bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft genome of the lowland anoa (Bubalus depressicornis) and comparison with buffalo genome assemblies (Bovidae, Bubalina)
Authors: Porrelli Stefano , Gerbault-Seureau Michèle , Rozzi Roberto , Chikhi Rayan , Curaudeau Manon , Ropiquet Anne , Hassanin Alexandre 
Published: September 2022

Abstract
Genomic data for wild species of the genus Bubalus (Asian buffaloes) are still lacking while several whole genomes are currently available for domestic water buffaloes. To address this, we sequenced the genome of a wild endangered dwarf buffalo, the lowland anoa (Bubalus depressicornis), produced a draft genome assembly and made comparison to published buffalo genomes. The lowland anoa genome assembly was 2.56 Gbp long and contained 103,135 contigs, the longest contig being 337.39 kbp long. N50 and L50 values were 38.73 and 19.83 kbp, respectively, mean coverage was 44× and GC content was 41.74%. Two strategies were adopted to evaluate genome completeness: (1) determination of genomic features with de novo and homology-based predictions using annotations of chromosome-level genome assembly of the river buffalo and (2) employment of benchmarking against universal single-copy orthologs (BUSCO). Homology-based predictions identified 94.51% complete and 3.65% partial genomic features. De novo gene predictions identified 32,393 genes, representing 97.14% of the reference’s annotated genes, whilst BUSCO search against the mammalian orthologs database identified 71.1% complete, 11.7% fragmented, and 17.2% missing orthologs, indicating a good level of completeness for downstream analyses. Repeat analyses indicated that the lowland anoa genome contains 42.12% of repetitive regions. The genome assembly of the lowland anoa is expected to contribute to comparative genome analyses among bovid species.
Genetic and Environmental Influences on Longitudinal Frailty Trajectories From Adulthood into Old Age
Authors: Mak Jonathan K L , Kuja-Halkola Ralf , Bai Ge , Hassing Linda B , Pedersen Nancy L , Hägg Sara , Jylhävä Juulia , Reynolds Chandra A 
Published: September 2022

AbstractBackgroundFrailty is a complex, dynamic geriatric condition, but limited evidence has shown how genes and environment may contribute to its longitudinal changes. We sought to investigate sources of individual differences in the longitudinal trajectories of frailty, considering potential selection bias when including a sample of oldest-old twins.MethodsData were from 2 Swedish twin cohort studies: a younger cohort comprising 1 842 adults aged 29–96 years followed up to 15 waves, and an older cohort comprising 654 adults aged ≥79 years followed up to 5 waves. Frailty was measured using the frailty index (FI). Age-based latent growth curve models were used to examine longitudinal trajectories, and extended to a biometric analysis to decompose variability into genetic and environmental etiologies.ResultsA bilinear model with an inflection point at age 75 best described the data, indicating a fourfold to fivefold faster FI increase after 75 years. Twins from the older cohort had significantly higher mean FI at baseline but slower rate of increase afterward. FI level at age 75 was moderately heritable in both men (42%) and women (55%). Genetic influences were relatively stable across age for men and increasing for women, although the most salient amplification in FI variability after age 75 was due to individual-specific environmental influences for both men and women; conclusions were largely consistent when excluding the older cohort.ConclusionIncreased heterogeneity of frailty in late life is mainly attributable to environmental influences, highlighting the importance of targeting environmental risk factors to mitigate frailty in older adults.
Better Together: Social Contact and Loneliness Among U.S. Older Adults During COVID-19
Authors: Dhakal Usha , Koumoutzis Athena , Vivoda Jonathon M 
Published: September 2022

