bluuebunny/crossref_metadata_2025_split huggingface dataset:
‘Amber Alert’ or ‘Heatwave Warning’: The Role of Linguistic Framing in Mediating Understandings of Early Warning Messages about Heatwaves and Cold Spells
Authors: Tang Chris 
Published: April 2021

Abstract
Periods of extremely hot and cold weather can cause significant mortality and morbidity in both temperate and more extreme climates. In the UK, their occurrence prompts the issuing of number and colour coded warnings providing an assessment of the level of risk. These are designed to minimize health impact by prompting timely and appropriate mitigating actions by the public. Drawing upon the interdisciplinary notion of framing, I report on a study that identified a central role for language in mediating how these warnings are interpreted and evaluated. I use an innovative approach that combines the quantitative tools of corpus linguistics to identify the language used to represent warnings and the risks of extreme temperature in the mass media, with qualitative analysis of focus group discussions of typical texts. A comparison of both datasets indicates a multi-layered interactivity between the myriad ways in which language can give salience to aspects of a risk scenario and an interpreter’s knowledge and perception of a threat, and that underlying such interactions, is the conceptualization of risk as scalar property.
Review of multi-omics data resources and integrative analysis for human brain disorders
Authors: Dong Xianjun , Liu Chunyu , Dozmorov Mikhail 
Published: April 2021

Abstract
In the last decade, massive omics datasets have been generated for human brain research. It is evolving so fast that a timely update is urgently needed. In this review, we summarize the main multi-omics data resources for the human brains of both healthy controls and neuropsychiatric disorders, including schizophrenia, autism, bipolar disorder, Alzheimer’s disease, Parkinson’s disease, progressive supranuclear palsy, etc. We also review the recent development of single-cell omics in brain research, such as single-nucleus RNA-seq, single-cell ATAC-seq and spatial transcriptomics. We further investigate the integrative multi-omics analysis methods for both tissue and single-cell data. Finally, we discuss the limitations and future directions of the multi-omics study of human brain disorders.
Cooperative sequence clustering and decoding for DNA storage system with fountain codes
Authors: Jeong Jaeho , Park Seong-Joon , Kim Jae-Won , No Jong-Seon , Jeon Ha Hyeon , Lee Jeong Wook , No Albert , Kim Sunghwan , Park Hosung 
Published: April 2021

Abstract

Motivation
In DNA storage systems, there are tradeoffs between writing and reading costs. Increasing the code rate of error-correcting codes may save writing cost, but it will need more sequence reads for data retrieval. There is potentially a way to improve sequencing and decoding processes in such a way that the reading cost induced by this tradeoff is reduced without increasing the writing cost. In past researches, clustering, alignment and decoding processes were considered as separate stages but we believe that using the information from all these processes together may improve decoding performance. Actual experiments of DNA synthesis and sequencing should be performed because simulations cannot be relied on to cover all error possibilities in practical circumstances.

Results
For DNA storage systems using fountain code and Reed-Solomon (RS) code, we introduce several techniques to improve the decoding performance. We designed the decoding process focusing on the cooperation of key components: Hamming-distance based clustering, discarding of abnormal sequence reads, RS error correction as well as detection and quality score-based ordering of sequences. We synthesized 513.6 KB data into DNA oligo pools and sequenced this data successfully with Illumina MiSeq instrument. Compared to Erlich’s research, the proposed decoding method additionally incorporates sequence reads with minor errors which had been discarded before, and thus was able to make use of 10.6–11.9% more sequence reads from the same sequencing environment, this resulted in 6.5–8.9% reduction in the reading cost. Channel characteristics including sequence coverage and read-length distributions are provided as well.

Availability and implementation
The raw data files and the source codes of our experiments are available at: https://github.com/jhjeong0702/dna-storage.
Decoding the transcriptome of pre-granulosa cells during the formation of primordial follicles in the mouse
Authors: Fukuda Kurumi , Muraoka Masafumi , Kato Yuzuru , Saga Yumiko 
Published: April 2021

