bluuebunny/crossref_metadata_2025_split huggingface dataset:
From social networks to bird enthusiasts: reporting interactions between plastic waste and birds in Peru
Authors: Ayala Félix , Vizcarra Jhonson K. , Castillo-Morales Karen , Torres-Zevallos Uriel , Cordero-Maldonado Cristel , Ampuero-Merino Lyanne , Herrera-Peralta Kárlom , De-la-Torre Gabriel Enrique , Angulo Fernando , Cárdenas-Alayza Susana 
Published: March 2023

SummaryPeru has the second-highest diversity of birds in the world, but little is known about the interactions between birds and plastic waste. To fill this knowledge gap, we searched the scientific literature, collected information from social networks such as Facebook and databases such as Macaulay Library and iNaturalist and solicited records through messaging with researchers and bird enthusiasts. We found 119 bird interactions with plastic debris involving 39 species from 20 families, with the red-legged cormorant Phalacrocorax gaimardi and the neotropical cormorant Phalacrocorax brasilianus being the most affected species. By type of interaction category, plastic waste in nests was the most abundant, followed by entanglement, capture and handling and ingestion. Ropes, nets and soft plastics such as bags were the most frequently reported types of waste. As our methodology has limitations, it is probable that other species that also interact with plastic waste have not been reported, so we recommend further study.
Towards diverse and contextually anchored paraphrase modeling: A dataset and baselines for Finnish
Authors: Kanerva Jenna , Ginter Filip , Chang Li-Hsin , Rastas Iiro , Skantsi Valtteri , Kilpeläinen Jemina , Kupari Hanna-Mari , Piirto Aurora , Saarni Jenna , Sevón Maija , Tarkka Otto 
Published: March 2023

AbstractIn this paper, we study natural language paraphrasing from both corpus creation and modeling points of view. We focus in particular on the methodology that allows the extraction of challenging examples of paraphrase pairs in their natural textual context, leading to a dataset potentially more suitable for evaluating the models’ ability to represent meaning, especially in document context, when compared with those gathered using various sentence-level heuristics. To this end, we introduce the Turku Paraphrase Corpus, the first large-scale, fully manually annotated corpus of paraphrases in Finnish. The corpus contains 104,645 manually labeled paraphrase pairs, of which 98% are verified to be true paraphrases, either universally or within their present context. In order to control the diversity of the paraphrase pairs and avoid certain biases easily introduced in automatic candidate extraction, the paraphrases are manually collected from different paraphrase-rich text sources. This allows us to create a challenging dataset including longer and more lexically diverse paraphrases than can be expected from those collected through heuristics. In addition to quality, this also allows us to keep the original document context for each pair, making it possible to study paraphrasing in context. To our knowledge, this is the first paraphrase corpus which provides the original document context for the annotated pairs.We also study several paraphrase models trained and evaluated on the new data. Our initial paraphrase classification experiments indicate a challenging nature of the dataset when classifying using the detailed labeling scheme used in the corpus annotation, the accuracy substantially lacking behind human performance. However, when evaluating the models on a large scale paraphrase retrieval task on almost 400M candidate sentences, the results are highly encouraging, 29–53% of the pairs being ranked in the top 10 depending on the paraphrase type. The Turku Paraphrase Corpus is available at github.com/TurkuNLP/Turku-paraphrase-corpus as well as through the popular HuggingFace datasets under the CC-BY-SA license.
Drivers and Potential Consequences of Observed Extreme Hypoxia Along the Canadian Pacific Continental Shelf
Authors: Franco Ana C. , Ianson Debby , Ross Tetjana , Hannah Charles , Sastri Akash , Tortell Philippe D. 
Published: March 2023

