bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dust Exposures in Swedish Soft Tissue Paper Mills
Authors: Neitzel Richard L , Andersson Marianne , Lohman Susanna , Sällsten Gerd , Torén Kjell , Andersson Eva 
Published: July 2021

Abstract

Objectives
Paper dust has previously been linked to adverse health effects. However, a comprehensive dataset of paper dust exposures does not appear to have been published previously. Our study was intended to address this need by describing a large dataset of measurements made in Swedish soft tissue paper mills.

Methods
We compiled personal and area total dust exposure measurements collected from a range of operations by our research staff at four soft tissue paper mills in Sweden. We also compiled measurements made by the occupational health staff at each mill and the Swedish Work Environment Authority. We analyzed these measurements to describe patterns and trends in exposures and used mixed-effects regression models to identify measurement characteristics that predicted exposure levels.

Results
We compiled 1578 measurements from 1971 to 2009, of which 1026 (65%) were personal samples. Statistically significant differences were found between measurements made by research, mill, and Swedish Work Environment Authority staff, as well as between personal and area measurements. The measurement data suggest that, beginning in the 1980s, exposures declined at three of the four mills, but that overexposures were still common at the end of the period. Papermaking and converting operations had the highest observed dust exposures. One mill had significantly lower exposures than the others. Type of measurement (personal versus area) and source of measurement (research staff, company, or regulatory agency) were not significant predictors of measured total dust exposure after controlling for mill, operation, and time.

Conclusions
Our analysis of measured paper dust exposures may be useful for historical and contemporary exposure assessment in our own and other epidemiological studies. We have identified specific characteristics (i.e. papermaking operations and mill) and time trends that are important data features to consider, and documented continuing overexposure situations. Our results highlight the ongoing need for application of exposure controls to reduce paper dust exposures in the soft tissue paper industry.
One for all and all for one: phenotype assortment and reproductive success in masculinized females
Authors: Correa Loreto A , León Cecilia , Ramírez-Estrada Juan , Ly-Prieto Álvaro , Abades Sebastián , Hayes Loren D , Soto-Gamboa Mauricio , Ebensperger Luis A 
Published: July 2021

Abstract
Homophily by morphological and behavioral traits has been described in several species of vertebrates, but its functional consequences remain poorly studied. Homophily by plurally breeding females may improve direct fitness by enhancing reproductive success. Female mammals may exhibit phenotypical masculinization due to exposure to androgens during early development, a condition that is associated with maternal performance during subsequent breeding. Our goal was to assess whether female composition (in terms of masculinization) of plurally breeding groups influences female fitness in a natural population of degus (Octodon degus). We assessed if plurally breeding female degus assort themselves by anogenital distance (AGD), an accurate measure of masculinization level. We also quantified if homophily by AGD phenotype affects female reproductive success and the reproductive output of the group. Plurally breeding groups typically included similarly masculinized (i.e., long AGD) females or similarly feminized (short AGD) females, indicating a strong degree of homophily. Females weaned more offspring in plurally breeding groups with more masculinized females. Additionally, standardized variance in the number of offspring weaned decreased in plurally breeding groups with mostly masculinized females, indicating greater reproductive equality in these groups. We conclude that female degus organize into homophilic social groups of similar AGD, and that social groups of masculinized females exhibit a higher reproductive success.
Improved nutritional status may promote an “asset protection” reproductive strategy in male rock lizards
Authors: Rodríguez-Ruiz Gonzalo , Ortega Jesús , López Pilar , Salvador Alfredo , Martín José 
Published: July 2021