AbstractObjectivesCoronavirus disease 2019 (COVID-19) resulted in older adults’ greater reliance on technology to contact friends and families. However, less is known regarding the association between frequency of varying modes of communication and loneliness among older adults during COVID-19, and current findings are mixed. Therefore, this study aimed to advance this understanding.MethodsUsing the National Health and Aging Trends Study COVID-19 supplement data, multinomial regression analyses assessed how the frequency of four modes of contact (i.e., phone calls; electronic and social messaging such as e-mails/texts/social media messages; video calls; and in-person visits) during the COVID-19 pandemic was associated with feelings of loneliness among older adults compared to prepandemic (n = 2,564).ResultsCompared to never/less than once a week in-person visits, daily in-person visits were associated with lower odds of reporting more frequent loneliness during COVID-19 versus “about the same” as pre-COVID-19 while controlling for demographics, access to information and communication technologies (ICTs), digital literacy, and health covariates. Compared to those who reported never/less than once a week contact by electronic and social messaging, more frequent contact was associated with higher odds of reporting more frequent loneliness during COVID-19 versus “about the same” as pre-COVID-19 while controlling for other variables in the model. Phone calls and video calls were not significantly related to loneliness.DiscussionResults suggest that ICTs may not decrease loneliness among older adults. This article discusses potential reasons and barriers, including digital exclusion, and provides recommendations to mitigate the negative effects of social isolation through technology for older adults.
The New Croatian Copyright Act – A Mixed Bag of Novelties and Quandaries
Authors: Marusic Branka 
Published: September 2022

Abstract
Croatia’s accession to the EU in 2013 left a mark on the Croatian Copyright Act. This mark was in the form of several amendments which aimed to implement the EU copyright harmonising measures. This implementation led to an uneven approach to copyright and related rights protection by prioritising implementation of the acquis communautaire over internal coherence and balance of rights. The new Croatian Copyright Act, adopted in October 2021, restores the internal coherence by substantially improving the layout of the act. Nevertheless, the formulation of some of the provisions it contains are inconsistent with international law, EU law and the Croatian Constitution. This paper focuses on three problematic legislative choices in the new Croatian Copyright Act – the gold-plating provision of the press publishers’ right, the automatic transfer of copyright made within public or state-owned institutions, and the nationalisation of audio-visual works.
On approximation classes for adaptive time-stepping finite element methods
Authors: Actis Marcelo , Morin Pedro , Schneider Cornelia 
Published: September 2022

Abstract
We study approximation classes for adaptive time-stepping finite element methods for time-dependent partial differential equations. We measure the approximation error in $L_2([0,T)\times \varOmega )$ and consider the approximation with discontinuous finite elements in time and continuous finite elements in space, of any degree. As a by-product we define anisotropic Besov spaces for Banach-space-valued functions on an interval and derive some embeddings, as well as Jackson- and Whitney-type estimates.
Viral Becomings: From Mechanical Viruses to Viral (Dis)Entanglements in Preventing Global Disease
Authors: Voelkner Nadine 
Published: September 2022

Abstract
This paper explores the contribution of an ethos of (dis)entanglement arising from quantum thought to interpreting and (re)acting on the current global pandemic of Covid-19. The Covid-19 pandemic is giving rise to a world of pandemic separation, in which infection barriers such as masks, disinfection, social distancing, and isolation may be necessary in the immediate moment of avoiding sickness and death. However, these exclusionary and short-term response mechanisms do not address the larger question relating to global interspecies living, which in its current dynamic is increasingly giving rise to newly emerging infectious diseases such as Covid-19. The Covid-19 pandemic is showing that the health of human beings is deeply entangled with that of other species and places. However, it is also showing the limits to the mechanistic ontology driving modern public health thinking. I build on the work by political ecologists of health and biosocial scholars, especially Frost's concept of biocultural emergence and her engagement with ontological plurality in the human subject, to make the case for a different global politics of disease in preventing the emergence of infectious disease.
Differential evolutionary cuckoo-search-integrated tabu-adaptive pattern search (DECS-TAPS): a novel multihybrid variant of swarm intelligence and evolutionary algorithm in architectural design optimization and automation
Authors: Yi Hwang , Kim Inhan 
Published: September 2022

