bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Aliment to Bodily Condition knowledgebase (ABCkb): A database connecting plants and human health
Authors: Trautman Aaron , Linchangco Richard , Walstead Rachel , Jay Jeremy J , Brouwer Cory 
Published: March 2021

AbstractObjectiveOverconsumption of processed foods has led to an increase in chronic diet-related diseases such obesity and type 2 diabetes. Although diets high in fresh fruits and vegetables are linked with healthier outcomes, the specific mechanisms for these relationships are poorly understood. Experiments examining plant phytochemical production and breeding programs, or separately on the health effects of nutritional supplements have yielded results that are sparse, siloed, and difficult to integrate between the domains of human health and agriculture. To connect plant products to health outcomes through their molecular mechanism an integrated computational resource is necessary.ResultsWe created the Aliment to Bodily Condition Knowledgebase (ABCkb) to connect plants to human health by creating a stepwise path from plant → plant product → human gene → pathways → indication. ABCkb integrates 11 curated sources as well as relationships mined from Medline abstracts by loading into a graph database which is deployed via a Docker container. This new resource, provided in a queryable container with a user-friendly interface connects plant products with human health outcomes for generating nutritive hypotheses. All scripts used are available on github (https://github.com/atrautm1/ABCkb) along with basic directions for building the knowledgebase.
A non-canonical microRNA derived from the snaR-A non-coding RNA targets a metastasis inhibitor
Authors: Stribling Daniel , Lei Yi , Guardia Casey M. , Li Lu , Fields Christopher J. , Nowialis Pawel , Opavsky Rene , Renne Rolf , Xie Mingyi 
Published: March 2021

ABSTRACTMicroRNAs (miRNAs) are small noncoding RNAs that function as critical post-transcriptional regulators in various biological processes. While most miRNAs are generated from processing of long primary transcripts via sequential Drosha and Dicer cleavage, some miRNAs that bypass Drosha cleavage can be transcribed as part of another small non-coding RNA. Here, we develop theTarget-OrientedmiRNADiscovery (TOMiD) bioinformatic analysis method to identify Drosha-independent miRNAs fromArgonautecrosslinkingandsequencing ofhybrids (Ago-CLASH) datasets. Using this technique, we discovered a novel miRNA derived from a primate specific non-coding RNA, the small NF90 associated RNA A (snaR-A). The miRNA derived from snaR-A (miR-snaR) arises independent of Drosha processing, but requires Exportin-5 and Dicer for biogenesis. We identify that miR-snaR is concurrently upregulated with the full snaR-A transcript in cancer cells. Functionally, miR-snaR associates with Ago proteins and targets NME1, a key metastasis inhibitor, contributing to snaR-A’s role in promoting cancer cell migration. Our findings suggest a functional link between a novel miRNA and its precursor non-coding RNA.
A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo
Authors: Hanke Leo , Das Hrishikesh , Sheward Daniel J , Vidakovics Laura Perez , Urgard Egon , Moliner-Morro Ainhoa , Kim Changil , Karl Vivien , Pankow Alec , Smith Natalie L , Porebski Bartlomiej , Fernandez-Capetillo Oscar , Sezgin Erdinc , Pedersen Gabriel K , Coquet Jonathan M , Hällberg B Martin , Murrell Ben , McInerney Gerald M 
Published: March 2021

AbstractAntibodies binding to the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike have therapeutic promise, but emerging variants show the potential for virus escape. This emphasizes the need for therapeutic molecules with distinct and novel neutralization mechanisms. Here we isolated a nanobody that interacts simultaneously with two RBDs from different spike trimers of SARS-CoV-2, rapidly inducing the formation of spike trimer-dimers leading to the loss of their ability to attach to the host cell receptor, ACE2. We show that this nanobody potently neutralizes SARS-CoV-2, including the B.1.351 variant, and cross-neutralizes SARS-CoV. Furthermore, we demonstrate the therapeutic potential of the nanobody against SARS-CoV-2 and the B.1.351 variant in a human ACE2 transgenic mouse model. This naturally elicited bispecific monomeric nanobody establishes a novel strategy for potent inactivation of viral antigens and represents a promising antiviral against emerging SARS-CoV-2 variants.
Within-host evolutionary dynamics of seasonal and pandemic human influenza A viruses in young children
Authors: Han Alvin X. , Garza Zandra C. Felix , Welkers Matthijs R. A. , Vigeveno René M. , Duong Tran Nhu , Quynh Mai Le Thi , Thai Pham Quang , Thoang Dang Dinh , Ngoc Anh Tran Thi , Tuan Ha Manh , Hung Nguyen Thanh , Thinh Le Quoc , Hai Le Thanh , Bich Ngoc Hoang Thi , Chokephaibulkit Kulkanya , Puthavathana Pilaipan , Van Vinh Chau Nguyen , Ngoc Nghiem My , Van Kinh Nguyen , Trinh Dao Tuyet , Hien Tran Tinh , Wertheim Heiman F. L. , Horby Peter , Fox Annette , van Doorn H. Rogier , Eggink Dirk , de Jong Menno D. , Russell Colin A. 
Published: March 2021