AbstractInvesting in the current reproduction requires diverting energy resources from other metabolic functions, which may compromise future reproduction and lifespan. To solve this trade-off, an individual may consider its labile state to decide how much to invest in current reproduction. We tested experimentally whether the “state quality” of male rock lizards influences their reproductive strategies. To improve the nutritional status of males before the mating season, we captured and supplemented experimental males (N = 20) with dietary vitamin D3 (an essential nutrient for lizards) and had a control group of males (N = 20). Then, we released all these males and females (N = 31) in a large semi-natural outdoor enclosure where lizards could interact and mate freely during the mating period. Activity levels of males did not vary between treatments, but supplemented males started fewer intrasexual agonistic interactions and made fewer mating advances to females. When the mating season ended, we incubated eggs laid by females to obtain the offspring and estimated the paternity of males using DNA microsatellites. Supplemented males sired fewer offspring than control males. These results suggest that vitamin D3 supplemented males used a low risk/less costly mating strategy to protect their assets (i.e., vitamin D reserves), but that still resulted in “some” current reproductive success, while likely increasing longevity and the expected future total reproductive success.
DeepDRIM: a deep neural network to reconstruct cell-type-specific gene regulatory network using single-cell RNA-seq data
Authors: Chen Jiaxing , Cheong ChinWang , Lan Liang , Zhou Xin , Liu Jiming , Lyu Aiping , Cheung William K , Zhang Lu 
Published: July 2021

Abstract
Single-cell RNA sequencing has enabled to capture the gene activities at single-cell resolution, thus allowing reconstruction of cell-type-specific gene regulatory networks (GRNs). The available algorithms for reconstructing GRNs are commonly designed for bulk RNA-seq data, and few of them are applicable to analyze scRNA-seq data by dealing with the dropout events and cellular heterogeneity. In this paper, we represent the joint gene expression distribution of a gene pair as an image and propose a novel supervised deep neural network called DeepDRIM which utilizes the image of the target TF-gene pair and the ones of the potential neighbors to reconstruct GRN from scRNA-seq data. Due to the consideration of TF-gene pair’s neighborhood context, DeepDRIM can effectively eliminate the false positives caused by transitive gene–gene interactions. We compared DeepDRIM with nine GRN reconstruction algorithms designed for either bulk or single-cell RNA-seq data. It achieves evidently better performance for the scRNA-seq data collected from eight cell lines. The simulated data show that DeepDRIM is robust to the dropout rate, the cell number and the size of the training data. We further applied DeepDRIM to the scRNA-seq gene expression of B cells from the bronchoalveolar lavage fluid of the patients with mild and severe coronavirus disease 2019. We focused on the cell-type-specific GRN alteration and observed targets of TFs that were differentially expressed between the two statuses to be enriched in lysosome, apoptosis, response to decreased oxygen level and microtubule, which had been proved to be associated with coronavirus infection.
An IRF1-dependent Pathway of TNFα-induced Shedding in Intestinal Epithelial Cells
Authors: Tan Gao , Huang Chongyang , Chen Jiaye , Chen Bingxia , Shi Yanqiang , Zhi Fachao 
Published: July 2021

Abstract

Background
Shedding of intestinal epithelial cells [IECs] is a potent cause of barrier loss which plays an important role in the pathogenesis of inflammatory bowel disease [IBD]. TNFα can induce IEC shedding, but little is known about this process.

Methods
To investigate the molecular mechanism regulating IEC shedding, mice lacking interferon regulatory factor1 [IRF1], caspase-3, or gasdermin E [GSDME] and their control wild-type [WT] littermates were intravenously injected with tumour necrosis factor alpha [TNFα] to establish an IEC shedding model. A dual-luciferase reporter assay and a chromatin immunoprecipitation assay were used to determine the role of IRF1 in regulating caspase-3 expression.

Results
TNFα administration induced obvious IEC shedding in WT mice, but IRF1-/- and caspase-3-/-mice were completely protected from TNFα-induced IEC shedding. As a critical transcription factor, IRF1 was found to be required for caspase-3 expression in IECs by binding to IRF1-binding sites in the caspase-3 promoter. In WT mice, plasma membrane integrity was disrupted in shed IECs; these cells were swollen and contained GSDME-N terminal [NT] fragments which are responsible for the induction of pyroptosis. However, in GSDME-/- mice, plasma membrane integrity was not disrupted in shed IECs, which were not swollen and did not contain GSDME-NT, indicating that GSDME converted TNFα-induced IEC shedding into a pyroptotic cell death process. In addition, IRF1 deficiency resulted in decreases in mucosal inflammation and mucosal bacteria levels in TNFα-challenged colons.

