bluuebunny/crossref_metadata_2025_split huggingface dataset:
Presence and consequences of positive words in scientific abstracts
Authors: Edlinger Moritz , Buchrieser Finn , Wood Guilherme 
Published: November 2023

AbstractAbstracts are the showcase of scientific studies, crafted to make an impression on the reader within a limited space and to determine the amount of attention each study receives. Systemic conditions in the sciences may change the expressive norm and incentive scientists to hype abstracts to promote their work and career. Previous studies found that terms such as “unprecedented”, “novel” and “unique” have been used increasingly in recent history, to describe one’s own research findings. The present study investigates the use of valence-loaded scientific jargon in the abstracts of scientific articles. Sentiment analysis with dictionaries specifically attuned to detect valence-loaded scientific jargon was employed to analyze more than 2,300,000 MEDLINE abstracts from the fields of psychology, biology, and physics. Results show that over the last four decades, abstracts have contained an increasing amount of valence-loaded scientific jargon, as previously observed in earlier studies. Moreover, our results reveal that the positive emotional content of abstracts is increasing in a way that cannot be accounted for by the increase in text length, which has also been observed in the same time period. There were small differences between scientific disciplines. A detailed analysis of the distribution of valence-loaded scientific jargon within abstracts reveals a strong concentration towards the end of the text. We discuss these results in light of psychological evidence relating positive emotions with the propensity to overestimate the value of information to inform judgment and the increase in the competition for attention due to a pressure to publish.
The true futures
Authors: Braüner Torben 
Published: November 2023

AbstractIn this paper various branching time semantics are compared with the aim of clarifying the role of true futures of counterfactual moments, that is, true futures of moments outside the true chronicle. First we give an account of Arthur Prior’s Ockhamistic semantics where truth of a formula is relative to a moment and a chronicle. We prove that this is equivalent to a version of a semantics put forward by Thomason and Gupta where truth is relative to a moment and what is called a chronicle function which assigns a chronicle to each moment. Later we discuss how a semantic theory considered by Belnap and Green may be formalised. It comes about by assuming a chronicle function to be given once and for all. However, this semantics invalidates an intuitively valid formula, so we present an alternative semantics where the formula in question is valid. Furthermore, we shall exhibit an intuitively invalid formula which is invalid in our alternative semantics, but which is valid in Prior’s Ockhamistic semantics. So we can conclude that Prior’s Ockhamistic validity does not imply validity in the alternative semantics. On the other hand, the converse implication does hold, as we shall prove. Summary of mathematical results: We have proved that Prior’s Ockhamistic semantics has the same valid formulas as Thomason and Gupta’s semantics, and we have proved that Prior’s Ockhamistic semantics has strictly more valid formulas than the alternative semantics.
Impacts of stormwater pipe materials and pipe repairs on stormwater quality: a review
Authors: Taneez Mehwish , Österlund Heléne , Lundy Lian , Viklander Maria 
Published: November 2023

AbstractThe water quality implications of transferring stormwater through pipes composed of concrete (new and used), polyvinyl chloride (PVC), galvanized corrugated steel (GCS), high-density polyethylene (HDPE), and pipes subjected to cured in place pipe (CIPP) and spray in place pipe (SIPP) trenchless repair technologies on stormwater quality are reviewed. Studies involve either the use of flowing water or an immersion experimental design, with data showing contact with pipe materials can affect stormwater quality parameters including pH, electrical conductivity (EC), and concentrations of minerals, metals, and organic constituents, e.g. styrene. ‘In-transport’ changes in pH (1–3 units), EC (2–3-fold), bicarbonate (3–44-fold), and calcium (2–17-fold) in stormwaters were reported following exposure to concrete pipes. Differences between the use of synthetic and field-collected stormwater were identified, e.g. turbidity levels in field-collected stormwater reduced on passage through all pipe types, compared to synthetic water where levels of turbidity on exposure to concrete and cement-based SIPP increased slightly. Transfer through PVC and HDPE pipes had minimal effects on physicochemical parameters, whereas exposure to galvanized corrugated steel pipes led to increases in EC, Zn, and Pb. Though limited data was available, the use of CIPP repairs and associated waste condensate generated during thermal curing and/or incomplete curing of resins was identified to release organic contaminants of concerns (e.g. styrene, vinylic monomers, dibutyl phthalate (DBP), diethyl phthalate (DEP), and benzaldehyde). The implications of findings for both future research and stakeholders with responsibility for reducing diffuse pollution loads to receiving waters are considered.
Graphical Abstract
Antioxidants green tea extract and nordihydroguaiaretic acid confer species and strain-specific lifespan and health effects in Caenorhabditis nematodes
Authors: Banse Stephen A. , Sedore Christine A. , Johnson Erik , Coleman-Hulbert Anna L. , Onken Brian , Hall David , Jackson E. Grace , Huynh Phu , Foulger Anna C. , Guo Suzhen , Garrett Theo , Xue Jian , Inman Delaney , Morshead Mackenzie L. , Plummer W. Todd , Chen Esteban , Bhaumik Dipa , Chen Michelle K. , Harinath Girish , Chamoli Manish , Quinn Rose P. , Falkowski Ron , Edgar Daniel , Schmidt Madeline O. , Lucanic Mark , Guo Max , Driscoll Monica , Lithgow Gordon J. , Phillips Patrick C. 
Published: November 2023