AbstractThe evolution of influenza viruses is fundamentally shaped by within-host processes. However, the within-host evolutionary dynamics of influenza viruses remain incompletely understood, in part because most studies have focused on within-host virus diversity of infections in otherwise healthy adults based on single timepoint data. Here, we analysed the within-host evolution of 82 longitudinally-sampled individuals, mostly young children, infected with A/H3N2 or A/H1N1pdm09 viruses between 2007 and 2009. For A/H1N1pdm09 infections during the 2009 pandemic, nonsynonymous changes were common early in infection but decreased or remained constant throughout infection. For A/H3N2 viruses, early infection was dominated by purifying selection. However, as infections progressed, nonsynonymous variants increased in frequencies even though within-host virus titres decreased, leading to the maintenance of virus diversity via mutation-selection balance. Our findings suggest that this maintenance of genetic diversity in these children combined with their longer duration of infection may provide important opportunities for within-host virus evolution.
Transcriptome-wide spatial RNA profiling maps the cellular architecture of the developing human neocortex
Authors: Roberts Kenny , Aivazidis Alexander , Kleshchevnikov Vitalii , Li Tong , Fropf Robin , Rhodes Michael , Beechem Joseph M. , Hemberg Martin , Bayraktar Omer Ali 
Published: March 2021

AbstractSpatial genomic technologies can map gene expression in tissues, but provide limited potential for transcriptome-wide discovery approaches and application to fixed tissue samples. Here, we introduce the GeoMX Whole Transcriptome Atlas (WTA), a new technology for transcriptome-wide spatial profiling of tissues with cellular resolution. WTA significantly expands the Digital Spatial Profiling approach to enablein situhybridisation against 18,190 genes at high-throughput using a sequencing readout. We applied WTA to generate the first spatial transcriptomic map of the fetal human neocortex, validating transcriptome-wide spatial profiling on formalin-fixed tissue material and demonstrating the spatial enrichment of autism gene expression in deep cortical layers. To demonstrate the value of WTA for cell atlasing, we integrated single-cell RNA-sequencing (scRNA-seq) and WTA data to spatially map dozens of neural cell types and showed that WTA can be used to directly measure cell type specific transcriptomesin situ. Moreover, we developed computational tools for background correction of WTA data and accurate integration with scRNA-seq. Our results present WTA as a versatile transcriptome-wide discovery tool for cell atlasing and fixed tissue spatial transcriptomics.
Serious adverse events reported from the COVID-19 vaccines: A descriptive study based on WHO database
Authors: Dutta Siddhartha , Kaur Rimple Jeet , Charan Jaykaran , Bhardwaj Pankaj , Sharma Praveen , Ambwani Sneha , Haque Mainul , Tandon Ankita , Abhayanand Jha Pallavi , Sukhija Sanchi , Suman S V , Misra Sanjeev 
Published: March 2021