Conclusions
IRF1 deficiency maintains intestinal barrier integrity by restricting TNFα-induced IEC shedding.
Post hoc validation of a tool that accurately predicts the outcome of endoscopic therapy in Bouveret syndrome
Authors: Swift Carla , Ong John , Zhou Man , Stokell Benjamin , Al-Naeeb Yasseen 
Published: July 2021

Abstract

Background
Bouveret syndrome is characterized by gallstone impaction in the upper gastrointestinal tract causing gastric outlet obstruction. In Bouveret syndrome, endoscopic gallstone removal can avert the need for surgery. However, in cases in which endoscopic therapy is unlikely to succeed, endoscopic attempts delay definitive treatment and compound patient risks. We previously developed a model that predicts endoscopic outcomes from data derived through a systematic review. This tool uses gallstone length, site of impaction, and the number of planned methods of lithotripsy to predict the likelihood of endoscopic success with an accuracy of 81.0%. This study aimed to evaluate our tool performance in an independent, non-training data set and assess endoscopic and surgical outcomes.

Methods
Systematic searches of the PubMed, Scopus, and Cochrane databases were performed for articles published between 16 April 2018 and 1 June 2021. The data reported after our previous study were harvested and inputted into the tool to evaluate their ability to accurately predict outcomes when compared with actual outcomes.

Results
Newly collated data in fields of interest showed no significant statistical differences compared with previous training data sets. Endoscopic therapy was successful in 41.9% of cases. Gallstones of ≤4 cm had a higher chance of successful endoscopic intervention (odds ratio 6.7, 95% confidence interval 1.7–25.8, P &lt; 0.01). Complications of surgery were reported in 29.5%; there was one fatality reported. Post hoc evaluation of our predictive tool demonstrated an AUROC score of 0.80.

Conclusions
We have demonstrated in an independent data set that the tool can be used to accurately predict outcomes of endoscopic therapy. Patients in whom endoscopic therapy is most likely to fail should be offered an early surgical opinion.
Small-scale lithospheric heterogeneity characterization using Bayesian inference and energy flux models
Authors: González Álvarez Itahisa N , Rost Sebastian , Nowacki Andy , Selby Neil D 
Published: July 2021

SUMMARYObservations from different disciplines have shown that our planet is highly heterogeneous at multiple scale lengths. Still, many seismological Earth models tend not to include any small-scale heterogeneity or lateral velocity variations, which can affect measurements and predictions based on these homogeneous models. In this study, we describe the lithospheric small-scale isotropic heterogeneity structure in terms of the intrinsic, diffusion and scattering quality factors, as well as an autocorrelation function, associated with a characteristic scale length (a) and RMS fractional velocity fluctuations (ε). To obtain this characterization, we combined a single-layer and a multilayer energy flux models with a new Bayesian inference algorithm. Our synthetic tests show that this technique can successfully retrieve the input parameter values for 1- or 2-layer models and that our Bayesian algorithm can resolve whether the data can be fitted by a single set of parameters or a range of models is required instead, even for very complex posterior probability distributions. We applied this technique to three seismic arrays in Australia: Alice Springs array (ASAR), Warramunga Array (WRA) and Pilbara Seismic Array (PSAR). Our single-layer model results suggest intrinsic and diffusion attenuation are strongest for ASAR, while scattering and total attenuation are similarly strong for ASAR and WRA. All quality factors take higher values for PSAR than for the other two arrays, implying that the structure beneath this array is less attenuating and heterogeneous than for ASAR or WRA. The multilayer model results show the crust is more heterogeneous than the lithospheric mantle for all arrays. Crustal correlation lengths and RMS velocity fluctuations for these arrays range from ∼0.2 to 1.5 km and ∼2.3 to 3.9 per cent, respectively. Parameter values for the upper mantle are not unique, with combinations of low values of the parameters (a &lt; 2 km and ε &lt; ∼2.5 per cent) being as likely as those with high correlation length and velocity variations (a &gt; 5 km and ε &gt; ∼2.5 per cent, respectively). We attribute the similarities in the attenuation and heterogeneity structure beneath ASAR and WRA to their location on the proterozoic North Australian Craton, as opposed to PSAR, which lies on the archaean West Australian Craton. Differences in the small-scale structure beneath ASAR and WRA can be ascribed to the different tectonic histories of these two regions of the same craton. Overall, our results highlight the suitability of the combination of an energy flux model and a Bayesian inference algorithm for future scattering and small-scale heterogeneity studies, since our approach allows us to obtain and compare the different quality factors, while also giving us detailed information about the trade-offs and uncertainties in the determination of the scattering parameters.
Nested regional-global seismic tomography and precise earthquake relocation along the Hikurangi subduction zone, New Zealand
Authors: Aziz Zanjani Farzaneh , Lin Guoqing , Thurber Clifford H 
Published: July 2021