Abstract
One of the critical limitations in architectural design optimization (ADO) is slow convergence due to high-dimensional and multiscale variables. For the rapid and optimal digital prototyping of architectural forms, this paper proposes a novel metaheuristic optimization technique that hybridizes standard low-level algorithms: the differential evolutionary cuckoo-search-integrated tabu-adaptive pattern search (DECS-TAPS). We compared DECS-TAPS to 10 major standard algorithms and 31 hybrids through 14 benchmark tests and investigated multi-objective ADO problems to prove the computational effectiveness of multiple algorithm hybridization. Our findings show that DECS-TAPS is vastly efficient and superior to the covariance matrix adaptation evolution strategy algorithm in multifunnel and weak structural functions. The global sensitivity analysis demonstrated that integrating multiple algorithms is likely conducive to lowering parameter dependence and increasing robustness. For the practical application of DECS-TAPS in building simulation and design automation, Zebroid—a Rhino Grasshopper (GH) add-on—was developed using IronPython and the GH visual scripting language.
Digital History and the Politics of Digitization
Authors: Zaagsma Gerben 
Published: September 2022

Abstract
Much has been made in recent years of the transformative potential of digital resources and historical data for historical research. Historians seem to be flooded with retro-digitized and born-digital materials and tend to take these for granted, grateful for the opportunities they afford. In a research environment that increasingly privileges what is available online, the questions of why, where, and how we can access what we can access, and how it affects historical research have become ever more urgent. This article proposes a framework through which to contextualize the politics of (digital) heritage preservation, and a model to analyse its most important political dimensions, drawing upon literature from the digital humanities and history as well as archival, library, and information science. The first part will outline the global dimensions of the politics of digital cultural heritage, focusing on developments between and within the Global North and South, framed within the broader context of the politics of heritage and its preservation. The second part surveys the history and current state of digitization and offers a structured analysis of the process of digitization and its political dimensions. Choices and decisions about selection for digitization, how to catalogue, classify, and what metadata to add are all political in nature and have political consequences, and the same is true for access. The article concludes with several recommendations and a plea to acknowledge the importance of digital cataloguing in enabling access to the global human record.
Re-examining the Bayesian colour excess estimation for the local star-forming galaxies observed in the HETDEX pilot survey
Authors: Shinn Jong-Ho 
Published: September 2022

ABSTRACTIn my previous reanalysis of the local star-forming galaxies observed in the Hobby-Eberly Telescope Dark Energy Experiment (HETDEX) pilot survey, I reported that the overestimation of E(B − V), hence the star formation rate (SFR), undermined the claim of new galaxy population discovery in the original study. Herein, I re-examine whether the E(B − V) overestimation problem can be alleviated in the Bayesian parameter estimation framework by adopting scientifically motivated new priors. I modelled the emission-line fluxes of galaxies using the strong-line method and four model parameters – metallicity $12 + \text{log {}(O/H)}$, nebula emission-line colour excess E(B − V), intrinsic [O iii] λ5007 line flux, and intrinsic [N ii] λ6584 line flux. Based on mock data tests, I found that all input values can be recovered within and around the 1σ credible interval by adopting suitable priors for the intrinsic [O iii] λ5007 and [N ii] λ6584 line fluxes: the inverse gamma distribution reflecting the logical constraint that an intrinsic emission-line flux must exceed the observed (reddened) emission-line flux. The mock data tests were performed for two metallicity calibrations, three colour excess input values [E(B − V) = 0.1, 0.3, and 0.5] and two metallicity input values [$12 + \text{log {}(O/H)}$ = 8.0 and 8.5]. I also found that the new prior can diminish the SFR overestimation eightfold. This study demonstrates how the Bayesian parameter estimation can achieve more accurate estimates with no further observations when the likelihood does not constrain the model parameters correctly.
Systematic review and meta-analysis for 2023 clinical practice guidelines of the Japan Research Committee of the Ministry of Health, Labour, and Welfare for Intractable Vasculitis for the management of ANCA-associated vasculitis
Authors: Watanabe Ryu , Oshima Megumi , Nishioka Norihiro , Sada Ken-Ei , Nagasaka Kenji , Akiyama Mitsuhiro , Ando Taiki , Higuchi Tomoaki , Inoue Yoshino , Kida Takashi , Mutoh Tomoyuki , Nakabayashi Akihiko , Onishi Akira , Sakai Ryota , Waki Daisuke , Yamada Yosuke , Yajima Nobuyuki , Tamura Naoto , Kaname Shinya , Harigai Masayoshi 
Published: September 2022