AbstractBackgroundIn the light of current pandemic, the emergency approval of few COVID-19 vaccines seems to provide a ray of hope. However, their approval is solely based on limited data available from the clinical trials in a short period of time; thereby imposing a necessity to study the adverse events(AEs) associated with their use. This study therefore aims to assess the Serious Adverse Events (SAEs) associated with various COVID-19 vaccines reported in the WHO database (VigiBase®).MethodsThe data from VigiBase® was analyzed to assess the reported SAEs linked to various COVID-19 vaccines. The duplicates in the data were removed and were analyzed on the basis of age, gender, and seriousness of adverse events at the System Organ Classification (SOC) level and the individual Preferred Term (PT) level.ResultsA total 103954 adverse events reported from 32044 subjects were taken for analysis. Of 32044 subjects, majority were females (80%). Also, a total of 28799 (27.7%) SAEs were reported from the 8007 individuals. Most of the SAEs were observed in Europe (83%) amongst females (79.4%) between 18 to 64 years (80.74%) of age. Majority of SAEs (74%) were reported for BNT162b2 (Pfizer) vaccine. On system wise classification, general disorders (30%) were the commonest followed by nervous system (19.1%) and musculoskeletal (11.2%) disorders. In individual category, headache (8.1%) was the commonest, followed by pyrexia (7%) and fatigue (5.1%). The number of SAEs were reported with various vaccines were comparatively lesser as compared to the non-serious ones and incidence of death was low with all the vaccines candidates. Elderly (> 65 years) people reported more serious AEFIs as compared to other age groups.ConclusionThe reported SAEs from the COVID–19 vaccines were in line with the data published in clinical trials. To link these SAEs to vaccines will need causality analysis and review of individual reports.
High resolution ultrasonic neural modulation observed viain vivotwo-photon calcium imaging
Authors: Cheng Zongyue , Wang Chenmao , Wei Bowen , Gan Wenbiao , Zhou Qifa , Cui Meng 
Published: March 2021

AbstractNeural modulation plays a major role in delineating the circuit mechanisms and serves as the cornerstone of neural interface technologies. Among the various modulation mechanisms, ultrasound enables noninvasive label-free deep access to mammalian brain tissue. To date, most if not all ultrasonic neural modulation implementations are based on ∼1 MHz carrier frequency. The long acoustic wavelength results in a spatially coarse modulation zone, often spanning over multiple function regions. The modulation of one brain region is inevitably linked with the modulation of its neighboring regions. To significantly increase the spatial resolution, we explored the application of high-frequency ultrasound. To investigate the neuronal response at cellular resolutions, we developed a dual-modality system combiningin vivotwo-photon calcium imaging and focused ultrasound modulation. The studies show that the ∼30 MHz ultrasound can suppress the neuronal activity in awake mice at 100-micron scale spatial resolutions, paving the way for high-resolution ultrasonic neural modulation.
A deep-sea sulfate reducing bacterium directs the formation of zero-valent sulfur via sulfide oxidation
Authors: Liu Rui , Shan Yeqi , Xi Shichuan , Zhang Xin , Sun Chaomin 
Published: March 2021

AbstractZero-valent sulfur (ZVS) is a critical intermediate in the biogeochemical sulfur cycle. Up to date, sulfur oxidizing bacteria have been demonstrated to dominate the formation of ZVS. In contrast, formation of ZVS mediated by sulfate reducing bacteria (SRB) has been rarely reported. Here, we report for the first time that a typical sulfate reducing bacteriumDesulfovibrio marinusCS1 directs the formation of ZVS via sulfide oxidation. In combination with proteomic analysis and protein activity assays, thiosulfate reductase (PhsA) and sulfide: quinone oxidoreductase (SQR) were demonstrated to play key roles in driving ZVS formation. In this process, PhsA catalyzed thiosulfate to form sulfide, which was then oxidized by SQR to form ZVS. Consistently, the expressions of PhsA and SQR were significantly up-regulated in strain CS1 when cultured in the deep-sea cold seep, strongly indicating strain CS1 might form ZVS in its real inhabiting niches. Notably, homologs ofphsAandsqrwidely distributed in the metagenomes of deep-sea SRB. Given the high abundance of SRB in cold seeps, it is reasonable to propose that SRB might greatly contribute to the formation of ZVS in the deep-sea environments. Our findings add a new aspect to the current understanding of the source of ZVS.
Tribal women’s work-life balance: an identity-based approach
Authors: Nath Koel , Dwivedi Rohit 
Published: March 2021

