bluuebunny/crossref_metadata_2025_split huggingface dataset:
Explainable artificial intelligence (XAI) for exploring spatial variability of lung and bronchus cancer (LBC) mortality rates in the contiguous USA
Authors: Ahmed Zia U. , Sun Kang , Shelly Michael , Mu Lina 
Published: December 2021

AbstractMachine learning (ML) has demonstrated promise in predicting mortality; however, understanding spatial variation in risk factor contributions to mortality rate requires explainability. We applied explainable artificial intelligence (XAI) on a stack-ensemble machine learning model framework to explore and visualize the spatial distribution of the contributions of known risk factors to lung and bronchus cancer (LBC) mortality rates in the conterminous United States. We used five base-learners—generalized linear model (GLM), random forest (RF), Gradient boosting machine (GBM), extreme Gradient boosting machine (XGBoost), and Deep Neural Network (DNN) for developing stack-ensemble models. Then we applied several model-agnostic approaches to interpret and visualize the stack ensemble model's output in global and local scales (at the county level). The stack ensemble generally performs better than all the base learners and three spatial regression models. A permutation-based feature importance technique ranked smoking prevalence as the most important predictor, followed by poverty and elevation. However, the impact of these risk factors on LBC mortality rates varies spatially. This is the first study to use ensemble machine learning with explainable algorithms to explore and visualize the spatial heterogeneity of the relationships between LBC mortality and risk factors in the contiguous USA.
Effects of seaweed extracts on in vitro rumen fermentation characteristics, methane production, and microbial abundance
Authors: Choi Youyoung , Lee Shin Ja , Kim Hyun Sang , Eom Jun Sik , Jo Seong Uk , Guan Le Luo , Seo Jakyeom , Kim Hanbeen , Lee Sang Suk , Lee Sung Sill 
Published: December 2021

AbstractSeveral seaweed extracts have been reported to have potential antimethanogenic effects in ruminants. In this study, the effect of three brown seaweed species (Undaria pinnatifida, UPIN; Sargassum fusiforme, SFUS; and Sargassum fulvellum, SFUL) on rumen fermentation characteristics, total gas, methane (CH4), carbon dioxide (CO2) production, and microbial populations were investigated using an in vitro batch culture system. Seaweed extract and its metabolites, total flavonoid and polyphenol contents were identified and compared. For the in vitro batch, 0.25 mg∙mL−1 of each seaweed extract were used in 6, 12, 24, 36 and 48 h of incubation. Seaweed extract supplementation decreased CH4 yield and its proportion to total gas production after 12, 24, and 48 h of incubation, while total gas production were not significantly different. Total volatile fatty acid and molar proportion of propionate increased with SFUS and SFUL supplementation after 24 h of incubation, whereas UPIN was not affected. Additionally, SFUS increased the absolute abundance of total bacteria, ciliate protozoa, fungi, methanogenic archaea, and Fibrobacter succinogenes. The relative proportions of Butyrivibrio fibrisolvens, Butyrivibrio proteoclasticus, and Prevotella ruminicola were lower with seaweed extract supplementation, whereas Anaerovibrio lipolytica increased. Thus, seaweed extracts can decrease CH4 production, and alter the abundance of rumen microbial populations.
Systematic review and meta-analysis of modified facelift incision versus modified Blair incision in parotidectomy
Authors: Lee Yi-Chan , Liao Wei-Chih , Yang Shih-Wei , Luo Cheng-Ming , Tsai Yao-Te , Tsai Ming-Shao , Lee Yi-Hsuan , Hsin Li-Jen 
Published: December 2021

