bluuebunny/crossref_metadata_2025_split huggingface dataset:
Assessment of human activities and its effects on forest management: a survey of charcoal producers in the Sekyere Central District of Ghana
Authors: Lambon John Bokaligidi , Honger Joseph Okani , Anambam David Yakubu 
Published: April 2023

Abstract
A survey to assess the effects and sustainability of charcoal production on the local vegetation cover was conducted in the Sekyere Central District of Ashanti region from December 2017 to April 2018. The study involved the use of structured questionnaires, focus group discussions (FGDs), key informants, secondary data and field observation by reconnaissance survey. The socio-economic survey was to identify who in the district is undertaking charcoal production as an economic venture, how widespread the activity is, and the preferred tree species being harvested to produce charcoal. In the field survey, the vegetation types in the study area were identified in a reconnaissance survey as secondary forests with increasing grassland. The relative abundance of tree species which could be used for charcoal production was also identified and quantified. A 640-meter square plot was delimited and divided into 64 square plots within each of which five-meter quadrats were marked at random and presence or absence was recorded for the individual tree species. The results of the study indicated that charcoal production is widely carried out throughout the district especially in the Afram Plains portion. It is practiced by the Akan and the Sissala ethnic groups who have very little education. Female producers (8%) were less than their male counterparts. Majority (73%) of the producers was 31 and above years whiles those of 30 years and below was 27%. The study revealed that most tree species are becoming rare and are only common in the protected area (Kogyae strict natures reserve) in the district.
Exploring Relevant Time Windows in the Association Between PM2.5 Exposure and Amyotrophic Lateral Sclerosis: A Case-Control Study in Denmark
Authors: Nunez Yanelli , Balalian Arin , Parks Robbie M , He Mike Z , Hansen Johnni , Raaschou-Nielsen Ole , Ketzel Matthias , Khan Jibran , Brandt Jørge , Vermeulen Roel , Peters Susan , Weisskopf Marc G , Re Diane B , Goldsmith Jeff , Kioumourtzoglou Marianthi-Anna 
Published: April 2023

Abstract
Studies suggest a link between particulate matter less than or equal to 2.5 μm in diameter (PM2.5) and amyotrophic lateral sclerosis (ALS), but to our knowledge critical exposure windows have not been examined. We performed a case-control study in the Danish population spanning the years 1989–2013. Cases were selected from the Danish National Patient Registry based on International Classification of Diseases codes. Five controls were randomly selected from the Danish Civil Registry and matched to a case on vital status, age, and sex. PM2.5 concentration at residential addresses was assigned using monthly predictions from a dispersion model. We used conditional logistic regression to estimate odds ratios (ORs) and 95% confidence intervals (CIs), adjusting for confounding. We evaluated exposure to averaged PM2.5 concentrations 12–24 months, 2–6 years, and 2–11 years pre–ALS diagnosis; annual lagged exposures up to 11 years prediagnosis; and cumulative associations for exposure in lags 1–5 years and 1–10 years prediagnosis, allowing for varying association estimates by year. We identified 3,983 cases and 19,915 controls. Cumulative exposure to PM2.5 in the period 2–6 years prediagnosis was associated with ALS (OR = 1.06, 95% CI: 0.99, 1.13). Exposures in the second, third, and fourth years prediagnosis were individually associated with higher odds of ALS (e.g., for lag 1, OR = 1.04, 95% CI: 1.00, 1.08). Exposure to PM2.5 within 6 years before diagnosis may represent a critical exposure window for ALS.
National trends in prescription drug expenditures and projections for 2023
Authors: Tichy Eric M , Hoffman James M , Tadrous Mina , Rim Matthew H , Suda Katie J , Cuellar Sandra , Clark John S , Newell Mary Kate , Schumock Glen T 
Published: April 2023

Abstract

Purpose
To report historical patterns of pharmaceutical expenditures, to identify factors that may influence future spending, and to predict growth in drug spending in 2023 in the United States, with a focus on the nonfederal hospital and clinic sectors.