AbstractBottom waters of the northeast Pacific continental shelf naturally experience localized hypoxic conditions, with significant influences on food webs and biogeochemical cycling. In August 2021, extreme hypoxia was detected from several measurement platforms along the southern British Columbia continental shelf, with oxygen concentration <60 μmol kg−1, and a difference from the seasonal climatology of more than 2 standard deviations. Early and intense remote upwelling and local density shifts were associated with an anomalously strong spring phytoplankton bloom, which likely stimulated localized respiration of subsurface organic matter. This event was concurrent with unsuitable habitat for Pacific halibut and calcite and aragonite undersaturation throughout most of the water column. The drivers of this extreme low oxygen event could be enhanced under future climate change, with potentially significant impacts on marine ecology and biogeochemistry.
Modeling the Impact of Geomagnetically Induced Currents on Electrified Railway Signaling Systems in the United Kingdom
Authors: Patterson C. J. , Wild J. A. , Boteler D. H. 
Published: March 2023

AbstractStudies of space weather impacts on ground‐based infrastructure have been largely focused on power networks and pipelines, but railway signaling systems are also affected, with misoperations observed in several countries. This paper advances recent theoretical work on geomagnetically induced currents in railway signaling systems by modeling realistic railway lines with parameters from current industrial standards. Focusing on two example lines in the United Kingdom with different locations and orientation, a range of uniform electric fields are simulated along each modeled line. The results show that misoperations could be caused by geomagnetic interference at disturbance levels expected to recur over timescales of several decades. We also demonstrate that the UK estimate for the geoelectric field induced by a 1 in 100‐year extreme storm would be strong enough to cause widespread signal misoperations in both lines studied.
Clinical case study meets population cohort: identification of a BRCA1 pathogenic founder variant in Orcadians
Authors: Kerr Shona M. , Cowan Emma , Klaric Lucija , Bell Christine , O’Sullivan Dawn , Buchanan David , Grzymski Joseph J. , van Hout Cristopher V. , Tzoneva Gannie , Shuldiner Alan R. , Wilson James F. , Miedzybrodzka Zosia 
Published: March 2023

AbstractWe multiply ascertained the BRCA1 pathogenic missense variant c.5207T > C; p.Val1736Ala (V1736A) in clinical investigation of breast and ovarian cancer families from Orkney in the Northern Isles of Scotland, UK. We sought to investigate the frequency and clinical relevance of this variant in those of Orcadian ancestry as an exemplar of the value of population cohorts in clinical care, especially in isolated populations. Oral history and birth, marriage and death registrations indicated genealogical linkage of the clinical cases to ancestors from the Isle of Westray, Orkney. Further clinical cases were identified through targeted testing for V1736A in women of Orcadian ancestry attending National Health Service (NHS) genetic clinics for breast and ovarian cancer family risk assessments. The variant segregates with female breast and ovarian cancer in clinically ascertained cases. Separately, exome sequence data from 2088 volunteer participants with three or more Orcadian grandparents, in the ORCADES research cohort, was interrogated to estimate the population prevalence of V1736A in Orcadians. The effects of the variant were assessed using Electronic Health Record (EHR) linkage. Twenty out of 2088 ORCADES research volunteers (~1%) carry V1736A, with a common haplotype around the variant. This allele frequency is ~480-fold higher than in UK Biobank participants. Cost-effectiveness of population screening for BRCA1 founder pathogenic variants has been demonstrated at a carrier frequency below the ~1% observed here. Thus we suggest that Orcadian women should be offered testing for the BRCA1 V1736A founder pathogenic variant, starting with those with known Westray ancestry.
MafB-restricted local monocyte proliferation precedes lung interstitial macrophage differentiation
Authors: Vanneste Domien , Bai Qiang , Hasan Shakir , Peng Wen , Pirottin Dimitri , Schyns Joey , Maréchal Pauline , Ruscitti Cecilia , Meunier Margot , Liu Zhaoyuan , Legrand Céline , Fievez Laurence , Ginhoux Florent , Radermecker Coraline , Bureau Fabrice , Marichal Thomas 
Published: March 2023

