bluuebunny/crossref_metadata_2025_split huggingface dataset:
Charged particle tracking with quantum annealing optimization
Authors: Zlokapa Alexander , Anand Abhishek , Vlimant Jean-Roch , Duarte Javier M. , Job Joshua , Lidar Daniel , Spiropulu Maria 
Published: November 2021

AbstractAt the High Luminosity Large Hadron Collider (HL-LHC), traditional track reconstruction techniques that are critical for physics analysis will need to be upgraded to scale with track density. Quantum annealing has shown promise in its ability to solve combinatorial optimization problems amidst an ongoing effort to establish evidence of a quantum speedup. As a step towards exploiting such potential speedup, we investigate a track reconstruction approach by adapting the existing geometric Denby-Peterson (Hopfield) network method to the quantum annealing framework for HL-LHC conditions. We develop additional techniques to embed the problem onto existing and near-term quantum annealing hardware. Results using simulated annealing and quantum annealing with the D-Wave 2X system on theTrackMLopen dataset are presented, demonstrating the successful application of a quantum annealing algorithm to the track reconstruction challenge. We find that combinatorial optimization problems can effectively reconstruct tracks, suggesting possible applications for fast hardware-specific implementations at the HL-LHC while leaving open the possibility of a quantum speedup for tracking.
Towards responsible media recommendation
Authors: Elahi Mehdi , Jannach Dietmar , Skjærven Lars , Knudsen Erik , Sjøvaag Helle , Tolonen Kristian , Holmstad Øyvind , Pipkin Igor , Throndsen Eivind , Stenbom Agnes , Fiskerud Eivind , Oesch Adrian , Vredenberg Loek , Trattner Christoph 
Published: November 2021

AbstractReading or viewing recommendations are a common feature on modern media sites. What is shown to consumers as recommendations is nowadays often automatically determined by AI algorithms, typically with the goal of helping consumers discover relevant content more easily. However, the highlighting or filtering of information that comes with such recommendations may lead to undesired effects on consumers or even society, for example, when an algorithm leads to the creation of filter bubbles or amplifies the spread of misinformation. These well-documented phenomena create a need for improved mechanisms for responsible media recommendation, which avoid such negative effects of recommender systems. In this research note, we review the threats and challenges that may result from the use of automated media recommendation technology, and we outline possible steps to mitigate such undesired societal effects in the future.
Resilience of Communities in Puerto Rico Following Hurricane Maria: Community-Based Preparedness and Communication Strategies
Authors: Andrade Elizabeth L. , Barrett Nicole D. , Edberg Mark C. , Seeger Matthew W. , Santos-Burgoa Carlos 
Published: November 2021

Abstract

Objective:
This study aimed to examine factors that may have contributed to community disaster resilience following Hurricane Maria in Puerto Rico.

Methods:
In April 2018, qualitative interviews (n = 22) were conducted with stakeholders in 7 Puerto Rican municipalities (9% of total). Transcripts were deductively and inductively coded and analyzed to identify salient topics and themes, then examined according to strategic themes from the Federal Emergency Management Association’s (FEMA) Whole Community Approach.

Results:
Municipal preparedness efforts were coordinated, community-based, leveraged community assets, and prioritized vulnerable populations. Strategies included (1) multi-sectoral coordination and strategic personnel allocation; (2) neighborhood leader designation as support contacts; (3) leveraging of community leader expertise and social networks to protect vulnerable residents; (4) Censuses of at-risk groups, health professionals, and first responders; and (5) outreach for risk communication and locally tailored protective measures. In the context of collapsed telecommunications, communities implemented post-disaster strategies to facilitate communication with the Puerto Rican Government, between local first responders, and to keep residents informed, including the use of: (1) police radios; (2) vehicles with loudspeakers; (3) direct interpersonal communication; and (4) solar-powered Internet radio stations.

