bluuebunny/crossref_metadata_2025_split huggingface dataset:
Theoretical substitutions between dairy products and all-cause and cause-specific mortality. Results from the Danish diet, cancer and health cohort
Authors: Laursen Anne Sofie D. , Thomsen Anne L. , Beck Anne , Overvad Kim , Jakobsen Marianne U. 
Published: July 2021

AbstractA daily intake of dairy products is recommended in many countries in order to maintain optimal health throughout life. However, evidence regarding the association between intake of individual dairy products and mortality is limited. We therfore, explored associations between intake of different dairy products and all-cause and cause-specific mortality using specified theoretical substitution analyses. We analysed data from 55 775 Danish men and women aged 50–64 years between 1993 and 1997. Information about dairy product intake at baseline was collected using a validated food frequency questionnaire. Information about vital status and causes of death was obtained through national registers. Measures of associations were calculated using Cox proportional hazards regression. During a median follow-up of 19·0 years, 11 586 participants died. For all-cause mortality, we observed that the intake of low-fat milk, whole-fat milk or low-fat yogurt products in place of cheese was associated with a higher rate of death (hazard ratios between 1·03 and 1·12 per serving/d substituted). The same pattern was present for CVD mortality. For cancer mortality, whole-fat milk and low-fat yogurt products in place of cheese were also associated with a higher rate of death for men while for women, whole-fat milk in place of buttermilk was associated with a higher cancer mortality rate. The results appeared robust in several sensitivity analyses. Our results suggest that intake of low-fat milk, whole-fat milk or low-fat yogurt products in place of cheese is associated with a higher rate of all-cause and cause-specific mortality.
Personal Information as Symmetry Breaker in Disagreements
Authors: Machuca Diego E. 
Published: July 2021

AbstractWhen involved in a disagreement, a common reaction is to tell oneself that, given that the information about one's own epistemic standing is clearly superior in both amount and quality to the information about one's opponent's epistemic standing, one is justified in one's confidence that one's view is correct. In line with this natural reaction to disagreement, some contributors to the debate on its epistemic significance have claimed that one can stick to one's guns by relying in part on information about one's first-order evidence and the functioning of one's cognitive capacities. In this article, I argue that such a manoeuvre to settle controversies encounters the problem that both disputants can make use of it, the problem that one may be wrong about one's current conscious experience, and the problem that it is a live possibility that many of one's beliefs are the product of epistemically distorting factors. I also argue that, even if we grant that personal information is reliable, when it comes to real-life rather than idealized disagreements, the extent of the unpossessed information about one's opponent's epistemic standing provides a reason for doubting that personal information can function as a symmetry breaker.
Exploring the plant environmental DNA diversity in soil from two sites on Deception Island (Antarctica, South Shetland Islands) using metabarcoding
Authors: Carvalho-Silva Micheline , Rosa Luiz Henrique , Pinto Otávio H.B. , Da Silva Thamar Holanda , Henriques Diego Knop , Convey Peter , Câmara Paulo E.A.S. 
Published: July 2021

AbstractThe few Antarctic studies to date to have applied metabarcoding in Antarctica have primarily focused on microorganisms. In this study, for the first time, we apply high-throughput sequencing of environmental DNA to investigate the diversity of Embryophyta (Viridiplantae) DNA present in soil samples from two contrasting locations on Deception Island. The first was a relatively undisturbed site within an Antarctic Specially Protected Area at Crater Lake, and the second was a heavily human-impacted site in Whalers Bay. In samples obtained at Crater Lake, 84% of DNA reads represented fungi, 14% represented Chlorophyta and 2% represented Streptophyta, while at Whalers Bay, 79% of reads represented fungi, 20% represented Chlorophyta and < 1% represented Streptophyta, with ~1% of reads being unassigned. Among the Embryophyta we found 16 plant operational taxonomic units from three Divisions, including one Marchantiophyta, eight Bryophyta and seven Magnoliophyta. Sequences of six taxa were detected at both sampling sites, eight only at Whalers Bay and two only at Crater Lake. All of the Magnoliophyta sequences (flowering plants) represent species that are exotic to Antarctica, with most being plausibly linked to human food sources originating from local national research operator and tourism facilities.
Investigation of 10-port coupled fed slotted MIMO antenna system for 5G mobile handset
Authors: Kumar D. Rajesh , Babu G. Venkat , Narayan K.G. Sujanth , Raju N. 
Published: July 2021