PurposeThis paper aims to examine the work-life balance (WLB) experiences of tribal working women belonging to the matrilineal Khasi and Jaintia communities of Meghalaya, India, using an identity-based approach.Design/methodology/approachSemi-structured interviews conducted with 18 tribal women working in the formal sector helped generate descriptions of the subjective subliminal tensions they experienced in their efforts to balance work and home life.FindingsSix key themes emerged: webs of role-based responsibilities; reframing family around work; revising self-identity through work; challenges and coping tactics; traditional community influences on management of work and home life; and enacting womanhood as problem-solving.Research limitations/implicationsThis study contributes to the literature on women and WLB in that it expands the theoretical understanding of the impact of identity work on women’s WLB.Practical implicationsA healthy WLB is crucial for enhanced intrinsic motivation and consequently women’s psychological empowerment and career satisfaction. This has important social and practical implications for enriching tribal women’s quality of life in India and facilitating their contribution towards the betterment of their communities and the economy at large. To this end, policymakers should launch awareness campaigns pertaining to tribal women’s WLB, to aid organizations in rolling-out contextually relevant work-life management programmes for these women.Originality/valueThis study extends an identity-based approach as a general theory of the self to examine matrilineal tribal women's WLB construction as a distinct form of “doing” and “being”.
Innovation dynamics in the Brazilian industrial sector: scenario and reflexions
Authors: Cirani Claudia Brito Silva , da Silva José Jaconias , Cassia Adalberto Ramos , Pedro Samara de Carvalho 
Published: March 2021

Purpose
This study aims to analyze the innovation overview of the Brazilian industrial sector using data published by innovation survey – PINTEC. The aim was to provide a macro and updated diagnosis of the innovation scenario in Brazil and build reflections for further studies.

Design/methodology/approach
The authors used information from the years 1998–2014 covered by PINTEC to analyze innovation indicators, namely, innovation types, problems and obstacles, novelty degree, established partnerships and interactions, as well as governmental incentives. This study is exploratory; thus, descriptive methods were used for data presentation through analyses and presented through figures and tables.

Findings
The results show that innovation of the Brazilian industrial sector is concentrated mainly in the acquisition of machinery and equipment, innovations that already exist in national or global markets, interactions for the innovation process with suppliers and governmental support for financing machinery and equipment acquisitions.

Originality/value
This study has relevance, as its results provide important subsidies for policy-makers to incorporate the needs and overcome challenges of innovation in Brazil.
Coordination of paediatric oncology care: an explorative Swedish case study
Authors: Gadolin Christian , Eriksson Erik , Alexandersson Patrik 
Published: March 2021

PurposeThe aim of this paper is to empirically describe and analyze factors deemed to be relevant for the successful provision of coordinated paediatric oncology care by physicians and nurses involved.Design/methodology/approachA qualitative case study primarily consisting of interviews.FindingsThe paper's findings indicate that certain factors (i.e. distinct mission, clear treatment protocols and support from external stakeholders) relevant for the provision of coordinated paediatric oncology care have not received sufficient attention in previous research. In addition, emphasis is placed on the necessity of facilitating constructive working relationships and a bottom-up perspective when pursuing improved care coordination.Originality/valueThe factors described and analyzed may act as insights for how paediatric oncology might be improved in terms of care coordination and thus facilitate care integration. In addition, the paper's findings identify factors relevant for further empirical studies in order to delineate their generalizability.
Sports celebrity personality and purchase intention: the role of endorser-brand congruence, brand credibility and brand image transfer
Authors: Rai Jaskirat Singh , Yousaf Anish , Itani Maher N. , Singh Amanpreet 
Published: March 2021

PurposeThis study aims to examine the influence of five sports celebrity personality (SCP) attributes – attractiveness, expertise level, credibility, trustworthiness and character – on consumers' purchase intentions (CPI). It identifies celebrity brand congruence (CBC), endorsed brand celebrity (EBC) and transfer of brand image (TBI) as antecedents of CPI.Design/methodology/approachThe purposive sampling technique was used to collect the data from 838 respondents. This study developed a multidimensional construct for SCP. The covariance-based structural equation modeling (SEM) technique was used to examine the relationship between SCP and the endorsed brand. The study used CBC as a mediator and EBC and TBI as partial mediators. The direct and indirect effect of SCP on CPI was investigated using CBC, EBC and TBI as mediators.FindingsThis study supports the importance of three antecedents (i.e. CBC, EBC and TBI) on CPI. It finds congruence across SCP and CBC variables, and a positive impact of SCP on EBC and TBI variables. Also, it exhibits a significant direct effect of CBC on EBC and TBI, whereas the direct effect of CBC on CPI is not substantial. The indirect effect of CBC through mediating variables EBC and TBI found to be significant.Research limitations/implicationsThis study concludes that sports celebrity endorsement is essential to transfer the positive celebrity image to the endorsed brand image. However, it is not merely sufficient to influence the buyers' purchase conduct; the brand credibility additionally assumes to take a role in changing their behavioral intentions.Originality/valueThis study contributes to the sports marketing literature by its novelty in analyzing the sports celebrity personality at a multidimensional level. It uses SCP's different attributes as one construct and studies its impact on CPI by taking CBC, EBC and TBI as mediators. The results of this study equip sports management professionals with the knowledge to build better long-term relationships with consumers.
Initial abundance and stochasticity influence competitive outcome in communities
Authors: Dallas Tad , Melbourne Brett A. , Legault Geoffrey , Hastings Alan 
Published: March 2021