Abstract
Primordial follicles, a finite reservoir of eggs in mammalian ovaries, are composed of a single oocyte and its supporting somatic cells, termed granulosa cells. Although their formation may require reciprocal interplay between oocytes and pre-granulosa cells, precursors of granulosa cells, little is known about the underlying mechanisms. We addressed this issue by decoding the transcriptome of pre-granulosa cells during the formation of primordial follicles. We found that marked gene expression changes, including extracellular matrix, cell adhesion, and several signaling pathways, occur along with primordial follicle formation. Importantly, differentiation of Lgr5-EGFP-positive pre-granulosa cells to FOXL2-positive granulosa cells was delayed in mutant ovaries of the germ cell-specific genes Nanos3 and Figla, accompanied by perturbed gene expression in mutant pre-granulosa cells. These results suggest that proper development of oocytes is required for the differentiation of pre-granulosa cells. Our data provide a valuable resource for understanding the gene regulatory networks involved in the formation of primordial follicles.
Learning curve of robotic distal and total gastrectomy
Authors: Zheng-yan Li , Feng Qian , Yan Shi , Ji-Peng Li , Qing-Chuan Zhao , Bo Tang , Rui-Zi Gao , Zhi-Guo Shan , Xia Lin , Qing Feng , Tao He , Zi-Yan Luo , Zhi Wang , Pei-wu Yu , Yong-Liang Zhao 
Published: April 2021

Abstract

Background
This study aims to assess the learning curve of robotic distal gastrectomy (RDG) and robotic total gastrectomy (RTG) for gastric cancer.

Methods
Data on consecutive patients who underwent robotic gastrectomy for gastric cancer by five surgeons between March 2010 and August 2019 at two high-volume institutions were collected. The learning curve was determined based on the analyses of operation time and postoperative complications within 30 days. Cumulative sum analysis (CUSUM) and risk-adjusted-CUSUM (RA-CUSUM) were applied to identify the turning points (TPs).

Results
A total of 899 consecutive patients were included. The mean number of patients needed to overcome the learning curve for operation time of RDG and RTG were 22 and 20, respectively. The number of patients needed to overcome the learning curve for postoperative complications after RDG and RTG were 23 and 18, respectively. The surgical outcomes in the post-TP group were better than in the pre-TP group and improved as surgeons’ experience increased. Also, increased case numbers in RDG promoted the RTG learning process.

Conclusion
The present study demonstrated a substantial influence of surgical cumulative volume on improved surgical outcomes in robotic gastrectomy. Increased experience in RDG may help surgeons to achieve proficiency faster in RTG.
Motor and cognitive outcomes of cerebello-spinal stimulation in neurodegenerative ataxia
Authors: Benussi Alberto , Cantoni Valentina , Manes Marta , Libri Ilenia , Dell’Era Valentina , Datta Abhishek , Thomas Chris , Ferrari Camilla , Di Fonzo Alessio , Fancellu Roberto , Grassi Mario , Brusco Alfredo , Alberici Antonella , Borroni Barbara 
Published: April 2021

Abstract
Cerebellar ataxias represent a heterogeneous group of disabling disorders characterized by motor and cognitive disturbances, for which no effective treatment is currently available. In this randomized, double-blind, sham-controlled trial, followed by an open-label phase, we investigated whether treatment with cerebello-spinal transcranial direct current stimulation (tDCS) could improve both motor and cognitive symptoms in patients with neurodegenerative ataxia at short and long-term. Sixty-one patients were randomized in two groups for the first controlled phase. At baseline (T0), Group 1 received placebo stimulation (sham tDCS) while Group 2 received anodal cerebellar tDCS and cathodal spinal tDCS (real tDCS) for 5 days/week for 2 weeks (T1), with a 12-week (T2) follow-up (randomized, double-blind, sham controlled phase). At the 12-week follow-up (T2), all patients (Group 1 and Group 2) received a second treatment of anodal cerebellar tDCS and cathodal spinal tDCS (real tDCS) for 5 days/week for 2 weeks, with a 14-week (T3), 24-week (T4), 36-week (T5) and 52-week follow-up (T6) (open-label phase). At each time point, a clinical, neuropsychological and neurophysiological evaluation was performed. Cerebellar-motor cortex connectivity was evaluated using transcranial magnetic stimulation. We observed a significant improvement in all motor scores (scale for the assessment and rating of ataxia, international cooperative ataxia rating scale), in cognition (evaluated with the cerebellar cognitive affective syndrome scale), in quality-of-life scores, in motor cortex excitability and in cerebellar inhibition after real tDCS compared to sham stimulation and compared to baseline (T0), both at short and long-term. We observed an addon-effect after two repeated treatments with real tDCS compared to a single treatment with real tDCS. The improvement at motor and cognitive scores correlated with the restoration of cerebellar inhibition evaluated with transcranial magnetic stimulation. Cerebello-spinal tDCS represents a promising therapeutic approach for both motor and cognitive symptoms in patients with neurodegenerative ataxia, a still orphan disorder of any pharmacological intervention.
Driveline exit-site care protocols in patients with left ventricular assist devices: a systematic review
Authors: Koken Zeliha Ozdemir , Yalcin Yunus C , van Netten Diana , de Bakker Chantal C , van der Graaf Maaike , Kervan Umit , Verkaik Nelianne J , Caliskan Kadir 
Published: April 2021

