supplementary Figure 2 from Novel Arginase Inhibitor, AZD0011, Demonstrates Immune Cell Stimulation and Antitumor Efficacy with Diverse Combination Partners
Authors: Doshi Aatman S. , Cantin Susan , Hernandez Marylens , Srinivasan Srimathi , Tentarelli Sharon , Griffin Matthew , Wang Yanjun , Pop-Damkov Petar , Prickett Laura B. , Kankkonen Cecilia , Shen Minhui , Martin Maryann San , Wu Song , Castaldi M. Paola , Ghadially Hormas , Varnes Jeffrey , Gales Sonya , Henry David , Hoover Clare , Mele Deanna A. , Simpson Iain , Gangl Eric T. , Mlynarski Scott N. , Finlay M. Raymond V. , Drew Lisa , Fawell Stephen E. , Shao Wenlin , Schuller Alwin G.
Published: May 2023

Supplementary Figure 2
Table S3 from Small-Molecule–Mediated Stabilization of PP2A Modulates the Homologous Recombination Pathway and Potentiates DNA Damage-Induced Cell Death
Authors: Avelar Rita A. , Armstrong Amy J. , Carvette Gracie , Gupta Riya , Puleo Noah , Colina Jose A. , Joseph Peronne , Sobeck Alexander M. , O'Connor Caitlin M. , Raines Brynne , Gandhi Agharnan , Dziubinski Michele L. , Ma Daniel S. , Resnick Kimberly , Singh Sareena , Zanotti Kristine , Nagel Christa , Waggoner Steven , Thomas Daffyd G. , Skala Stephanie L. , Zhang Junran , Narla Goutham , DiFeo Analisa
Published: May 2023

Table S3
Table S2 from Small-Molecule–Mediated Stabilization of PP2A Modulates the Homologous Recombination Pathway and Potentiates DNA Damage-Induced Cell Death
Authors: Avelar Rita A. , Armstrong Amy J. , Carvette Gracie , Gupta Riya , Puleo Noah , Colina Jose A. , Joseph Peronne , Sobeck Alexander M. , O'Connor Caitlin M. , Raines Brynne , Gandhi Agharnan , Dziubinski Michele L. , Ma Daniel S. , Resnick Kimberly , Singh Sareena , Zanotti Kristine , Nagel Christa , Waggoner Steven , Thomas Daffyd G. , Skala Stephanie L. , Zhang Junran , Narla Goutham , DiFeo Analisa
Published: May 2023

Table S2
Table S1 from Small-Molecule–Mediated Stabilization of PP2A Modulates the Homologous Recombination Pathway and Potentiates DNA Damage-Induced Cell Death
Authors: Avelar Rita A. , Armstrong Amy J. , Carvette Gracie , Gupta Riya , Puleo Noah , Colina Jose A. , Joseph Peronne , Sobeck Alexander M. , O'Connor Caitlin M. , Raines Brynne , Gandhi Agharnan , Dziubinski Michele L. , Ma Daniel S. , Resnick Kimberly , Singh Sareena , Zanotti Kristine , Nagel Christa , Waggoner Steven , Thomas Daffyd G. , Skala Stephanie L. , Zhang Junran , Narla Goutham , DiFeo Analisa
Published: May 2023

Table S1
Fig. S7 from Small-Molecule–Mediated Stabilization of PP2A Modulates the Homologous Recombination Pathway and Potentiates DNA Damage-Induced Cell Death
Authors: Avelar Rita A. , Armstrong Amy J. , Carvette Gracie , Gupta Riya , Puleo Noah , Colina Jose A. , Joseph Peronne , Sobeck Alexander M. , O'Connor Caitlin M. , Raines Brynne , Gandhi Agharnan , Dziubinski Michele L. , Ma Daniel S. , Resnick Kimberly , Singh Sareena , Zanotti Kristine , Nagel Christa , Waggoner Steven , Thomas Daffyd G. , Skala Stephanie L. , Zhang Junran , Narla Goutham , DiFeo Analisa
Published: May 2023

Fig. S7