ABSTRACT

Objectives
The objective of this study is to provide evidence for the revision of clinical practice guidelines for the management of antineutrophil cytoplasmic antibody (ANCA)-associated vasculitis by the Japan Research Committee for Intractable Vasculitis.

Methods
PubMed, CENTRAL, and the Japan Medical Abstracts Society databases were searched for articles published between 2015 and 2020 to update the systematic review for existing clinical questions, while PubMed, CENTRAL, EMBASE, and the Japan Medical Abstracts Society were searched for articles published between 2000 and 2020 to conduct a systematic review for newly developed clinical questions. The certainty of evidence was assessed with the GRADE approach.

Results
For remission induction, when used in conjunction with cyclophosphamide or rituximab, reduced-dose glucocorticoid lowered the risk of serious adverse events compared to standard-dose glucocorticoid. Avacopan improved sustained remission at 12 months compared to high-dose glucocorticoid. Addition of plasma exchange to remission induction therapy did not reduce the risk of death, end-stage kidney disease, or relapse. For remission maintenance, rituximab reduced the risk of relapse compared to azathioprine. Long-term rituximab or azathioprine reduced the risk of relapse compared to short-term rituximab or azathioprine, respectively.

Conclusions
This systematic review provided evidence required to develop the 2023 clinical practice guideline for the management of ANCA-associated vasculitis.
Prognostic factors affecting respiratory-related death in patients with rheumatoid arthritis complicated by interstitial lung disease: An ANSWER cohort study
Authors: Makino Hidehiko , Kotani Takuya , Hata Kenichiro , Nishioka Daisuke , Yamamoto Wataru , Yoshikawa Ayaka , Wada Yumiko , Hiramatsu Yuri , Shiba Hideyuki , Nagai Koji , Katayama Masaki , Son Yonsu , Amuro Hideki , Onishi Akira , Akashi Kengo , Hara Ryota , Hirano Toru , Hashimoto Motomu , Takeuchi Tohru 
Published: September 2022

ABSTRACT
The aim of this multi-centre retrospective study was to clarify the prognostic factors for respiratory-related death in patients with interstitial lung disease (ILD) complicated rheumatoid arthritis (RA). Patient background data, treatment regimen, and disease activity indicators of RA and ILD at baseline, 6 months after the diagnosis of ILD, and at the last follow-up visit were extracted. A total of 312 patients with RA-ILD (17 patients who died from respiratory-related causes and 295 survivors) were included. Patients who died from respiratory-related causes had an older median age, a higher proportion of being male, and a higher anti-cyclic citrullinated peptide antibody positivity rate than survivors (p = .0001, .038, and .016, respectively); they also had significantly higher baseline serum levels of Krebs von den Lungen-6 (KL-6) than survivors (p = .013). Patients who died from respiratory-related causes showed significantly greater changes in serum KL-6 levels between the 6-month time point and the last visit [ΔKL-6 (6 months − last)] than survivors (p = .011). Multivariate analysis showed that the ΔKL-6 (6 months − last) corrected by disease duration was a predictor of respiratory-disease-related death in patients with RA-ILD (p &lt; .0001). Long-term increase in serum KL-6 levels is associated with respiratory-disease related death in patients with RA-ILD.
Deblurring galaxy images with Tikhonov regularization on magnitude domain
Authors: Murata Kazumi , Takeuchi Tsutomu T 
Published: September 2022