Methods
Historical patterns were assessed by examining data on drug purchases from manufacturers using the IQVIA National Sales Perspectives database. Factors that may influence drug spending in hospitals and clinics in 2023 were reviewed, including new drug approvals, patent expirations, and potential new policies or legislation. Focused analyses were conducted for biosimilars, cancer drugs, diabetes medications, generics, COVID-19 pandemic influence, and specialty drugs. For nonfederal hospitals, clinics, and overall (all sectors), estimates of growth of pharmaceutical expenditures in 2023 were based on a combination of quantitative analyses and expert opinion.

Results
In 2022, overall pharmaceutical expenditures in the US grew 9.4% compared to 2021, for a total of $633.5 billion. Utilization (a 5.9% increase), price (a 1.7% increase) and new drugs (a 1.8% increase) drove this increase. Adalimumab was the top-selling drug in 2022, followed by semaglutide and apixaban. Drug expenditures were $37.2 billion (a 5.9% decrease) and $116.9 billion (a 10.4% increase) in nonfederal hospitals and clinics, respectively. In clinics, new products and increased utilization growth drove growth, with a small impact from price changes. In nonfederal hospitals, a drop in utilization led to a decrease in expenditures, with price changes and new drugs contributing to growth in spending. Several new drugs that will influence spending have been or are expected to be approved in 2023. Specialty and cancer drugs will continue to drive expenditures along with the evolution of the COVID-19 pandemic.

Conclusion
For 2023, we expect overall prescription drug spending to rise by 6.0% to 8.0%, whereas in clinics and hospitals we anticipate increases of 8.0% to 10.0% and 1.0% to 3.0%, respectively, compared to 2022. These national estimates of future pharmaceutical expenditure growth may not be representative of any particular health system because of the myriad of local factors that influence actual spending.
The role and mechanism of tumor necrosis factor-alpha in alcohol-induced bone loss
Authors: Wang Xiuwen , Lu Lingyun , Chen Xiang , Liang Yan , Xie Ying , Yu Xijie 
Published: April 2023

Abstract
Aim: It is well known that alcohol can cause bone loss and that bone mineral density has an inverse relationship with bone marrow adipocyte (BMA). However, little is known about the mechanisms that link alcohol and bone loss, and existing studies lack data on BMA in alcohol-induced bone loss. Here, wild-type (WT) and tumor necrosis factor-alpha knockout (TNF-α KO) mice were used to examine the effects of alcohol on bone metabolism. Methods: The effects of alcohol on bone metabolism were demonstrated in vivo by feeding WT and TNF-α KO mice with alcohol. The osteogenesis and adipogenesis of primary bone marrow stromal cells (BMSCs) derived from WT and TNF-α KO mice under alcohol intervention were compared in vitro. Tissue staining, cell staining, micro-CT, and quantitative RT-PCR were used to explore the potential mechanism. Results: Alcohol induced trabecular bone loss, increased BMA, and promoted the mRNA expression of Adipoq, Fabp4, visfatin， Pparg, TNF-α, IL-1β, and IL-6 in BMA in WT mice, but not in TNF-α KO mice. In addition, alcohol promoted BMSC adipogenesis and inhibited BMSC osteogenesis, while TNF-α knockout could restrain this situation. Conclusion: Our study demonstrated that alcohol may reduce bone mass by disrupting the balance of osteogenesis and adipogenesis in bone marrow, and TNF-α plays an important role in this process.
A new paradigm for addictions
Authors: Poikolainen Kari 
Published: April 2023

AbstractAimTo suggest a new paradigm for addictions.MethodsConsideration of relevant research findings and thought experiments.ResultsCommon mental motors leading to addictions are pleasure-seeking and hyperbolic discounting. The important point of the latter is that given two choices of future rewards, commonly one initially prefers the larger one available after a longer waiting time but despite this the smaller and sooner reward will be chosen when it becomes available. These are general biological properties, found at least in human beings, the rat, and the pigeon. If this continues it may create an unconscious habit, difficult to change. Several other risk factors for addictions are known, notably both externalizing and internalizing mental problems. Predisposing factors are likely to interact.ConclusionsThe above suggests a new paradigm for addictions. Pleasure provides temptations, hyperbolic discounting weakens the will. Habits emerge. Addictions seem to be a group of problems of its own kind, not diseases, because diseases do not bring about pleasure, and are not sought for pleasure.
An automatic immunofluorescence pattern classification framework for HEp-2 image based on supervised learning
Authors: Fang Kechi , Li Chuan , Wang Jing 
Published: April 2023