AbstractA dual-band 10-port multiple input multiple output (MIMO) antenna array for 5G smartphone is proposed. Each antenna in the MIMO system can work from 3.4 to 3.6 GHz and 5 to 6 GHz with 10 dB (2:1 VSWR) impedance bandwidth. Nevertheless, for a 3:1 VSWR, the antenna operates from 3.3 to 3.8 GHz and 4.67 to 6.24 GHz. The MIMO system is formed by making 10 seven-shaped coupled fed slot antenna elements excited at two different resonant modes and integrated into the system circuit board. By implementing the spatial and polarization diversity techniques, high isolation better than 28 dB between any pair of antenna elements is achieved. The proposed 10-port MIMO antenna array is fabricated and measured. Significant radiation efficiency is obtained, ranging from 65 to 82% for both bands. The antenna gain in the required operating band is substantial, around 3–3.8 dBi. Further, the MIMO parameters such as envelope correlation co-efficient, channel capacity, and total active reflection co-efficient are calculated. The antenna's robustness is estimated by analyzing the user hand effects and specific absorption rate (SAR). The measured results are well agreed with the simulated results.
The Utrecht-Management of Identity Commitments Scale (U-MICS)
Authors: Sorgente Angela , Iannello Nicolò M. , Musso Pasquale , Inguglia Cristiano , Lanz Margherita , Antonietti Alessandro , Villani Daniela 
Published: July 2021

Abstract. The current study proposed the adaptation of the Utrecht-Management of Identity Commitments Scale (U-MICS) to the religious domain as an instrument to measure both individuals’ religious identity formation processes (when a variable-centered approach is adopted) and religious identity statuses (when a person-centered approach is adopted). The scale has been tested on a sample of 727 Italian participants aged 13–65 years, by collecting evidence of score structure, convergent, and criterion-related validity. Regarding the score structure validity, we confirmed that religious identity formation consists of three processes (commitment, in-depth exploration, reconsideration of commitment) and that, by using these scores, individuals can be placed into five different religious identity clusters (achievement, diffusion, foreclosure, moratorium, searching moratorium). As to the convergent and criterion-related validity, we tested the relationship that the three factors (religious identity formation processes) and the five clusters (religious identity statuses) have with religiousness and subjective well-being, respectively. Results indicate that the instrument is a promising tool to measure religious identity. Future studies should test this scale in other countries and with people from diverse religious traditions.
A New Depositional Framework for Massive Iron Formations After the Great Oxidation Event
Authors: Eyster Athena , Brengman Latisha A. , Nichols Claire I. O. , Levitt Zoe , Wilcots Julia , Bergmann Kristin D. 
Published: July 2021

AbstractThe oldest recognized proxies for low atmospheric oxygen are massive iron‐rich deposits. Following the rise of oxygen ∼2.4 billion years ago (Ga), massive iron formations (IFs) largely disappear from the geologic record, only to reappear in a pulse ∼1.88 Ga, which has been attributed to sea‐level transgressions, changing ocean chemistry triggered by intense volcanism, or lowered atmospheric oxygen levels. The North American Gogebic Range is one of the rare records of this pulse and even more uniquely has exposures of both volcanics and IF, providing an ideal field locality to investigate triggers for this pulse of IF. To determine the environmental context and key factors driving IF deposition after the initial rise in oxygen, we made detailed observations of the stratigraphy and facies relationships and present updated mapping relationships of the Gogebic Range Ironwood Iron Formation and the Emperor Volcanics. This work expands existing mine datasets and logs to constrain variations in stratigraphy. Our results are the first to quantitatively constrain thickness variations along the entire Gogebic Range and tie them to syn‐sedimentary faulting along listric normal faults and half grabens. Furthermore, our dataset suggests that initiation of intense syn‐basinal volcanism linked to a large igneous province does not coincide with initial iron deposition, thus cannot be invoked as a causal trigger. Finally, the possibility of iron deposition in a shallow‐water environment suggests that the post‐GOE IF pulse may not reflect global marine transgressions, but instead a chemocline shallowing due to changing global atmospheric oxygen.
Sensitivity of Water Balance in the Qaidam Basin to the Mid‐Pliocene Climate
Authors: Wang Xun , Schmidt Benjamin , Otto Marco , Ehlers Todd A. , Mutz Sebastian G. , Botsyun Svetlana , Scherer Dieter 
Published: July 2021