AbstractResident tissue macrophages (RTMs) are differentiated immune cells that populate distinct niches and exert important tissue-supportive functions. RTM maintenance is thought to rely either on differentiation from monocytes or on RTM self-renewal. Here, we used a mouse model of inducible lung interstitial macrophage (IM) niche depletion and refilling to investigate the development of IMs in vivo. Using time-course single-cell RNA-sequencing analyses, bone marrow chimeras and gene targeting, we found that engrafted Ly6C+ classical monocytes proliferated locally in a Csf1 receptor-dependent manner before differentiating into IMs. The transition from monocyte proliferation toward IM subset specification was controlled by the transcription factor MafB, while c-Maf specifically regulated the identity of the CD206+ IM subset. Our data provide evidence that, in the mononuclear phagocyte system, the ability to proliferate is not merely restricted to myeloid progenitor cells and mature RTMs but is also a tightly regulated capability of monocytes developing into RTMs in vivo.
Modelling daily plant growth response to environmental conditions in Chinese solar greenhouse using Bayesian neural network
Authors: Mohmed Gadelhag , Heynes Xanthea , Naser Abdallah , Sun Weituo , Hardy Katherine , Grundy Steven , Lu Chungui 
Published: March 2023

AbstractUnderstanding how plants respond to environmental conditions such as temperature, CO2, humidity, and light radiation is essential for plant growth. This paper proposes an Artificial Neural Network (ANN) model to predict plant response to environmental conditions to enhance crop production systems that improve plant performance and resource use efficiency (e.g. light, fertiliser and water) in a Chinese Solar Greenhouse. Comprehensive data collection has been conducted in a greenhouse environment to validate the proposed prediction model. Specifically, the data has been collected from the CSG in warm and cold weather. This paper confirms that CSG’s passive insulation and heating system was effective in providing adequate protection during the winter. In particular, the CSG average indoor temperature was 18 $$^{\circ }$$

∘

C higher than the outdoor temperature. The difference in environmental conditions led to a yield of 320.8g per head in the winter after 60 growing days compared to 258.9g in the spring experiment after just 35 days. Three different architectures of Bayesian Neural Networks (BNN) models have been evaluated to predict plant response to environmental conditions. The results show that the BNN network is accurate in modelling and predicting crop performance.
Gut microbiome signatures of Yorkshire Terrier enteropathy during disease and remission
Authors: Doulidis Pavlos G. , Galler Alexandra I. , Hausmann Bela , Berry David , Rodríguez-Rojas Alexandro , Burgener Iwan A. 
Published: March 2023

AbstractThe role of the gut microbiome in developing Inflammatory Bowel Disease (IBD) in humans and dogs has received attention in recent years. Evidence suggests that IBD is associated with alterations in gut microbial composition, but further research is needed in veterinary medicine. The impact of IBD treatment on the gut microbiome needs to be better understood, especially in a breed-specific form of IBD in Yorkshire Terriers known as Yorkshire Terrier Enteropathy (YTE). This study aimed to investigate the difference in gut microbiome composition between YTE dogs during disease and remission and healthy Yorkshire Terriers. Our results showed a significant increase in specific taxa such as Clostridium sensu stricto 1, Escherichia-Shigella, and Streptococcus, and a decrease in Bacteroides, Prevotella, Alloprevotella, and Phascolarctobacterium in YTE dogs compared to healthy controls. No significant difference was found between the microbiome of dogs in remission and those with active disease, suggesting that the gut microbiome is affected beyond clinical recovery.
Rotation and transportation of liquid crystal droplets for visualizing electric properties of microstructured electrodes
Authors: Bono Shinji , Konishi Satoshi 
Published: March 2023

AbstractThe spatial resolution of typical sensor probes is sufficient for measuring the average electric properties of microelectrical devices, but they are unable to measure the distribution with a spatial precision. Liquid crystal droplets (LCDs) are promising candidate for visualizing the distribution. When voltage is applied, the LCDs show rotational and translational behaviors which depend on the location of LCDs within the devices. We demonstrate that by comparing the experimental and numerical results, the electric field and electrostatic energy distribution are visualized by rotating and transporting LCDs, with a spatial resolution of 10 µm and a detection accuracy of 5 µV/µm. In addition, we produced an array of LCDs by designing periodic modulation of the electrostatic energy density in the model device. These findings show that the LCDs serve as a periodic modulator of the refractive index as well as a sensor for the observation of electric properties of microelectrical devices.
A network analysis on biopsychosocial factors and pain-related outcomes assessed during a COVID-19 lockdown
Authors: Gevers-Montoro Carlos , Liew Bernard X. W. , Deldar Zoha , Conesa-Buendia Francisco Miguel , Ortega-De Mues Arantxa , Falla Deborah , Khatibi Ali 
Published: March 2023