Abstract

OBJECTIVES
Driveline infections continue to be a significant complication following left ventricular assist device (LVAD) implantation. Driveline exit-site care is crucial for the prevention of infections; however, there are no uniform guidelines. The goal of this study was to provide an overview of the currently published driveline exit-site care protocols in patients with LVAD.

METHODS
A systematic literature review was performed. Studies before 15 December 2020 were included if the number of driveline infections was a primary outcome and the driveline exit-site care protocol was explained.

RESULTS
Eleven articles were included in the systematic review, including 1602 patients with LVADs. The median of the frequency of driveline infections in the articles was 13.8% with a range of 0–52.6%. There was a marked variability in the methods of care of driveline exit sites, without a standardized driveline dressing technique in patients with LVADs. The frequency of driveline infections was 6–7.5% in studies using a dressing kit that included chlorhexidine, a silver-based dressing and an anchoring device. Furthermore, there was variability in the anchoring devices and the frequency of dressing changes, which varied from daily to weekly. No specific anchoring device or change frequency was found to be superior.

CONCLUSIONS
Based on this systematic review, driveline exit care protocols that included chlorhexidine, a silver-based dressing, the use of an anchoring device and dressing kits might be best in reducing driveline infection rates. However, prospective studies with larger cohorts are needed to establish the optimal protocol for driveline exit-site care.
A heart-team hybrid approach for atrial fibrillation: a single-centre long-term clinical outcome cohort study
Authors: Dunnington Gansevoort H , Pierce Carrie L , Eisenberg Susan , Bing Liem L , Chang-Sing Peter , Kaiser Daniel W , Burk Shelby , Moulton Linda C , Kiankhooy Armin 
Published: April 2021

Abstract

OBJECTIVES
The Cox-maze IV is the gold standard for surgical ablation of atrial fibrillation (AF). A heart-team hybrid approach using selected epicardial thoracoscopic surgical ablations and completion endocardial ablations to replicate the Cox-maze IV lesion set has gained popularity and early results have been promising. We herein report our single-centre long-term clinical outcomes using the heart-team hybrid approach with 455 patients.

METHODS
From 1 March 2013 to 1 July 2019, we prospectively collected data on all patients referred to our heart team for rhythm-control strategy for AF. Baseline characteristics, procedural complications and long-term freedom from AF (FFAF) both on and off anti-arrhythmic drug therapy were analysed. Ambulatory monitoring (&gt;7 days) was obtained at 3 months and annually thereafter.

RESULTS
Four hundred and fifty-five patients completed the hybrid approach. Four hundred and forty-five (97.8%) patients had non-paroxysmal AF (long-standing persistent AF n = 249, 54.7%; persistent AF n = 196, 43.1%; paroxysmal AF n = 10, 2.2%). Average duration of AF was 5.9 ± 6.1 years. Average left atrial diameter was 4.8 ± 0.8 cm. FFAF at 3, 12, 24 and 36 months was 92%, 87%, 81% and 72%, respectively. FFAF without the use of anti-arrhythmic medications was 75%, 81%, 76% and 66%. Any surgical complications occurred in 28 (6.1%) patients.