AbstractThe Qaidam Basin (QB) in the northeastern Tibetan Plateau held a megalake system during the Pliocene. Today, the lower elevations in the basin are hyperarid. To understand to what extent the climate plays a role in the maintenance of the megalake system during the Pliocene, we applied the Weather Research and Forecasting model for dynamical downscaling of ECHAM5 global climate simulations for the present day and the mid‐Pliocene. When imposing the mid‐Pliocene climate on the QB with its modern land surface settings, the annual water balance (), that is, the change in terrestrial water storage within the QB, increases. This positive imbalance ofinduced solely by the changes in the large‐scale climate state would lead to a readjustment of lake extent, until a new equilibrium state is reached, where loss due to evaporation over lake areas compensates for the input by runoff and precipitation. Atmospheric water transport (AWT) analysis at each border of the QB reveals that this imbalance ofis caused by stronger moisture influx across the western border in winter, spring, and autumn and weaker moisture out‐flux across the eastern border in summer. These changes in AWT are associated with the strengthening of the midlatitude westerlies in all seasons, except for summer, and the intensification of the East Asian Summer Monsoon. Given that the mid‐Pliocene climate is an analog to the projected warm climate of the near future, our study contributes to a better understanding of climate change impacts in central Asia.
Observational Evidence of the Excitation of Magnetosonic Waves by an He++ Ion Ring Distribution
Authors: Claudepierre S. G. , Liu X. , Chen L. , Takahashi K. 
Published: July 2021

AbstractWe report plasma wave observations of equatorial magnetosonic waves at integer harmonics of the local gyrofrequency of doubly ionized helium (). The waves were observed by Van Allen Probe A on 08 Feb 2014 when the spacecraft was in the afternoon magnetic local time sector near inside of the plasmasphere. Analysis of the complementary in‐situ energetic ion measurements (1–300 keV) reveals the presence of a helium ion ring distribution centered near 30 keV. Theoretical linear growth rate calculations suggest that the local plasma and field conditions can support the excitation of the magnetosonic waves from the unstable ring distribution. This represents the first report of the generation of magnetosonic equatorial noise via a ring distribution in energetic ions in the near‐Earth space plasma environment.
Soil Thermophysical Properties Near the InSight Lander Derived From 50 Sols of Radiometer Measurements
Authors: Piqueux Sylvain , Müller Nils , Grott Matthias , Siegler Matthew , Millour Ehouarn , Forget Francois , Lemmon Mark , Golombek Matthew , Williams Nathan , Grant John , Warner Nicholas , Ansan Veronique , Daubar Ingrid , Knollenberg Jörg , Maki Justin , Spiga Aymeric , Banfield Don , Spohn Tilman , Smrekar Susan , Banerdt Bruce 
Published: July 2021

AbstractMeasurements from the InSight lander radiometer acquired after landing are used to characterize the thermophysical properties of the Martian soil in Homestead hollow. This data set is unique as it stems from a high measurement cadence fixed platform studying a simple well‐characterized surface, and it benefits from the environmental characterization provided by other instruments. We focus on observations acquired before the arrival of a regional dust storm (near Sol 50), on the furthest observed patch of soil (i.e., ∼3.5 m away from the edge of the lander deck) where temperatures are least impacted by the presence of the lander and where the soil has been least disrupted during landing. Diurnal temperature cycles are fit using a homogenous soil configuration with a thermal inertia of 183 ± 25 J m−2 K−1 s−1/2and an albedo of 0.16, corresponding to very fine to fine sand with the vast majority of particles smaller than 140 μm. A pre‐landing assessment leveraging orbital thermal infrared data is consistent with these results, but our analysis of the full diurnal temperature cycle acquired from the ground further indicates that near surface layers with different thermophysical properties must be thin (i.e., typically within the top few mm) and deep layering with different thermophysical properties must be at least below ∼4 cm. The low thermal inertia value indicates limited soil cementation within the upper one or two skin depths (i.e., ∼4–8 cm and more), with cement volumes <<1%, which is challenging to reconcile with visible images of overhangs in pits.
Novel Antarctic yeast adapts to cold by switching energy metabolism and increasing small RNA synthesis
Authors: Touchette D , Altshuler I , Gostinčar C , Zalar P , Raymond-Bouchard I , Zajc J , McKay C P , Gunde-Cimerman N , Whyte L G 
Published: July 2021