AbstractPsychological stress, social isolation, physical inactivity, and reduced access to care during lockdowns throughout a pandemic negatively impact pain and function. In the context of the first COVID-19 lockdown in Spain, we aimed to investigate how different biopsychosocial factors influence chiropractic patients’ pain-related outcomes and vice-versa. A total of 648 chiropractic patients completed online questionnaires including variables from the following categories: demographics, pain outcomes, pain beliefs, impact of the COVID-19 pandemic, stress/anxiety and self-efficacy. Twenty-eight variables were considered in a cross-sectional network analysis to examine bidirectional associations between biopsychosocial factors and pain outcomes. Subgroup analyses were conducted to estimate differences according to gender and symptom duration. The greatest associations were observed between pain duration and pain evolution during lockdown. Participants’ age, pain symptoms’ evolution during lockdown, and generalized anxiety were the variables with the strongest influence over the whole network. Negative emotions evoked by the pandemic were indirectly associated with pain outcomes, possibly via pain catastrophizing. The network structure of patients reporting acute pain showed important differences when compared to patients with chronic pain. These findings will contribute to identify which factors explain the deleterious effects of both the pandemic and the restrictions on patients living with pain.
Liver tissues oxidative status, epigenetic and molecular characteristics in rats administered magnetic and microwave treated water
Authors: Elmoslemany Amira M. , Ghamry Heba I. , Awad Abdelrahman A. , EL-Kholy Ragab I. , Almami Ibtesam S. M. , Alyamani Najiah M. , Zedan Amina M. G. 
Published: March 2023

AbstractPhysical and chemical changes in the natural of water may affect biological organisms. In this study, we highlight the effect of magnetized-water and microwave-water on rats’ liver tissues. Three groups of albino rats were separated. The first, rats were administered tap-water. The second, rats were administered magnetized-water. The third, rats were administered microwave-water. After two months, the results revealed a significant increase in liver functioning enzymes’ levels and bilirubin in rats administered microwave-water, compared to tap- and magnetic-water. In relation to oxidative stress, there was a significant increase and decrease in oxidative and antioxidant parameters respectively in liver tissues of rat's administrated microwave-water. At the molecular level, there was a significant down-regulation in Metallothionein, CYP genes in magnetic-water compared to tap-water. Rats administered microwave-water have shown a significant down-regulation in GST, Metallothionein and CYP genes’ expression, however, Amylase and HDAC3 genes were significantly up-regulated, compared to the other groups. The intake of microwave-water resulted in notable histopathological changes in liver tissues. Rats administered magnetic-water showed no clear changes in their liver tissues. In summary, microwave-water induced stress and epigenetic effects compared with magnetic-water and tap-water. Also, magnetic-water produced from the higher magnetic power had no side effect on liver tissues.
Ingestion and excretion dynamics of microplastics by black soldier fly larvae and correlation with mouth opening size
Authors: Lievens Siebe , Vervoort Evelynn , Bruno Daniele , Van der Donck Tom , Tettamanti Gianluca , Seo Jin Won , Poma Giulia , Covaci Adrian , De Smet Jeroen , Van Der Borght Mik 
Published: March 2023