AbstractSurgical removal is the treatment of choice for many neoplasms of the parotid gland. This meta-analysis aimed to evaluate the differences between parotidectomy using a modified facelift incision (MFI) and parotidectomy using a modified Blair incision (MBI). A systematic search of the available literature in PubMed, Embase and the Cochrane Library was performed. Studies of adult patients who underwent open parotidectomy with presumed benign parotid neoplasms based on preoperative examinations were reviewed. The surgical outcomes of the MFI and MBI groups were collected. Intraoperative and postoperative parameters, including operative time, tumor size, cosmetic satisfaction, and incidences of facial palsy, Frey’s syndrome and salivary complications, were compared. Dichotomous data and continuous data were analyzed by calculating the risk difference (RD) and the mean difference (MD) with the 95% confidence interval (CI), respectively. Seven studies were included in the final analysis. The pooled analysis demonstrated that the cosmetic satisfaction score was significantly higher in the MFI group (MD = 1.66; 95% CI 0.87–2.46). The operative duration in the MFI group was significantly longer than that in the MBI group (MD = 0.07; 95% CI 0.00–0.14). The MFI group exhibited a smaller tumor size (MD = − 2.27; 95% CI − 4.25 to − 0.30) and a lower incidence of Frey’s syndrome (RD = − 0.18; 95% CI − 0.27 to − 0.10). The incidence of postoperative temporary facial palsy (RD = − 0.05; 95% CI − 0.12 to 0.03), permanent facial palsy (RD = − 0.01; 95% CI − 0.06 to 0.03) and salivary complications (RD = − 0.00; 95% CI − 0.05 to 0.05) was comparable between the two groups. Based on these results, MFI may be a feasible technique for improving the cosmetic results of patients who need parotidectomy when oncological safety can be ensured.
Bioengineering the ameloblastoma tumour to study its effect on bone nodule formation
Authors: Bakkalci Deniz , Jay Amrita , Rezaei Azadeh , Howard Christopher A. , Haugen Håvard Jostein , Pape Judith , Kishida Shosei , Kishida Michiko , Jell Gavin , Arnett Timothy R. , Fedele Stefano , Cheema Umber 
Published: December 2021

AbstractAmeloblastoma is a benign, epithelial cancer of the jawbone, which causes bone resorption and disfigurement to patients affected. The interaction of ameloblastoma with its tumour stroma drives invasion and progression. We used stiff collagen matrices to engineer active bone forming stroma, to probe the interaction of ameloblastoma with its native tumour bone microenvironment. This bone-stroma was assessed by nano-CT, transmission electron microscopy (TEM), Raman spectroscopy and gene analysis. Furthermore, we investigated gene correlation between bone forming 3D bone stroma and ameloblastoma introduced 3D bone stroma. Ameloblastoma cells increased expression of MMP-2 and -9 and RANK temporally in 3D compared to 2D. Our 3D biomimetic model formed bone nodules of an average surface area of 0.1 mm2 and average height of 92.37 $$\pm $$
±
7.96 μm over 21 days. We demonstrate a woven bone phenotype with distinct mineral and matrix components and increased expression of bone formation genes in our engineered bone. Introducing ameloblastoma to the bone stroma, completely inhibited bone formation, in a spatially specific manner. Multivariate gene analysis showed that ameloblastoma cells downregulate bone formation genes such as RUNX2. Through the development of a comprehensive bone stroma, we show that an ameloblastoma tumour mass prevents osteoblasts from forming new bone nodules and severely restricted the growth of existing bone nodules. We have identified potential pathways for this inhibition. More critically, we present novel findings on the interaction of stromal osteoblasts with ameloblastoma.
Thyroid hormone receptor alpha sumoylation modulates white adipose tissue stores
Authors: Liu Yan-Yun , Jiang Jingjing , Ke Sujie , Milanesi Anna , Abe Kiyomi , Gastelum Gilberto , Li Jianrong , Brent Gregory A. 
Published: December 2021

AbstractThyroid hormone (TH) and thyroid hormone receptor (THR) regulate stem cell proliferation and differentiation during development, as well as during tissue renewal and repair in the adult. THR undergoes posttranslational modification by small ubiquitin-like modifier (SUMO). We generated the THRA (K283Q/K288R)−/− mouse model for in vivo studies and used human primary preadipocytes expressing the THRA sumoylation mutant (K283R/K288R) and isolated preadipocytes from mutant mice for in vitro studies. THRA mutant mice had reduced white adipose stores and reduced adipocyte cell diameter on a chow diet, compared to wild-type, and these differences were further enhanced after a high fat diet. Reduced preadipocyte proliferation in mutant mice, compared to wt, was shown after in vivo labeling of preadipocytes with EdU and in preadipocytes isolated from mice fat stores and studied in vitro. Mice with the desumoylated THRA had disruptions in cell cycle G1/S transition and this was associated with a reduction in the availability of cyclin D2 and cyclin-dependent kinase 2. The genes coding for cyclin D1, cyclin D2, cyclin-dependent kinase 2 and Culin3 are stimulated by cAMP Response Element Binding Protein (CREB) and contain CREB Response Elements (CREs) in their regulatory regions. We demonstrate, by Chromatin Immunoprecipitation (ChIP) assay, that in mice with the THRA K283Q/K288R mutant there was reduced CREB binding to the CRE. Mice with a THRA sumoylation mutant had reduced fat stores on chow and high fat diets and reduced adipocyte diameter.
Predicting the individual probability of macular hole closure following intravitreal ocriplasmin injections for vitreomacular traction release using baseline characteristics
Authors: Bertelmann Thomas , Berndzen Lars , Raber Thomas , Pfeiffer Sebastian , Leha Andreas , Paul Christoph , Feltgen Nicolas , Bemme Sebastian 
Published: December 2021