AbstractThe Caenorhabditis Intervention Testing Program (CITP) is an NIH-funded research consortium of investigators who conduct analyses at three independent sites to identify chemical interventions that reproducibly promote health and lifespan in a robust manner. The founding principle of the CITP is that compounds with positive effects across a genetically diverse panel of Caenorhabditis species and strains are likely engaging conserved biochemical pathways to exert their effects. As such, interventions that are broadly efficacious might be considered prominent compounds for translation for pre-clinical research and human clinical applications. Here, we report results generated using a recently streamlined pipeline approach for the evaluation of the effects of chemical compounds on lifespan and health. We studied five compounds previously shown to extend C. elegans lifespan or thought to promote mammalian health: 17α-estradiol, acarbose, green tea extract, nordihydroguaiaretic acid, and rapamycin. We found that green tea extract and nordihydroguaiaretic acid extend Caenorhabditis lifespan in a species-specific manner. Additionally, these two antioxidants conferred assay-specific effects in some studies—for example, decreasing survival for certain genetic backgrounds in manual survival assays in contrast with extended lifespan as assayed using automated C. elegans Lifespan Machines. We also observed that GTE and NDGA impact on older adult mobility capacity is dependent on genetic background, and that GTE reduces oxidative stress resistance in some Caenorhabditis strains. Overall, our analysis of the five compounds supports the general idea that genetic background and assay type can influence lifespan and health effects of compounds, and underscores that lifespan and health can be uncoupled by chemical interventions.
Tracked ultrasound registration for intraoperative navigation during pediatric bone tumor resections with soft tissue components: a porcine cadaver study
Authors: van der Zee J. M. , Fitski M. , van de Sande M. A. J. , Buser M. A. D. , Hiep M. A. J. , Terwisscha van Scheltinga C. E. J. , Hulsker C. C. C. , van den Bosch C. H. , van de Ven C. P. , van der Heijden L. , Bökkerink G. M. J. , Wijnen M. H. W. A. , Siepel F. J. , van der Steeg A. F. W. 
Published: November 2023

Abstract
Purpose
Resection of pediatric osteosarcoma in the extremities with soft tissue involvement presents surgical challenges due to difficult visualization and palpation of the tumor. Therefore, an adequate image-guided surgery (IGS) system is required for more accurate tumor resection. The use of a 3D model in combination with intraoperative tracked ultrasound (iUS) may enhance surgical decision making. This study evaluates the clinical feasibility of iUS as a surgical tool using a porcine cadaver model.

Methods
First, a 3D model of the porcine lower limb was created based on preoperative scans. Second, the bone surface of the tibia was automatically detected with an iUS by a sweep on the skin. The bone surface of the preoperative 3D model was then matched with the bone surface detected by the iUS. Ten artificial targets were used to calculate the target registration error (TRE). Intraoperative performance of iUS IGS was evaluated by six pediatric surgeons and two pediatric oncologic orthopedists. Finally, user experience was assessed with a post-procedural questionnaire.

Results
Eight registration procedures were performed with a mean TRE of 6.78 ± 1.33 mm. The surgeons agreed about the willingness for clinical implementation in their current clinical practice. They mentioned the additional clinical value of iUS in combination with the 3D model for the localization of the soft tissue components of the tumor. The concept of the proposed IGS system is considered feasible by the clinical panel, but the large TRE and degree of automation need to be addressed in further work.