Abstract
The novel extremophilic yeast Rhodotorula frigidialcoholis, formerly R. JG1b, was isolated from ice-cemented permafrost in University Valley (Antarctic), one of coldest and driest environments on Earth. Phenotypic and phylogenetic analyses classified R. frigidialcoholis as a novel species. To characterize its cold-adaptive strategies, we performed mRNA and sRNA transcriptomic analyses, phenotypic profiling, and assessed ethanol production at 0 and 23 °C. Downregulation of the ETC and citrate cycle genes, overexpression of fermentation and pentose phosphate pathways genes, growth without reduction of tetrazolium dye, and our discovery of ethanol production at 0 °C indicate that R. frigidialcoholis induces a metabolic switch from respiration to ethanol fermentation as adaptation in Antarctic permafrost. This is the first report of microbial ethanol fermentation utilized as the major energy pathway in response to cold and the coldest temperature reported for natural ethanol production. R. frigidialcoholis increased its diversity and abundance of sRNAs when grown at 0 versus 23 °C. This was consistent with increase in transcription of Dicer, a key protein for sRNA processing. Our results strongly imply that post-transcriptional regulation of gene expression and mRNA silencing may be a novel evolutionary fungal adaptation in the cryosphere.
Afatinib induces pro-survival autophagy and increases sensitivity to apoptosis in stem-like HNSCC cells
Authors: Liu Xianfang , Suo Huiyuan , Zhou Shengli , Hou Zhenxing , Bu Mingqiang , Liu Xiuxiu , Xu Wei 
Published: July 2021

AbstractAfatinib, a second-generation tyrosine kinase inhibitor (TKI), exerts its antitumor effects in head and neck squamous cell carcinoma (HNSCC) by inducing intrinsic apoptosis through suppression of mTORC1. However, the detailed mechanism and biological significance of afatinib-induced autophagy in HNSCC remains unclear. In the present study, we demonstrated that afatinib induced mTORC1 suppression-mediated autophagy in HNSCC cells. Further mechanistic investigation revealed that afatinib stimulated REDD1-TSC1 signaling, giving rise to mTORC1 inactivation and subsequent autophagy. Moreover, ROS generation elicited by afatinib was responsible for the induction of the REDD1-TSC1-mTORC1 axis. In addition, pharmacological or genetic inhibition of autophagy sensitized HNSCC cells to afatinib-induced apoptosis, demonstrating that afatinib activated pro-survival autophagy in HNSCC cells. Importantly, in vitro and in vivo assays showed that afatinib caused enhanced apoptosis but weaker autophagy in stem-like HNSCC cells constructed by CDH1 knockdown. This suggested that blocking autophagy has the potential to serve as a promising strategy to target HNSCC stem cells. In conclusion, our findings suggested that the combination treatment with afatinib and autophagy inhibitors has the potential to eradicate HNSCC cells, especially cancer stem cells in clinical therapy.
Highly accurate protein structure prediction for the human proteome
Authors: Tunyasuvunakool Kathryn , Adler Jonas , Wu Zachary , Green Tim , Zielinski Michal , Žídek Augustin , Bridgland Alex , Cowie Andrew , Meyer Clemens , Laydon Agata , Velankar Sameer , Kleywegt Gerard J. , Bateman Alex , Evans Richard , Pritzel Alexander , Figurnov Michael , Ronneberger Olaf , Bates Russ , Kohl Simon A. A. , Potapenko Anna , Ballard Andrew J. , Romera-Paredes Bernardino , Nikolov Stanislav , Jain Rishub , Clancy Ellen , Reiman David , Petersen Stig , Senior Andrew W. , Kavukcuoglu Koray , Birney Ewan , Kohli Pushmeet , Jumper John , Hassabis Demis 
Published: July 2021

AbstractProtein structures can provide invaluable information, both for reasoning about biological processes and for enabling interventions such as structure-based drug development or targeted mutagenesis. After decades of effort, 17% of the total residues in human protein sequences are covered by an experimentally determined structure1. Here we markedly expand the structural coverage of the proteome by applying the state-of-the-art machine learning method, AlphaFold2, at a scale that covers almost the entire human proteome (98.5% of human proteins). The resulting dataset covers 58% of residues with a confident prediction, of which a subset (36% of all residues) have very high confidence. We introduce several metrics developed by building on the AlphaFold model and use them to interpret the dataset, identifying strong multi-domain predictions as well as regions that are likely to be disordered. Finally, we provide some case studies to illustrate how high-quality predictions could be used to generate biological hypotheses. We are making our predictions freely available to the community and anticipate that routine large-scale and high-accuracy structure prediction will become an important tool that will allow new questions to be addressed from a structural perspective.
Phylogenetic analysis of the 5ʹ untranslated region of HCV from cirrhotic patients in Khyber Pakhtunkhwa, Pakistan
Authors: Ullah Amin , Rehman Irshad Ur , Ahmad Jamshaid , Odenthal Margaret , Ahmad Saad , Nadeem Tariq , Ali Qurban , Rizwan Muhammad , Khan Muhammad Ajmal , Hassan Said , Ahsan Hina , Ahmad Bashir 
Published: July 2021