AbstractBlack soldier fly (BSF) larvae (Hermetia illucens) are voracious feeders that can be reared on food waste streams originating from the food industry and retailers. Because these food waste streams are automatically being unpacked in substantial amounts, they can contain microplastics, potentially jeopardising the larvae’s chemical safety when applied as compound feed ingredients. During this study, the dynamics of ingestion and excretion of microplastics by BSF larvae reared on substrates containing different contents (wMP = 0.00, 0.01, 0.10, 0.50, 1.00, 3.00%) of fluorescent blue-labelled microplastics (median size, Dv(50) = 61.5 µm) were monitored. To correlate the particle size with their uptake, larval mouth opening dimensions were measured during the rearing process. In conclusion, it appeared that ingestion of microplastics by BSF larvae depends on initial particle load, mouth size, and consequently also age. The larvae took up between 131 (wMP = 0.01%) and 4866 (wMP = 3.00%) particles leading to bioaccumulation factors (BAF) between 0.12 (wMP = 3.00%) and 1.07 (wMP = 0.01%). Larvae also appeared to excrete the microplastics, lowering the BAFs to values between 0.01 (wMP = 3.00%) and 0.54 (wMP = 0.01%).
Predicting EGFR mutational status from pathology images using a real-world dataset
Authors: Pao James J. , Biggs Mikayla , Duncan Daniel , Lin Douglas I. , Davis Richard , Huang Richard S. P. , Ferguson Donna , Janovitz Tyler , Hiemenz Matthew C. , Eddy Nathanial R. , Lehnert Erik , Cabili Moran N. , Frampton Garrett M. , Hegde Priti S. , Albacker Lee A. 
Published: March 2023

AbstractTreatment of non-small cell lung cancer is increasingly biomarker driven with multiple genomic alterations, including those in the epidermal growth factor receptor (EGFR) gene, that benefit from targeted therapies. We developed a set of algorithms to assess EGFR status and morphology using a real-world advanced lung adenocarcinoma cohort of 2099 patients with hematoxylin and eosin (H&E) images exhibiting high morphological diversity and low tumor content relative to public datasets. The best performing EGFR algorithm was attention-based and achieved an area under the curve (AUC) of 0.870, a negative predictive value (NPV) of 0.954 and a positive predictive value (PPV) of 0.410 in a validation cohort reflecting the 15% prevalence of EGFR mutations in lung adenocarcinoma. The attention model outperformed a heuristic-based model focused exclusively on tumor regions, and we show that although the attention model also extracts signal primarily from tumor morphology, it extracts additional signal from non-tumor tissue regions. Further analysis of high-attention regions by pathologists showed associations of predicted EGFR negativity with solid growth patterns and higher peritumoral immune presence. This algorithm highlights the potential of deep learning tools to provide instantaneous rule-out screening for biomarker alterations and may help prioritize the use of scarce tissue for biomarker testing.
Assessment of the effect of spacer material on gap and void formation in an endodontic temporary restoration using micro-computed tomography
Authors: Alkadi Manal , Algahtani Fahda N. , Barakat Reem , Almohareb Rahaf , Alsaqat Reem 
Published: March 2023

AbstractThis study aimed to evaluate the effect of two spacer materials (cotton pellet and polytetrafluoroethylene [PTFE]) on gap and void formation in the Cavit restoration used for endodontic temporization. Thirty-four extracted human single-rooted premolars were matched and allocated into two groups (n = 17/group) according to the access cavity spacer (cotton pellet or PTFE). Standardized endodontic access cavities were prepared in all the teeth. Subsequently, the teeth were scanned by micro-computed tomography (micro-CT) to determine the volume of the access cavities. The teeth were then temporized by placing either cotton pellet or PTFE as spacer materials on the canal orifices, followed by the Cavit restoration. Following the temporization procedure, the teeth were subjected to a second micro-CT scan to determine the percentage volume of gaps and voids along the margins and within the Cavit restoration, respectively. Statistical analysis was performed using the Shapiro–Wilk and Wilcoxon signed-rank tests with a 5% significance level. The PTFE spacer was associated with significantly less gap formation between the Cavit restoration and the access cavity walls (P < 0.05) compared with the cotton pellet. No difference existed in void formation between the groups (P > 0.05). These findings indicate that the spacer material placed under the Cavit restoration can influence the quality of overlying restoration. PTFE was associated with less gap formation and, therefore, performed better than the cotton pellet as a spacer material beneath the Cavit restoration during endodontic treatment.