Conclusion
The participating pediatric surgeons and orthopedists were convinced of the clinical value of the interaction between the iUS and the 3D model. Further research is required to improve the surgical accuracy and degree of automation of iUS-based registration systems for the surgical management of pediatric osteosarcoma.
Prevalence and sociodemographic correlates of antinuclear antibody testing by indirect immunofluorescence or solid-phase assays in a Spanish population: the Camargo Cohort
Authors: Irure-Ventura Juan , Martínez-Revuelta Daniel , López-Hoyos Marcos , Martín-Millán Marta , Nan Daniel , Pariente Emilio , Pardo-Lledías Javier , Comins-Boo Alejandra , Olmos José Manuel , Martínez-Taboada Víctor Manuel , Hernández José Luis 
Published: November 2023

AbstractAutoantibodies are the hallmark of autoimmunity, and specifically, antinuclear antibodies (ANA) are one of the most relevant antibodies present in systemic autoimmune diseases (AID). In the present study, we evaluate the relationship between ANA and sociodemographic and biobehavioral factors in a population with a low pre-test probability for systemic AID. ANA were determined in serum samples at baseline visit from 2997 participants from the Camargo Cohort using indirect immunofluorescence assay, and two solid phase assays (SPA), addressable laser bead immunoassay, and fluorescence enzyme immunoassay. Sociodemographic and biobehavioral features of the subjects were obtained at baseline visit using a structured questionnaire. The prevalence of ANA positive results was significantly higher when indirect immunofluorescence assay was used as screening method in comparison with SPAs, being higher in females, older subjects, and those with higher C-reactive protein levels. Considering biobehavioral features, the prevalence was higher in those individuals with a sedentary lifestyle, and in ex- and non-alcohol users. Moreover, considering the relevance of the antibody load using ANA Screen, the prevalence of the antibody load also increased with age, especially in females. In conclusion, the prevalence of ANA varies depending on sociodemographic and biobehavioral features of the subjects, which could be relevant specifically in a population with a low pre-test probability for systemic AIDs.
A Novel Truncating Mutation in PAX1 Gene Causes Otofaciocervical Syndrome Without Immunodeficiency
Authors: Elbagoury Nagham M. , Abdel-Aleem Asmaa F. , Sharaf-Eldin Wessam E. , Ashaat Engy A. , Esswai Mona L. 
Published: November 2023

AbstractOtofaciocervical syndrome (OTFCS) is a rare genetic disorder of both autosomal recessive and autosomal dominant patterns of inheritance. It is caused by biallelic or monoallelic mutations in PAX1 or EYA1 genes, respectively. Here, we report an OTFCS2 female patient of 1st consanguineous healthy parents. She manifested facial dysmorphism, hearing loss, intellectual disability (ID), and delayed language development (DLD) as the main clinical phenotype. The novel homozygous variant c.1212dup (p.Gly405Argfs*51) in the PAX1 gene was identified by whole exome sequencing (WES), and family segregation confirmed the heterozygous status of the mutation in the parents using the Sanger sequencing. The study recorded a novel PAX1 variant representing the sixth report of OTFCS2 worldwide and the first Egyptian study expanding the geographic area where the disorder was confined.
Thin shell foundations: Quantification of embodied carbon reduction through materially efficient geometry
Authors: Feickert Kiley , Mueller Caitlin T. 
Published: November 2023

AbstractBuilding foundation systems are a significant but understudied contributor to embodied carbon emissions of the built environment, and typically use excess material in prismatic, bending-dominated typologies. This paper identifies and characterizes a promising pathway for reducing the embodied carbon associated with reinforced concrete shallow foundations through an alternative typology, thin shell foundations. The main focus is a quantification and comparison of the environmental impact of typical spread footings and materially efficient shell foundations. Validated analytical engineering equations are applied in a parametric design workflow for the same design load and soil bearing capacity. By iterating through this workflow systematically, insights are gained regarding the applicability of shell foundations to various building typologies and site conditions. Results show that for small column loads and weak soils, shells reduce embodied carbon by about half compared to spread footings. For high applied loads, shells significantly outperform their prismatic counterparts, reducing the environmental impact by almost two-thirds. Foundations are then considered within the context of a whole building structural frame to determine the potential downstream savings when multiple systems are optimized to reduce material use and mass. When floor slabs are shape-optimized in addition to using shell foundations, a building structural system can be constructed for nearly one-quarter of the embodied carbon of a typical system. To take advantage of these potential savings, a method for fabricating thin shell foundations, where earth is compacted and milled to create the formwork, is presented following a review of digital fabrication methods.
Compound Continental Risk of Multiple Extreme Floods in the United States
Authors: Najibi Nasser , Devineni Naresh , Lall Upmanu 
Published: November 2023