CONCLUSIONS
A heart-team hybrid strategy for the treatment of AF is safe and effective. In a predominantly non-paroxysmal population with AF, at the 3-year follow-up, FFAF in patients on and off anti-arrhythmic drugs approaches that of patients who had the Cox-maze IV.
COVID-SCORE Spain: public perceptions of key government COVID-19 control measures
Authors: White Trenton M , Cash-Gibson Lucinda , Martin-Moreno Jose M , Matesanz Rafael , Crespo Javier , Alfonso-Sanchez Jose L , Villapol Sonia , El-Mohandes Ayman , Lazarus Jeffrey V 
Published: April 2021

AbstractBackgroundSpain was initially one of the countries most affected by the coronavirus disease 2019 (COVID-19) pandemic. In June 2020, the COVID-SCORE-10 study reported that the Spanish public’s perception of their government’s response to the pandemic was low. This study examines these perceptions in greater detail.MethodsWe employed an ordered logistic regression analysis using COVID-SCORE-10 data to examine the Spanish public’s perception of 10 key aspects of their government’s COVID-19 control measures. These included support for daily needs, mental and general health services, communication, information and coordination, which were examined by gender, age, education level, having been affected by COVID-19 and trust in government’s success in addressing unexpected health threats.Results‘Trust in the government’ showed the greatest odds of positive perception for the 10 measures studied. Odds of positive perception of communication significantly varied by gender, education level and having been affected by COVID-19, whereas for information and coordination of disease control, odds significantly varied by gender and having been affected by COVID-19. Odds of positive perception for access to mental health services significantly varied by gender and education level. Age was not significant.ConclusionPublic perception of the government’s pandemic response in Spain varied by socio-demographic and individual variables, particularly by reported trust in the government. Fostering public trust during health threats may improve perception of response efforts. Future efforts should tailor interventions that consider gender, education level and whether people have been affected by COVID-19.
Prevalence and correlates of physical inactivity in adults across 28 European countries
Authors: Nikitara Katerina , Odani Satomi , Demenagas Nektarios , Rachiotis George , Symvoulakis Emmanouil , Vardavas Constantine 
Published: April 2021

Abstract

Background
Physical activity/inactivity is impacted by a plethora of intertwined factors. There are a limited number of studies on physical activity/inactivity that provide a European cross-country perspective. This study aims to present the prevalence and correlates of physical activity in adults across the 28 European Union (EU) member states.

Methods
This is a secondary dataset analysis of the Special Eurobarometer 472 data on physical activity. The cross-sectional survey was conducted during December 2–11 in 2017 across 28 European countries. The data consisted of ∼1000 respondents aged ≧15 years per country. The current analysis was restricted to adults aged 18–64 years (n = 19 645).

Results
More than one in three (36.2%, 95% CI: 35.1–37.3) adults in the EU were physically inactive, with substantial cross-country differences noted. Women were less likely than men to be adequately or highly physically active (aOR: 0.86, 95% CI: 0.78–0.95). Similarly, adults at the age of 40–54 (aOR: 0.65, 95% CI: 0.52–0.81) and 55–64 (aOR: 0.61, 95% CI: 0.49–0.77) were less likely to have moderate or high levels of physical activity in comparison with those 18–24 years of age. Finally, high SES was positively associated with physical activity (aOR: 1.4, 95% CI: 1.16–1.69).

Conclusions
A notable percentage of adults in Europe are physically inactive. Further research is needed to elucidate the factors behind the cross-country differences and identify potential policy actions that may support adopting a physically active lifestyle and decrease the inequalities related to physical activity across Europe.
Host-derived extracellular vesicles for antimicrobial defense
Authors: Brakhage Axel A , Zimmermann Ann-Kathrin , Rivieccio Flora , Visser Corissa , Blango Matthew G 
Published: April 2021

ABSTRACTExtracellular vesicles are of increasing importance in the clinic, as diagnostics for complex diseases and as potential delivery systems for therapeutics. Over the past several decades, extracellular vesicles have emerged as a widespread, conserved mechanism of intercellular and interkingdom communication. The ubiquitous distribution of extracellular vesicles across life offers at least two compelling opportunities: first a path forward in the design of targeted antimicrobial delivery systems; and second, a new way to view host pathogenesis during infection. Both avenues of research are well underway. In particular, preliminary studies showing that plant and human host-derived extracellular vesicles can deliver natural antimicrobial cargos to invading fungal and bacterial pathogens are captivating. Further, modification of host extracellular vesicle populations may ultimately lead to enhanced killing and serve as a starting point for the development of more advanced therapeutic options, especially against difficult to treat pathogens. Despite the rapid pace of growth surrounding extracellular vesicle biology, many questions remain unanswered. For example, the heterogeneity of vesicle populations continues to be a confounding factor in ascribing clear functions to a vesicular subset, and the molecular cargos responsible for specific antimicrobial actions of extracellular vesicles during infection remain especially poorly described. In this short review, we will summarize the current state of affairs surrounding the antimicrobial function, and potential, of host-derived extracellular vesicles.
Homoeolog Inference Methods Requiring Bidirectional Best Hits or Synteny Miss Many Pairs
Authors: Glover Natasha , Sheppard Shaoline , Dessimoz Christophe 
Published: April 2021