Conclusions:
Adaptive capacities and actions of Puerto Rican communities exemplify the importance of local solutions in disasters. Expanded research is recommended to better understand contributors to disaster resilience.
Transmission risk of severe acute respiratory coronavirus virus 2 (SARS-CoV-2) to healthcare personnel following unanticipated exposure to aerosol-generating procedures: Experience from epidemiologic investigations at an academic medical center
Authors: Fawcett Sharon E. , Madhusudhan Meghan S. , Gaddam Emily N. , Almario Matthew J. , Masih Shawna R. , Klute-Evans Dee Dee , Johnson Julie C. , Stroud Clarise D. , Dolan-Caren Judy A. , Ben-Aderet Michael A. , Luria Jeffery , Morgan Margie A. , Vail Eric , Grein Jonathan D. 
Published: November 2021

AbstractHealthcare personnel (HCP) with unprotected exposures to aerosol-generating procedures (AGPs) on patients with coronavirus disease 2019 (COVID-19) are at risk of infection with severe acute respiratory coronavirus virus 2 (SARS-CoV-2). A retrospective review at an academic medical center demonstrated an infection rate of <1% among HCP involved in AGPs without a respirator and/or eye protection.
Inhibited maturation of astrocytes caused by maternaln-3 PUFA intake deficiency hinders the development of brain glial cells in neonatal rats
Authors: Yamamoto Tatsuro , Yamamoto Ayako , Tanabe Hiroki , Nishimura Naomichi 
Published: November 2021

AbstractThe brain is rich in long-chain PUFA, which play an essential role in its development and functions. Here, we examined the impact of maternaln-3 PUFA intake deficiency during gestation and lactation on the development of glial cells in the pup’s developing cerebral cortex. In addition, using myelination as indicator and the anti-myelin basic protein as measurement to establish the relationship between the number of glial fibrillary acidic protein (GFAP)-positive cells and the development of oligodendrocytes, we determined the myelination state of the somatosensory cortex at postnatal day 14. Rat dams were fed either a control (Cont) or ann-3 PUFA-deficient (Def) diet for 60 d (acclimatisation: 14 d; gestation: 21 d; and lactation: 21 d). Pups lactated from dams throughout the experiment. The distribution pattern of astrocytes in pups on postnatal day 7 was immunohistochemically analysed using GFAP and brain lipid binding protein (BLBP) as markers for mature astrocytes and astrocyte-specific radial glial cells, respectively. It was observed that, when compared with Cont pups, GFAP-positive cells decreased, BLBP-positive cells increased and myelinated structures were sparser in the somatosensory cortices of Def pups. In the open field test on postnatal day 21, behavioural parameters did not differ between groups. Our results indicated that inhibited maturation of astrocytes caused by maternaln-3 PUFA deficiency hindered the development of brain glial cells of neonatal rats; hence, maternaln-3 PUFA intake during the gestation and lactation periods may have been crucial for the brain cell composition of pups.
Occupancy, Land Rights and the Algonquin Anishinaabeg
Authors: Coburn Veldon , Moore Margaret 
Published: November 2021

AbstractThis article is about Indigenous territorial title and land rights, and specifically those of the Algonquin Anishinaabeg Nation. In 1983, the Algonquins of Pikwàkanagàn, residing in the province of Ontario, petitioned the Crown to recognize Algonquin territorial title and rights to 36,000 square kilometres of their natal homelands in the Ottawa River watershed. With negotiations beginning in the early 1990s, an Agreement-in-Principle was developed and ratified in 2016, the penultimate step to the largest modern treaty in Ontario's history. In this article, we examine the argument for moral rights to territory, not in terms of the Canadian or international legal order, nor even through examining the documents and voice of the Algonquin Anishinaabeg, but through the lens of an argument that has been advanced as the basis of the international territorial rights of states. We argue that the justifications for state rights territory—grounded in the considerations that ensue from an analysis of occupancy groups—provides a stronger claim to territorial jurisdiction and title in the case of the Algonquin Anishinaabeg Nation than the competing claim by the Canadian state.
RE-ENACTMENTS OF THE PROLOGUE IN CUPID'S PALACE: AN IMMERSIVE READING OF APULEIUS’ STORY OF CUPID AND PSYCHE
Authors: Tagliabue Aldo 
Published: November 2021