AbstractUnderstanding spatially correlated floods and modeling joint hazard associated with threshold exceedances across multiple locations is crucial for accurate estimation of continental‐scale portfolio risk. This work uses a non‐parametric copula‐based spatial simulator to analyze peak floods across the United States to derive the first‐of‐its‐kind continental portfolio risk estimates at the 10‐ and 100‐year return levels. We find significant interdependence in floods across the nation, revealing the recurring pattern of extreme events affecting the Northeast, Central, West, and Northwest United States in the same year. The stochastic simulator effectively manages high‐dimensional data and offers reliable uncertainty estimates for both spatially dependent floods and the aggregated flood losses at the continental level. El Niño‐Southern Oscillation and Atlantic Multidecadal Oscillation are identified as statistically significant tele‐connectors of aggregate loss. This research aims to advance the understanding of compound continental flood hazard and the potential large‐scale climate teleconnections that lead to such compound floods.
How Exceptional Was the 2015–2019 Central American Drought?
Authors: Anderson Talia G. , McKinnon Karen A. , Pons Diego , Anchukaitis Kevin J. 
Published: November 2023

AbstractThe Central American Dry Corridor experienced five consecutive years of drought from 2015 to 2019. Here, we find that the severity of this drought was driven primarily by rainfall deficits in July–August. To determine if the magnitude of this event was outside the range of natural variability, we apply a statistical resampling method to observations that emulates internal climate variability. Our analyses show that droughts similar to the 2015–2019 event are possible, although extremely rare, even without anthropogenic influences. Persistent droughts in our ensemble are consistently linked to stronger easterly winds associated with the Caribbean Low‐Level Jet. We also examine the effects of temperature on soil moisture during this drought using the Palmer Drought Severity Index and show that anthropogenic warming increases the likelihood of severe deficits. Multi‐year droughts are likely to worsen by the end of the 21st century due to the compound effects of anthropogenic climate change.
Treosulfan vs busulfan conditioning for allogeneic bmt in children with nonmalignant disease: a randomized phase 2 trial
Authors: Sykora Karl-Walter , Beier Rita , Schulz Ansgar , Cesaro Simone , Greil Johann , Gozdzik Jolanta , Sedlacek Petr , Bader Peter , Schulte Johannes , Zecca Marco , Locatelli Franco , Gruhn Bernd , Reinhardt Dirk , Styczynski Jan , Piras Simona , Fagioli Franca , Bonanomi Sonia , Caniglia Maurizio , Li Xieran , Baumgart Joachim , Kehne Jochen , Mielcarek-Siedziuk Monika , Kalwak Krzysztof 
Published: November 2023

AbstractOptimal conditioning prior to allogeneic hematopoietic stem cell transplantation for children with non-malignant diseases is subject of ongoing research. This prospective, randomized, phase 2 trial compared safety and efficacy of busulfan with treosulfan based preparative regimens. Children with non-malignant diseases received fludarabine and either intravenous (IV) busulfan (4.8 to 3.2 mg/kg/day) or IV treosulfan (10, 12, or 14 g/m2/day). Thiotepa administration (2 × 5 mg/kg) was at the investigator’s discretion. Primary endpoint was freedom from transplantation (treatment)-related mortality (freedom from TRM), defined as death between Days -7 and +100. Overall, 101 patients (busulfan 50, treosulfan 51) with at least 12 months follow-up were analyzed. Freedom from TRM was 90.0% (95% CI: 78.2%, 96.7%) after busulfan and 100.0% (95% CI: 93.0%, 100.0%) after treosulfan. Secondary outcomes (transplantation-related mortality [12.0% versus 3.9%]) and overall survival (88.0% versus 96.1%) favored treosulfan. Graft failure was more common after treosulfan (n = 11), than after busulfan (n = 2) while all patients were rescued by second procedures except one busulfan patient. CTCAE Grade III adverse events were similar in both groups. This study confirmed treosulfan to be an excellent alternative to busulfan and can be safely used for conditioning treatment in children with non-malignant disease.
Tissue-resident B cells orchestrate macrophage polarisation and function
Authors: Suchanek Ondrej , Ferdinand John R. , Tuong Zewen K. , Wijeyesinghe Sathi , Chandra Anita , Clauder Ann-Katrin , Almeida Larissa N. , Clare Simon , Harcourt Katherine , Ward Christopher J. , Bashford-Rogers Rachael , Lawley Trevor , Manz Rudolf A. , Okkenhaug Klaus , Masopust David , Clatworthy Menna R. 
Published: November 2023