Abstract
Homoeologs are pairs of genes or chromosomes in the same species that originated by speciation and were brought back together in the same genome by allopolyploidization. Bioinformatic methods for accurate homoeology inference are crucial for studying the evolutionary consequences of polyploidization, and homoeology is typically inferred on the basis of bidirectional best hit (BBH) and/or positional conservation (synteny). However, these methods neglect the fact that genes can duplicate and move, both prior to and after the allopolyploidization event. These duplications and movements can result in many-to-many and/or nonsyntenic homoeologs—which thus remain undetected and unstudied. Here, using the allotetraploid upland cotton (Gossypium hirsutum) as a case study, we show that conventional approaches indeed miss a substantial proportion of homoeologs. Additionally, we found that many of the missed pairs of homoeologs are broadly and highly expressed. A gene ontology analysis revealed a high proportion of the nonsyntenic and non-BBH homoeologs to be involved in protein translation and are likely to contribute to the functional repertoire of cotton. Thus, from an evolutionary and functional genomics standpoint, choosing a homoeolog inference method which does not solely rely on 1:1 relationship cardinality or synteny is crucial for not missing these potentially important homoeolog pairs.
Mutations in Recombinational Repair and in Checkpoint Control Genes Suppress the Lethal Combination of srs2Δ With Other DNA Repair Genes in Saccharomyces cerevisiae
Authors: Klein Hannah L 
Published: April 2021

Abstract
The SRS2 gene of Saccharomyces cerevisiae encodes a DNA helicase that is active in the postreplication repair pathway and homologous recombination. srs2 mutations are lethal in a rad54Δ background and cause poor growth or lethality in rdh54Δ, rad50Δ, mre11Δ, xrs2Δ, rad27Δ, sgs1Δ, and top3Δ backgrounds. Some of these genotypes are known to be defective in double-strand break repair. Many of these lethalities or poor growth can be suppressed by mutations in other genes in the DSB repair pathway, namely rad51, rad52, rad55, and rad57, suggesting that inhibition of recombination at a prior step prevents formation of a lethal intermediate. Lethality of the srs2Δ rad54Δ and srs2Δ rdh54Δ double mutants can also be rescued by mutations in the DNA damage checkpoint functions RAD9, RAD17, RAD24, and MEC3, indicating that the srs2 rad54 and srs2 rdh54 mutant combinations lead to an intermediate that is sensed by these checkpoint functions. When the checkpoints are intact the cells never reverse from the arrest, but loss of the checkpoints releases the arrest. However, cells do not achieve wild-type growth rates, suggesting that unrepaired damage is still present and may lead to chromosome loss.
Genetic Involvement of a cAMP-Dependent Protein Kinase in a G Protein Signaling Pathway Regulating Morphological and Chemical Transitions in Aspergillus nidulans
Authors: Shimizu Kiminori , Keller Nancy P 
Published: April 2021

Abstract
In the filamentous fungus Aspergillus nidulans, a heterotrimeric G protein α-subunit and an RGS domain protein, encoded by fadA and flbA, respectively, regulate production of the carcinogenic metabolite sterigmatocystin (ST) and asexual spores (i.e., conidia). We investigated the genetic involvement of the cAMP-dependent protein kinase catalytic subunit (PkaA), a potential downstream target of FadA activity, in ST production and conidiation. Relative to wild type, sporulation was decreased in the pkaA overexpression strain but was not totally absent, as occurs in ΔflbA or fadAG42R (fadA-dominant active) strains. Deletion of pkaA resulted in a hyper-conidiating strain with limited radial growth. This phenotype was epistatic to mutation in flbA or fadA; the double mutants ΔpkaA; ΔflbA and ΔpkaA; fadAG42R recovered sporulation and their radial growth was severely restricted. PkaA overexpression also negatively regulated AflR, the ST biosynthesis-specific transcription factor, both transcriptionally and post-transcriptionally. Deletion of pkaA restored ST production in the ΔflbA background but not in the fadAG42R background. These data provide genetic evidence that the FlbA/FadA signaling pathway regulating ST production and morphological development is partially mediated through PkaA.