Abstract

Predicting competitive outcomes in communities frequently involves inferences based on deterministic population models since these provide clear criteria for exclusion (e.g. R* rule) or long‐term coexistence (e.g. mutual invasibility).

However, incorporating stochasticity into population‐ or community‐level processes into models is necessary if the goal is to explain variation in natural systems, which are inherently stochastic.

Similarly, in systems with demographic or environmental stochasticity, weaker competitors have the potential to exclude superior competitors, contributing to what is known as ‘competitive indeterminacy’. The importance of such effects for natural communities is unknown, in part because it is difficult to demonstrate that multiple forms of stochasticity are present in these communities. Moreover, the effects of multiple forms of stochasticity on competitive outcomes are largely untested, even in theory.

Here, we address these issues by examining the role of stochasticity in replicated communities of flour beetles (Tribolium sp.). To do so, we developed a set of two‐species stochastic Ricker models incorporating four distinct forms of stochasticity: environmental stochasticity, demographic stochasticity, demographic heterogeneity and stochastic sex determination.

By fitting models to experimental data, and simulating fit models to examine long‐ term behaviour, we found that both the duration of transient coexistence and the degree of competitive indeterminacy were sensitive to the forms of stochasticity included in our models. These findings suggest the current estimates of extinction risk, coexistence and time until competitive exclusion in communities may not be accurate when based on models that exclude relevant forms of stochasticity.
Automatic inference of demographic parameters using generative adversarial networks
Authors: Wang Zhanpeng , Wang Jiaping , Kourakos Michael , Hoang Nhung , Lee Hyong Hark , Mathieson Iain , Mathieson Sara 
Published: March 2021

AbstractPopulation genetics relies heavily on simulated data for validation, inference and intuition. In particular, since the evolutionary ‘ground truth’ for real data is always limited, simulated data are crucial for training supervised machine learning methods. Simulation software can accurately model evolutionary processes but requires many hand‐selected input parameters. As a result, simulated data often fail to mirror the properties of real genetic data, which limits the scope of methods that rely on it. Here, we develop a novel approach to estimating parameters in population genetic models that automatically adapts to data from any population. Our method, pg‐gan, is based on a generative adversarial network that gradually learns to generate realistic synthetic data. We demonstrate that our method is able to recover input parameters in a simulated isolation‐with‐migration model. We then apply our method to human data from the 1000 Genomes Project and show that we can accurately recapitulate the features of real data.
The Identification and Geological Significance of Fault Buried in the Gasikule Salt Lake in China based on the Multi‐source Remote Sensing Data
Authors: WANG Junhu , ZHAO Yingjun , WU Ding , LU Donghua 
Published: March 2021

AbstractThe salinity of the salt lake is an important factor to evaluate whether it contains some mineral resources or not, the fault buried in the salt lake could control the abundance of the salinity. Therefore, it is of great geological importance to identify the fault buried in the salt lake. Taking the Gasikule Salt Lake in China for example, the paper established a new method to identify the fault buried in the salt lake based on the multi‐source remote sensing data including Landsat TM, SPOT‐5 and ASTER data. It includes the acquisition and selection of the multi‐source remote sensing data, data preprocessing, lake waterfront extraction, spectrum extraction of brine with different salinity, salinity index construction, salinity separation, analysis of the abnormal salinity and identification of the fault buried in salt lake, temperature inversion of brine and the fault verification. As a result, the study identified an important fault buried in the east of the Gasikule Salt Lake that controls the highest salinity abnormal. Because the level of the salinity is positively correlated to the mineral abundance, the result provides the important reference to identify the water body rich in mineral resources in the salt lake.