SUMMARY
Seismic and geodetic examinations of the Hikurangi subduction zone (HSZ) indicate a remarkably diverse and complex system. Here, we investigate the 3-D P-wave velocity structure of the HSZ by applying an iterative, nested regional-global tomographic algorithm. The new model reveals enhanced details of seismic variations along the HSZ. We also relocate over 57 000 earthquakes using this newly developed 3-D model and then further improve the relative locations for 75 per cent of the seismicity using waveform cross-correlation. Double seismic zone characteristics, including occurrence, depth distribution and thickness change along the strike of the HSZ. An aseismic but fast Vp zone separates the upper and lower planes of seismicity in the southern and northern North Island. The upper plane of seismicity correlates with low Vp zones below the slab interface, indicating fluid-rich channels formed on top and/or within a dehydrated crust. A broad low Vp zone is resolved in the lower part of the subducting slab that could indicate hydrous mineral breakdown in the slab mantle. In the northern North Island and southern North Island, the lower plane of seismicity mostly correlates with the top of these low Vp zones. The comparison between the thermal model and the lower plane of seismicity in the northern North Island supports dehydration in the lower part of the slab. The mantle wedge of the Taupo volcanic zone (TVZ) is characterized by a low velocity zone underlying the volcanic front (fluid-driven partial melting), a fast velocity anomaly in the forearc mantle (a stagnant cold nose) and an underlying low velocity zone within the slab (fluids from dehydration). These arc-related anomalies are the strongest beneath the central TVZ with known extensive volcanism. The shallow seismicity (&lt;40 km depth) correlates with geological terranes in the overlying plate. The aseismic impermeable terranes, such as the Rakaia terrane, may affect the fluid transport at the plate interface and seismicity in the overlying plate, which is consistent with previous studies. The deep slow slip events (25–60 km depths) mapped in the Kaimanawa, Manawatu and Kapiti regions coincide with low Vp anomalies. These new insights on the structure along the HSZ highlight the change in the locus of seismicity and dehydration at depth that is governed by significant variations in spatial and probably temporal attributes of subduction zone processes.
Improving accuracy of American Society of Anesthesiologists Physical Status using audit and feedback and artificial intelligence: a time-series analysis
Authors: Drzymalski Dan M , Seth Sonika , Johnson Jeffrey R , Trzcinka Agnieszka 
Published: July 2021

Abstract

Background
While the American Society of Anesthesiologists (ASA) Physical Status (PS) is used to adjust for greater mortality risk with higher ASA PS classification, inaccurate classification can lead to an inaccurate comparison of institutions.

Objective
The purpose of this study was to assess the effect of audit and feedback with a rule-based artificial intelligence algorithm on the accuracy of ASA PS classification.

Methods
We reviewed 78 121 anesthetic records from 1 January 2017 to 19 February 2020. The first intervention entailed audit and feedback emphasizing accurately documenting ASA PS classification using body mass index (BMI), while the second intervention consisted of implementing a rule-based artificial intelligence algorithm. If a patient with a BMI ≥40 kg/m2 had a documented ASA PS classification of 1 or 2, the provider was alerted to change the ASA PS classification to 3 or above. The primary outcome was the overall proportion of patients with inaccurate ASA PS classification based on BMI per month. Secondary outcomes included the proportion of patients with a BMI ≥40 or a BMI 30–39.9 who had inaccurate ASA PS classification and the proportion of patients documented as having ASA 3–5. Data were analyzed using interrupted time-series analysis.