Abstract
Immunofluorescence patterns of anti-nuclear antibodies (ANAs) on human epithelial cell (HEp-2) substrates are important biomarkers for the diagnosis of autoimmune diseases. There are growing clinical requirements for an automatic readout and classification of ANA immunofluorescence patterns for HEp-2 images following the taxonomy recommended by the International Consensus on Antinuclear Antibody Patterns (ICAP). In this study, a comprehensive collection of HEp-2 specimen images covering a broad range of ANA patterns was established and manually annotated by experienced laboratory experts. By utilizing a supervised learning methodology, an automatic immunofluorescence pattern classification framework for HEp-2 specimen images was developed. The framework consists of a module for HEp-2 cell detection and cell-level feature extraction, followed by an image-level classifier that is capable of recognizing all 14 classes of ANA immunofluorescence patterns as recommended by ICAP. Performance analysis indicated an accuracy of 92.05% on the validation dataset and 87% on an independent test dataset, which has surpassed the performance of human examiners on the same test dataset. The proposed framework is expected to contribute to the automatic ANA pattern recognition in clinical laboratories to facilitate efficient and precise diagnosis of autoimmune diseases.
epiTCR: a highly sensitive predictor for TCR–peptide binding
Authors: Pham My-Diem Nguyen , Nguyen Thanh-Nhan , Tran Le Son , Nguyen Que-Tran Bui , Nguyen Thien-Phuc Hoang , Pham Thi Mong Quynh , Nguyen Hoai-Nghia , Giang Hoa , Phan Minh-Duy , Nguyen Vy 
Published: April 2023

Abstract

Motivation
Predicting the binding between T-cell receptor (TCR) and peptide presented by human leucocyte antigen molecule is a highly challenging task and a key bottleneck in the development of immunotherapy. Existing prediction tools, despite exhibiting good performance on the datasets they were built with, suffer from low true positive rates when used to predict epitopes capable of eliciting T-cell responses in patients. Therefore, an improved tool for TCR–peptide prediction built upon a large dataset combining existing publicly available data is still needed.

Results
We collected data from five public databases (IEDB, TBAdb, VDJdb, McPAS-TCR, and 10X) to form a dataset of &gt;3 million TCR–peptide pairs, 3.27% of which were binding interactions. We proposed epiTCR, a Random Forest-based method dedicated to predicting the TCR–peptide interactions. epiTCR used simple input of TCR CDR3β sequences and antigen sequences, which are encoded by flattened BLOSUM62. epiTCR performed with area under the curve (0.98) and higher sensitivity (0.94) than other existing tools (NetTCR, Imrex, ATM-TCR, and pMTnet), while maintaining comparable prediction specificity (0.9). We identified seven epitopes that contributed to 98.67% of false positives predicted by epiTCR and exerted similar effects on other tools. We also demonstrated a considerable influence of peptide sequences on prediction, highlighting the need for more diverse peptides in a more balanced dataset. In conclusion, epiTCR is among the most well-performing tools, thanks to the use of combined data from public sources and its use will contribute to the quest in identifying neoantigens for precision cancer immunotherapy.

Availability and implementation
epiTCR is available on GitHub (https://github.com/ddiem-ri-4D/epiTCR).
Food security in high mountains of Central Asia: A broader perspective
Authors: Sidle Roy C , Khan Aziz Ali , Caiserman Arnaud , Qadamov Aslam , Khojazoda Zulfiqor 
Published: April 2023

Abstract
Addressing food security in high mountains is a multidimensional conundrum because of complex climate patterns and environmental attributes. These conditions affect water supplies, biodiversity, droughts, and other hazards. The climate change–land degradation nexus, although it is difficult to disentangle, poses formidable challenges. Isolated mountain villages, coupled with poverty, a strained subsistence existence, conflict, and marginal lands make the residents vulnerable to malnutrition, stunting, and food access. Because the arable land is mostly in confined valleys, food production is insufficient. The soils are typically infertile, with little organic matter; on hillslopes, thin soil and rock cover, coupled with short growing seasons, restrict crop production. High-elevation pastures are overgrazed, and the natural hazard impacts on food security are often overlooked. We examine food security through these multifaceted stressors, instead of merely focusing on production and distribution, and present an integrated approach to assess natural and anthropogenic stressors and feedback loops affecting food security linked to planning, mitigation, and coping strategies.
Antibiotic Use Without a Prescription: A Multisite Survey of Patient, Health System, and Encounter Characteristics
Authors: Grigoryan Larissa , Paasche-Orlow Michael K , Alquicira Osvaldo , Laytner Lindsey , Schlueter Matthew , Street Richard L , Salinas Juanita , Barning Kenneth , Mahmood Hammad , Porter Thomas W , Khan Fareed , Raphael Jean L , Faustinella Fabrizia , Trautner Barbara W 
Published: April 2023