AbstractWe propose a regularization-based deblurring method that works efficiently for galaxy images. The spatial resolution of a ground-based telescope is generally limited by seeing conditions and is much worse than space-based telescopes. This circumstance has generated considerable research interest in the restoration of spatial resolution. Since image deblurring is a typical inverse problem and often ill-posed, solutions tend to be unstable. To obtain a stable solution, much research has adopted regularization-based methods for image deblurring, but the regularization term is not necessarily appropriate for galaxy images. Although galaxies have an exponential or Sérsic profile, the conventional regularization assumes the image profiles to behave linearly in space. The significant deviation between the assumption and real situations leads to blurring of the images and smoothing out the detailed structures. Clearly, regularization on logarithmic domain, i.e., magnitude domain, should provide a more appropriate assumption, which we explore in this study. We formulate a problem of deblurring galaxy images by an objective function with a Tikhonov regularization term on a magnitude domain. We introduce an iterative algorithm minimizing the objective function with a primal–dual splitting method. We investigate the feasibility of the proposed method using simulation and observation images. In the simulation, we blur galaxy images with a realistic point spread function and add both Gaussian and Poisson noise. For the evaluation with the observed images, we use galaxy images taken by the Subaru HSC-SSP. Both of these evaluations show that our method successfully recovers the spatial resolution of the deblurred images and significantly outperforms the conventional methods. The code is publicly available from the GitHub 〈https://github.com/kzmurata-astro/PSFdeconv_amag〉.
Subsidy policies of a fresh supply chain considering the inputs of blockchain traceability service system
Authors: Liu Pan , Cui Xiaoyan , Li Ye 
Published: September 2022

AbstractTo stimulate the development and application of blockchain technology, Chinese government put forward subsidy strategy. To explore the subsidy policies under the new background, we chose a fresh supply chain with one producer, one blockchain-based traceability service provider, and one retailer as the research object, and government subsidy strategies were divided into a fixed strategy and a varying strategy. Afterward, considering the trust level of blockchain-based traceability information and consumers’ preference to the blockchain-based traceability information, we revised the demand function, and three subsidy models were proposed and analyzed. Findings: (1) the varying subsidy will help the retailer, the producer, and the traceability service provider set lower prices. (2) Meanwhile, the varying subsidies offered to the blockchain-based traceability service provider and the producer will help the whole supply chain members obtain more revenues.
Good perceived sleep quality protects against the raised risk of respiratory infection during sleep restriction in young adults
Authors: Walsh Neil P , Kashi Daniel S , Edwards Jason P , Richmond Claudia , Oliver Samuel J , Roberts Ross , Izard Rachel M , Jackson Sarah , Greeves Julie P 
Published: September 2022

Abstract

Study Objectives
Prospectively examine the association between sleep restriction, perceived sleep quality (PSQ) and upper respiratory tract infection (URTI).

Methods
In 1318 military recruits (68% males) self-reported sleep was assessed at the beginning and end of a 12-week training course. Sleep restriction was defined as an individualized reduction in sleep duration of ≥2 hours/night compared with civilian life. URTIs were retrieved from medical records.

Results
On commencing training, approximately half of recruits were sleep restricted (52%; 2.1 ± 1.6 h); despite the sleep debt, 58% of recruits with sleep restriction reported good PSQ. Regression adjusted for covariates showed that recruits commencing training with sleep restriction were more likely to suffer URTI during the course (OR = 2.93, 95% CI 1.29–6.69, p = .011). Moderation analysis showed this finding was driven by poor PSQ (B = −1.12, SE 0.50, p = .023), as no significant association between sleep restriction and URTI was observed in recruits reporting good PSQ, despite a similar magnitude of sleep restriction during training. Associations remained in the population completing training, accounting for loss to follow-up. Recruits reporting poor PSQ when healthy at the start and end of training were more susceptible to URTI (OR = 3.16, 95% CI 1.31–7.61, p = .010, vs good PSQ).

Conclusion
Good perceived sleep quality was associated with protection against the raised risk of respiratory infection during sleep restriction. Studies should determine whether improvements in sleep quality arising from behavioral sleep interventions translate to reduced respiratory infection during sleep restriction.