AbstractThe primary objective was to create and establish a new formula that predicts the individual probability of macular hole closure for eyes with full thickness macular holes (FTMH) accompanied by vitreomacular traction (VMT) which received enzymatic vitreolysis using intravitreally administered ocriplasmin. The secondary objective was to evaluate the forecast reliability of a previously published formula for VMT resolution in VMT-only eyes (OddsIVO-Success = eIntercept × ORyears × ORln(µm); ProbabilityIVO-Success = OddsIVO-Success/(OddsIVO-Success + 1)) on VMT resolution using the current dataset of eyes with FTMH accompanied by VMT. Retrospective analysis of the OASIS, ORBIT, and INJECT-studies. Patients with FTMH and VMT with complete information (n = 213) were included. The effect of gender, age, FTMH diameter, lens status and the presence of epiretinal membranes (ERM) on FTMH closure was assessed using separate univariate logistic regression analyses. With regard to VMT release separate univariate regression analyses were carried out and results were compared with formerly published data of VMT resolution in eyes with VMT only. Overall, 126 eyes (63%) experienced VMT resolution within 28 days. Younger age (p < 0.0001) and VMT diameter (p = 0.041) had a significant impact on VMT release. Overall, 81 eyes (38%) treated with ocriplasmin showed FTMH closure within 28 days. Univariate analysis of the different predictors analyzed revealed that FTMH diameter < 250 µm had a significant impact on treatment success (p = 0.0495). It was not possible to calculate and establish a new multivariate formula that can predict the individual FTMH closure probability for eyes with FTMHs and VMT. However, the results of VMT release prediction in eyes with FTMHs accompanied by VMT matched the prediction of VMT release in eyes with VMT only when using the previously published formula. All in all, predictors for calculating the individual probability of VMT resolution on the one hand and FTMH closure on the other hand are different suggesting diverse pathophysiological mechanisms.
Correlation of P-wave velocity with mechanical and physical properties of limestone with statistical analysis
Authors: Arman Hasan 
Published: December 2021

AbstractThis study aims to investigate the correlation between the P-wave velocity (Vp) and the mechanical and the physical properties of the limestone; Vp tests were conducted on over 320 limestone samples. Moreover, the effects of the mineralogical, textural, and chemical composition of limestone were also studied through thin sections, scanning electron microscopy (SEM), X-ray diffraction (XRD), and X-ray fluorescence (XRF). The relationships between the Vp and the uniaxial compressive strength (UCS), point load index (PLI(Is(50)), 2nd cycle of slake durability index (Id2), natural unit weight (γn), specific gravity (Gs(c)), water absorption by weight (WA), and porosity (n) were estimated using representative empirical equations. The empirical equations were validated by Student’s t test that has indicated the existence of strong relationships between the mechanical and physical properties of the intact limestone with Vp; the calculated t-values were higher than the t-critical value. Furthermore, the results of previously available studies were compared with the results of this study in terms of the generated equations for Vp values and the slope of a 1:1 line, which was used to appraise the predicted and measured values. This study demonstrates that the UCS, PLI(Is(50)), Id2, γn, Gs(c), WA, and n values of an intact limestone can be predicted by using Vp, which is fast, easy, economical and nondestructive test.
Potential improvements of the cognition of piglets through a synbiotic supplementation from 1 to 28 days via the gut microbiota
Authors: Parois Severine P. , Eicher Susan D. , Lindemann Stephen R. , Marchant Jeremy N. 
Published: December 2021