Abstract

Background
Using antibiotics without a prescription is potentially unsafe and may increase the risk of antimicrobial resistance. We evaluated the effect of patient, health system, and clinical encounter factors on intention to use antibiotics without a prescription that were (1) purchased in the United States, (2) obtained from friends or relatives, (3) purchased abroad, or (4) from any of these sources.

Methods
The survey was performed January 2020–June 2021 in 6 publicly funded primary care clinics and 2 private emergency departments in Texas, United States. Participants included adult patients visiting 1 of the clinical settings. Nonprescription use was defined as use of antibiotics without a prescription; intended use was professed intention for future nonprescription antibiotic use.

Results
Of 564 survey respondents (33% Black and 47% Hispanic or Latino), 246 (43.6%) reported prior use of antibiotics without a prescription, and 177 (31.4%) reported intent to use antibiotics without a prescription. If feeling sick, respondents endorsed that they would take antibiotics obtained from friends/relatives (22.3% of 564), purchased in the United States without a prescription (19.1%), or purchased abroad without a prescription (17.9%). Younger age, lack of health insurance, and a perceived high cost of doctor visits were predictors of intended use of nonprescription antibiotics from any of the sources. Other predictors of intended use were lack of transportation for medical appointments, language barrier to medical care, Hispanic or Latino ethnicity, and being interviewed in Spanish.

Conclusions
Patients without health insurance who report a financial barrier to care are likely to pursue more dangerous nonprescription antimicrobials. This is a harm of the US fragmented, expensive healthcare system that may drive increasing antimicrobial resistance and patient harm.
Invasive investigation: uptake and transport of l-leucine in the gill epithelium of crustaceans
Authors: Griffin Robert A , Boyd Aaron , Weinrauch Alyssa , Blewett Tamzin A 
Published: April 2023

Abstract
Many aquatic species are well known as extremely successful invaders. The green crab (Carcinus maenas) is an arthropod native to European waters; however, it is now known to be a globally invasive species. Recently, it was discovered that the C. maenas could transport nutrients in the form of amino acids across their gill from the surrounding environment, a feat previously thought to be impossible in arthropods. We compared the ability for branchial amino acid transport of crustacean's native to Canadian Pacific waters to that of the invasive C. maenas, determining if this was a novel pathway in an extremely successful invasive species, or a shared trait among crustaceans. Active transport of l-leucine was exhibited in C. maenas, Metacarcinus gracilis, Metacarcinus magister, and Cancer productus across their gill epithelia. Carcinus maenas exhibited the highest maximum rate of branchial l-leucine transport at 53.7 ± 6.24 nmolg−1 h−1, over twice the rate of two native Canadian crustaceans. We also examined the influence of feeding, gill specificity, and organ accumulation of l-leucine. Feeding events displayed a heavy influence on the branchial transport rate of amino acids, increasing l-leucine transport rates by up to 10-fold in C. maenas. l-leucine displayed a significantly higher accumulation rate in the gills of C. maenas compared to the rest of the body at 4.15 ± 0.78 nmolg−1 h−1, with the stomach, hepatopancreas, eyestalks, muscle tissue, carapace and heart muscle exhibiting accumulation under 0.15 nmolg−1 h−1. For the first time, the novel transport of amino acids in Canadian native arthropods is described, suggesting that branchial amino acid transport is a shared trait among arthropods, contrary to existing literature. Further investigation is required to determine the influence of environmental temperature and salinity on transport in each species to outline any competitive advantages of the invasive C. maenas in a fluctuating estuarine environment.
What if your patient switches from Dr. Google to Dr. ChatGPT? A vignette-based survey of the trustworthiness, value, and danger of ChatGPT-generated responses to health questions
Authors: Van Bulck Liesbet , Moons Philip 
Published: April 2023