Results
For the primary outcome, the slope for ASA PS classification inaccurately incorporating BMI was unchanging before the first intervention (parameter coefficient 0.002, 95% CI −0.034 to 0.038; P = 0.911). Following the first intervention, there was an immediate level change (parameter coefficient −0.821, 95% CI −1.236 to −0.0406; P &lt; 0.001) without significant change in slope (parameter coefficient −0.048, 95% CI −0.100 to 0.004; P = 0.067). The post-intervention slope was negative (parameter coefficient −0.046, 95% CI −0.083 to −0.009; P = 0.017). Following the second intervention, there was no level change (parameter coefficient 0.203, 95% CI −0.380 to 0.463; P = 0.839) and no significant change in slope (parameter coefficient 0.013, 95% CI −0.043 to 0.043; P = 0.641). The post-intervention slope was not significant (parameter coefficient −0.034, 95% CI −0.078 to 0.010; P = 0.121). The proportion of patients whose ASA PS classification inaccurately incorporated BMI at the first and final timepoint of the study was 2.6% and 0.8%, respectively.

Conclusions
Our quality improvement efforts successfully modified clinician behavior to accurately incorporate BMI into the ASA PS classification. By combining audit and feedback methodology with a rule-based artificial intelligence algorithm, we created a process that resulted in immediate and sustained effects. Improving ASA PS classification accuracy is important because it affects quality metrics, research design, resource allocation and workflow processes.
A Just Economy? Unifying and Dividing the Islamic Intellectual Field in Neoliberal Turkey
Authors: Zencirci Gizem 
Published: July 2021

Abstract
In this paper, I argue that the relationship between religion and neoliberalism in non-Western contexts cannot be understood without paying attention to the contested, dynamic, and fluid production of local knowledge. In order to substantiate this argument, I trace debates about development, equality, class, labor, and wealth that circulate in the Islamic intellectual field in Turkey. Specifically, I analyze the viewpoints of three contemporary Turkish Muslim intellectuals who make different claims about Islam’s economic teachings. Mustafa Özel proposes “entrepreneurial Islam” as an alternative to state-regulated capitalism, Ihsan Eliaçık argues that “social Islam” ordains Muslims to redistribute wealth, whereas Lütfi Bergen suggests that “pastoral Islam” precedes Western capitalist modernity. I find that the disputed notion of a just economy is what unifies and divides this intellectual field as a constitutive question that is disagreed upon. This article thus calls for a recognition of the contingency, multiplicity, and indeterminacy of Islamic-neoliberal assemblages.
Computational analysis of the nonlinear vibrational behavior of perforated plates with initial imperfection using NURBS-based isogeometric approach
Authors: VeisiAra Abdollah , Mohammad-Sedighi Hamid , Reza Arash 
Published: July 2021

Abstract
In this article, an isogeometric analysis through NURBS basis functions is presented to study the nonlinear vibrational behavior of perforated plates with initial imperfection. In this regard, the governing equations of plate dynamics, as well as the displacement–strain relations, are derived using the Mindlin–Reissner plate theory by considering von Karman nonlinearity. The geometry of the structure is formed by selecting the order of NURBS basis functions and the number of control points according to the physics of the problem. Since similar basis functions are utilized to estimate the accurate geometry and displacement field of the domain, the order of the basic functions and the number of control points are optimized for the proper approximation of the unknown field variables. By utilizing the energy approach and Hamilton principle and discretizing the equations of motion, the vibrational response of the perforated imperfect plate is extracted through an eigenvalue problem. The results of linear vibrations, geometrically nonlinear vibrations, and nonlinear vibrations of imperfect plates are separately validated by considering the previously reported findings, which shows a satisfactory agreement. Thereafter, a coefficient of the first mode shape is considered as the initial imperfection and the vibrational analysis is reexamined. Furthermore, the nonlinear vibrations of the perforated plate with initial imperfection are analysed using an iterative approach. The effects of the perforated hole, initial imperfection, and geometric nonlinearity are also addressed and discussed.