AbstractThe influence of feed supplements on behavior and memory has been recently studied in livestock. The objectives of the study were to evaluate the effects of a synbiotic on: an episodic-like (SOR: Spontaneous Object Recognition), a working (BARR: Fence barrier task), a long-term (TMAZE: Spatial T-maze task) memory test and on gut microbiota composition. Eighteen female piglets were supplemented from 1 to 28 days of age with a synbiotic (SYN), while 17 served as control (CTL). Feces were collected on days 16, 33 and 41 for 16S rRNA gene composition analyses. In the SOR, SYN piglets interacted more quickly with the novel object than CTL piglets. In the BARR, SYN piglets had shorter distances to finish the test in trial 3. In the TMAZE, SYN piglets were quicker to succeed on specific days and tended to try the new rewarded arm earlier during the reversal stage. Difference of microbiota composition between treatments was nonexistent on D16, a tendency on D33 and significant on D41. The synbiotic supplement may confer memory advantages in different cognitive tasks, regardless of the nature of the reward and the memory request. Difference in memory abilities can potentially be explained by differences in microbiota composition.
Flexible mechanical metamaterials enabling soft tactile sensors with multiple sensitivities at multiple force sensing ranges
Authors: Mohammadi Alireza , Tan Ying , Choong Peter , Oetomo Denny 
Published: December 2021

AbstractThe majority of existing tactile sensors are designed to measure a particular range of force with a fixed sensitivity. However, some applications require tactile sensors with multiple task-relevant sensitivities at multiple ranges of force sensing. Inspired by the human tactile sensing capability, this paper proposes a novel soft tactile sensor based on mechanical metamaterials which exhibits multiple sensitivity regimes due to the step-by-step locking behaviour of its heterogenous multi-layered structure. By tuning the geometrical design parameters of the collapsible layers, each layer experiences locking behaviour under different ranges of force which provides different sensitivity of the sensor at different force magnitude. The integration of a magnetic-based transduction method with the proposed structure results in high design degrees of freedom for realising the desired contact force sensitivities and corresponding force sensing ranges. A systematic design procedure is proposed to select appropriate design parameters to produce the desired characteristics. Two example designs of the sensor structure were fabricated using widely available benchtop 3D printers and tested for their performance. The results showed the capability of the sensor in providing the desired characteristics in terms of sensitivity and force range and being realised in different shapes, sizes and number of layers in a single structure. The proposed multi-sensitivity soft tactile sensor has a great potential to be used in a wide variety of applications where different sensitivities of force measurement is required at different ranges of force magnitudes, from robotic manipulation and human–machine interaction to biomedical engineering and health-monitoring.
Mathematical model for predicting oxygen concentration in tilapia fish farms
Authors: Khater El-Sayed , Bahnasawy Adel , El-Ghobashy Hossam , Shaban Yousry , Elsheikh Faisal , El-Reheem Solaf Abd , aboegela Mohamed 
Published: December 2021

AbstractThe main aim of this research is to develop a mathematical model to predict the dissolved oxygen in recirculating aquaculture system. The oxygen consumption of the model through the fish respiration and nitrification and the oxygen addition of the model through oxygen generator and water pumping. The effect of different water temperatures (24, 26, 28, 30 and 32 °C) on the dissolved oxygen consumption through fish respiration, biofilter and nitrification and fish growth were studied. An experiment to measure oxygen consumed by fish respiration and biofilteration and fish growth with the growth period and to validate the model results was carried out. The oxygen consumption predicted by the model was in a good agreement with those measured by the system. The oxygen consumption by fish respiration ranged 12.04 to 47.53 g O2 m−3 h−1 experimentally, while it was from 12.01 to 46.06 g O2 m−3 h−1 theoretically. The predicted and measured oxygen consumption through biofilteration values ranged from 0.43 to 21.91 and 0.45 to 23.09 g O2 m−3 h−1, respectively. The individual fish weight from the system ranged from 3.00 to 209.52 g experimentally while it was from 3.00 to 226.25 g theoretically during the whole period.
Sedimentary DNA and molecular evidence for early human occupation of the Faroe Islands
Authors: Curtin Lorelei , D’Andrea William J. , Balascio Nicholas L. , Shirazi Sabrina , Shapiro Beth , de Wet Gregory A. , Bradley Raymond S. , Bakke Jostein 
Published: December 2021