Abstract
ChatGPT is a new artificial intelligence system that revolutionizes the way how information can be sought and obtained. In this study, the trustworthiness, value, and danger of ChatGPT-generated responses on four vignettes that represented virtual patient questions were evaluated by 20 experts in the domain of congenital heart disease, atrial fibrillation, heart failure, or cholesterol. Experts generally considered ChatGPT-generated responses trustworthy and valuable, with few considering them dangerous. Forty percent of the experts found ChatGPT responses more valuable than Google. Experts appreciated the sophistication and nuances in the responses but also recognized that responses were often incomplete and sometimes misleading.
Lacustrine speciation associated with chromosomal inversion in a lineage of riverine fishes
Authors: MacGuigan Daniel J , Krabbenhoft Trevor J , Harrington Richard C , Wainwright Dylan K , Backenstose Nathan J C , Near Thomas J 
Published: April 2023

Abstract
Geographic isolation is the primary driver of speciation in many vertebrate lineages. This trend is exemplified by North American darters, a clade of freshwater fishes where nearly all sister species pairs are allopatric and separated by millions of years of divergence. One of the only exceptions is the Lake Waccamaw endemic Etheostoma perlongum and its riverine sister species Etheostoma maculaticeps, which have no physical barriers to gene flow. Here we show that lacustrine speciation of E. perlongum is characterized by morphological and ecological divergence likely facilitated by a large chromosomal inversion. While E. perlongum is phylogenetically nested within the geographically widespread E. maculaticeps, there is a sharp genetic and morphological break coinciding with the lake–river boundary in the Waccamaw River system. Despite recent divergence, an active hybrid zone, and ongoing gene flow, analyses using a de novo reference genome reveal a 9 Mb chromosomal inversion with elevated divergence between E. perlongum and E. maculaticeps. This region exhibits striking synteny with known inversion supergenes in two distantly related fish lineages, suggesting deep evolutionary convergence of genomic architecture. Our results illustrate that rapid, ecological speciation with gene flow is possible even in lineages where geographic isolation is the dominant mechanism of speciation.
Sex-specific selection patterns in a dioecious insect-pollinated plant
Authors: Barbot Estelle , Dufaÿ Mathilde , De Cauwer Isabelle 
Published: April 2023

Abstract
Competition for mate acquisition is the hallmark of any sexual organism. In insect-pollinated plants, competition to attract pollinators is expected to result in pollinator-mediated selection on attractive floral traits. This could overlap with sexual selection if the number of mating partners increases with pollinator attraction, resulting in an improved reproductive success. In this study, we measured a set of floral traits and estimated individual fitness in male and female Silene dioica in an experimental population. Results align with the predictions of Bateman’s principles, in the absence of pollen limitation. In females, natural selection acted on traits that are typically linked with fertility (number of flowers and number of gametes), and selection strength was similar in open- and hand-pollinated females, suggesting a limited role of pollinator-mediated selection. In males, flowering duration and corolla width were positively associated with both reproductive success and number of mates, suggesting that sexual selection has played a role in the evolution of these traits. The use of Bateman’s metrics further confirmed stronger sexual selection in males than in females. Taken together, our results shed light on the occurrence of sex-specific patterns of selection in an insect-pollinated plant population.
Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Authors: Roberts Miles , Josephs Emily B 
Published: April 2023

Abstract
Differential gene expression between environments often underlies phenotypic plasticity. However, environment-specific expression patterns are hypothesized to relax selection on genes, and thus limit plasticity evolution. We collated over 27 terabases of RNA-sequencing data on Arabidopsis thaliana from over 300 peer-reviewed studies and 200 treatment conditions to investigate this hypothesis. Consistent with relaxed selection, genes with more treatment-specific expression have higher levels of nucleotide diversity and divergence at nonsynonymous sites but lack stronger signals of positive selection. This result persisted even after controlling for expression level, gene length, GC content, the tissue specificity of expression, and technical variation between studies. Overall, our investigation supports the existence of a hypothesized trade-off between the environment specificity of a gene’s expression and the strength of selection on said gene in A. thaliana. Future studies should leverage multiple genome-scale datasets to tease apart the contributions of many variables in limiting plasticity evolution.