AbstractB cells play a central role in humoral immunity but also have antibody-independent functions. Studies to date have focused on B cells in blood and secondary lymphoid organs but whether B cells reside in non-lymphoid organs (NLO) in homeostasis is unknown. Here we identify, using intravenous labeling and parabiosis, a bona-fide tissue-resident B cell population in lung, liver, kidney and urinary bladder, a substantial proportion of which are B-1a cells. Tissue-resident B cells are present in neonatal tissues and also in germ-free mice NLOs, albeit in lower numbers than in specific pathogen-free mice and following co-housing with ‘pet-store’ mice. They spatially co-localise with macrophages and regulate their polarization and function, promoting an anti-inflammatory phenotype, in-part via interleukin-10 production, with effects on bacterial clearance during urinary tract infection. Thus, our data reveal a critical role for tissue-resident B cells in determining the homeostatic ‘inflammatory set-point’ of myeloid cells, with important consequences for tissue immunity.
Quantum noise and its evasion in feedback oscillators
Authors: Loughlin Hudson A. , Sudhir Vivishek 
Published: November 2023

AbstractFeedback oscillators, consisting of an amplifier whose output is partially fed back to its input, provide stable references for standardization and synchronization. Notably, the laser is such an oscillator whose performance can be limited by quantum fluctuations. The resulting frequency instability, quantified by the Schawlow-Townes formula, sets a limit to laser linewidth. Here, we show that the Schawlow-Townes formula applies universally to feedback oscillators beyond lasers. This is because it arises from quantum noise added by the amplifier and out-coupler in the feedback loop. Tracing the precise origin of quantum noise in an oscillator informs techniques to systematically evade it: we show how squeezing and entanglement can enable sub-Schawlow-Townes linewidth feedback oscillators. Our analysis clarifies the quantum limits to the stability of feedback oscillators in general, derives a standard quantum limit (SQL) for all such devices, and quantifies the efficacy of quantum strategies in realizing sub-SQL oscillators.
Deciphering triterpenoid saponin biosynthesis by leveraging transcriptome response to methyl jasmonate elicitation in Saponaria vaccaria
Authors: Chen Xiaoyue , Hudson Graham A. , Mineo Charlotte , Amer Bashar , Baidoo Edward E. K. , Crowe Samantha A. , Liu Yuzhong , Keasling Jay D. , Scheller Henrik V. 
Published: November 2023

AbstractMethyl jasmonate (MeJA) is a known elicitor of plant specialized metabolism, including triterpenoid saponins. Saponaria vaccaria is an annual herb used in traditional Chinese medicine, containing large quantities of oleanane-type triterpenoid saponins with anticancer properties and structural similarities to the vaccine adjuvant QS-21. Leveraging the MeJA-elicited saponin biosynthesis, we identify multiple enzymes catalyzing the oxidation and glycosylation of triterpenoids in S. vaccaria. This exploration is aided by Pacbio full-length transcriptome sequencing and gene expression analysis. A cellulose synthase-like enzyme can not only glucuronidate triterpenoid aglycones but also alter the product profile of a cytochrome P450 monooxygenase via preference for the aldehyde intermediate. Furthermore, the discovery of a UDP-glucose 4,6-dehydratase and a UDP-4-keto-6-deoxy-glucose reductase reveals the biosynthetic pathway for the rare nucleotide sugar UDP-d-fucose, a likely sugar donor for fucosylation of plant natural products. Our work enables the production and optimization of high-value saponins in microorganisms and plants through synthetic biology approaches.