AbstractThe Faroe Islands, a North Atlantic archipelago between Norway and Iceland, were settled by Viking explorers in the mid-9th century CE. However, several indirect lines of evidence suggest earlier occupation of the Faroes by people from the British Isles. Here, we present sedimentary ancient DNA and molecular fecal biomarker evidence from a lake sediment core proximal to a prominent archaeological site in the Faroe Islands to establish the earliest date for the arrival of people in the watershed. Our results reveal an increase in fecal biomarker concentrations and the first appearance of sheep DNA at 500 CE (95% confidence interval 370-610 CE), pre-dating Norse settlements by 300 years. Sedimentary plant DNA indicates an increase in grasses and the disappearance of woody plants, likely due to livestock grazing. This provides unequivocal evidence for human arrival and livestock disturbance in the Faroe Islands centuries before Viking settlement in the 9th century.
Slow-down in summer warming over Greenland in the past decade linked to central Pacific El Niño
Authors: Matsumura Shinji , Yamazaki Koji , Suzuki Kazuyoshi 
Published: December 2021

AbstractGreenland warming and ice loss have slowed down since the early 2010s, in contrast to the rest of the Arctic region. Both natural variability and anthropogenic forcing contribute to recent Greenland warming by reducing cloud cover and surface albedo, yet most climate models are unable to reasonably simulate the unforced natural variability. Here we show that a simplified atmospheric circulation model successfully simulates an atmospheric teleconnection from the tropics towards Greenland, which accounts for Greenland cooling through an intensified cyclonic circulation. Synthesis from observational analysis and model experiments indicate that over the last decade, more central Pacific El Niño events than canonical El Niño events have generated the atmospheric teleconnection by shifting the tropical rainfall zone poleward, which led to an intensified cyclonic circulation over Greenland. The intensified cyclonic circulation further extends into the Arctic Ocean in observations, whereas the model does not show a direct remote forcing from the tropics, implying the contribution of an indirect atmospheric forcing. We conclude that the frequent occurrence of central Pacific El Niño events has played a key role in the slow-down of Greenland warming and possibly Arctic sea-ice loss.
A dual evaluation multi‐scale template matching algorithm based on wavelet transform
Authors: Zhu Xicheng , Hu Xiao , Li Dongyuan , Peng Shaohu 
Published: December 2021

AbstractIt is difficult to achieve the requirements simultaneously of real‐time operation and accuracy when the template matching method encounters the problems of rotation and scale invariance. This letter proposes a dual‐evaluation multiscale template‐matching algorithm based on wavelet transform. First, the image grids generated from a strengthened edge image based on the wavelet transform are defined to reduce the region for detecting feature points. Then, an evaluation strategy based on gradient direction entropy is proposed to evaluate the local pixel for detecting local candidate points that contain rich information. Another evaluation strategy, based on the dominant gradient direction and the uniform LBP model, has been proposed to extract rotation‐invariant feature pixels. To conduct fast and robust matching, the proposed strategies extract fewer feature points with rich local information. The experimental results demonstrate that the proposed method is robust to rotation and scale invariance and achieves real‐time accuracy.
An improved dark channel defogging algorithm based on the HSI colour space
Authors: Cui Yani , Zhi Shuaiqing , Liu Wenjin , Deng Jiaxian , Ren Jia 
Published: December 2021

AbstractWhen the traditional dark channel prior (DCP) algorithm is used for image defogging, it faces some problems such as unsatisfactory restoration of the target edge details, distortion in large‐scale and high‐brightness sky regions. To solve these problems, this paper proposes an improved dark channel defogging algorithm based on the HSI colour space, named the IDCP algorithm. First, an asymmetric mean filter window is used to obtain the modified dark channel image to improve the grey value mutation in the traditional dark channel image. Based on this work, an improved global atmospheric transmittance calculation method is proposed, which effectively improves the inapplicability of the dark channel prior in large‐scale and high‐brightness sky regions. Finally, the Laplacian operator is used to sharpen the image to enhance the target edge information. Simulation results show that the proposed algorithm can effectively solve the distortion phenomenon caused by the traditional DCP algorithm when handling large‐scale and high‐brightness sky regions, improve the target edge details, and restore the true colour of the image scene.