AbstractHepatitis C virus (HCV), a small, single-stranded RNA virus with a 9.6 kb genome, is one of the most common causes of liver diseases. Sequencing of the 5ʹ untranslated region (UTR) is usually used for HCV genotyping, but it is less important in numerous subtypes due to its scarce sequence variations. This study aimed to identify genotypes using the 5ʹ UTR of HCV from cirrhotic patients of Khyber Pakhtunkhwa (KP). Serum RNA samples (44) were screened by real time PCR to determine the HCV viral load. Nested PCR was performed to identify cDNA and the 5ʹ UTR. The HCV 5′ UTR was sequenced using the Sanger method. MEGA-7 software was used to analyze evolutionary relatedness. After 5ʹ UTR sequencing, 26 samples (59%) were identified as genotype 3, and 2 samples (6%) were identified as genotypes 1, 2 and 4. The most predominant genotype was 3a, and genotype 4 was rarely reported in the phylogenetic tree. Analysis of the HCV 5ʹ UTR is an efficient alternative method for confirmation of various genotypes. Phylogenetic analysis showed that genotype 3 was dominant in the area of KP, Pakistan.
Clinically applicable artificial intelligence system for dental diagnosis with CBCT
Authors: Ezhov Matvey , Gusarev Maxim , Golitsyna Maria , Yates Julian M. , Kushnerev Evgeny , Tamimi Dania , Aksoy Secil , Shumilov Eugene , Sanders Alex , Orhan Kaan 
Published: July 2021

AbstractIn this study, a novel AI system based on deep learning methods was evaluated to determine its real-time performance of CBCT imaging diagnosis of anatomical landmarks, pathologies, clinical effectiveness, and safety when used by dentists in a clinical setting. The system consists of 5 modules: ROI-localization-module (segmentation of teeth and jaws), tooth-localization and numeration-module, periodontitis-module, caries-localization-module, and periapical-lesion-localization-module. These modules use CNN based on state-of-the-art architectures. In total, 1346 CBCT scans were used to train the modules. After annotation and model development, the AI system was tested for diagnostic capabilities of the Diagnocat AI system. 24 dentists participated in the clinical evaluation of the system. 30 CBCT scans were examined by two groups of dentists, where one group was aided by Diagnocat and the other was unaided. The results for the overall sensitivity and specificity for aided and unaided groups were calculated as an aggregate of all conditions. The sensitivity values for aided and unaided groups were 0.8537 and 0.7672 while specificity was 0.9672 and 0.9616 respectively. There was a statistically significant difference between the groups (p = 0.032). This study showed that the proposed AI system significantly improved the diagnostic capabilities of dentists.
Long-term effects of malnutrition on severity of COVID-19
Authors: Kurtz Alec , Grant Kenneth , Marano Rachel , Arrieta Antonio , Grant Kenneth , Feaster William , Steele Caroline , Ehwerhemuepha Louis 
Published: July 2021

AbstractThe COVID-19 pandemic is a public health crisis that has the potential to exacerbate worldwide malnutrition. This study examines whether patients with a history of malnutrition are predisposed to severe COVID-19. To do so, data on 103,099 COVID-19 inpatient encounters from 56 hospitals in the United States between March 2020 and June 2020 were retrieved from the Cerner COVID-19 Dataset. Patients with a history of malnutrition between 2015 and 2019 were identified, and a random intercept logistic regression models for pediatric and adult patients were built controlling for patient demographics, socioeconomic status, admission vital signs, and related comorbidities. Statistical interactions between malnutrition and patient age were significant in both the pediatric [log-odds and 95% confidence interval: 0.094 (0.012, 0.175)] and adult [− 0.014 (− 0.021, − 0.006] models. These interactions, together with the main effect terms of malnutrition and age, imply higher odds for severe COVID-19 for children between 6 and 17 years with history of malnutrition. Even higher odds of severe COVID-19 exist for adults (with history of malnutrition) between 18 and 79 years. These results indicate that the long-term effect of malnutrition predisposes patients to severe COVID-19 in an age-dependent way.