AbstractThis article offers a new interpretation of Apuleius’ story of Cupid and Psyche. Most scholars have previously offered a second-time reading of this story, according to which the reader reaches Book 11 and then looks back at Psyche's story of fall and redemption as a parallel for Lucius’ life. Following Graverini's and other scholars’ emotional approach to theMetamorphoses, I argue that the ecphrasis of Cupid's palace within the story of Cupid and Psyche includes multiple re-enactments of the novel's prologue. These re-enactments invite the reader to undertake a first-time and immersive reading of this story, which focusses on Psyche's experience of Cupid and her reaction to his epiphany. In its use of immersion, this article draws from recent developments in cognitive narratology and pushes scholars of Apuleius to focus on the reader's immersive and emotional response in order to reassess the value of a second-time reading of theMetamorphoses.
Deprivation of Retirement Benefits on Divorce through Living Annuities in South Africa
Authors: Marumoagae Motseotsile Clement 
Published: November 2021

AbstractThis article discusses the law regulating living annuities when spouses in South Africa are divorcing. It demonstrates that South African courts have interpreted the law to prejudice non-member spouses financially. It argues that courts have failed to consider matrimonial principles when determining whether living annuities are susceptible to being shared on divorce. It argues further that adequate consideration of matrimonial principles will render it impossible for retirement fund members to prejudice their spouses financially by purchasing living annuities without the consent of such spouses, particularly when married in community of property. Disregarding matrimonial law principles may lead to deprivation of property.
Trace element assessment in Neoechinorhynchus agilis (Rudolphi, 1918) (Acanthocephala: Neoechinorhynchidae) and its fish hosts, Mugil cephalus (Linnaeus, 1758) and Chelon ramada (Risso, 1827) from Ichkeul Lagoon, Tunisia
Authors: Jmii Chine H. , Nachev M. , Sures B. , Gargouri L. 
Published: November 2021

Abstract
Acanthocephalans belonging to the species Neoechinorhynchus agilis were collected from two mullets, Mugil cephalus and Chelon ramada from Ichkeul Lagoon in northern Tunisia. Collected parasites, as well as tissues of their hosts (muscle, liver and intestine), were analysed for trace elements (silver, arsenic, cadmium, cobalt, copper, iron, manganese, nickel (Ni), lead (Pb), selenium, vanadium (V), zinc) using inductively coupled plasma mass spectrometry. Our results showed different accumulation patterns of trace elements in fish tissues and parasites. Among the host tissues, liver accumulated the highest metal amounts. Acanthocephalans showed Ni, Pb and V in significantly higher concentrations compared to their host's tissues. Further, the calculated bioconcentration factors demonstrated a 390-fold higher Pb accumulation in the parasite compared to fish muscle. This study is the first field survey in Tunisia dealing with elements’ uptake in parasites and their hosts. Our results corroborate the usefulness of the acanthocephalans for biomonitoring of metal pollution in aquatic ecosystems and promote more research in order to understand host–parasite systems in brackish waters of the Mediterranean area.
Immunochemotherapy for visceral leishmaniasis: combinatorial action of Miltefosine plus LBSapMPL vaccine improves adaptative Th1 immune response with control of splenic parasitism in experimental hamster model
Authors: Carvalho Lívia Mendes , Gusmão Miriã Rodrigues , Costa Ana Flávia Pereira , de Brito Rory Cristiane Fortes , Aguiar-Soares Rodrigo Dian de Oliveira , Cardoso Jamille Mirelle de Oliveira , Reis Alexandre Barbosa , Carneiro Cláudia Martins , Roatt Bruno Mendes 
Published: November 2021

AbstractThe control of human visceral leishmaniasis (VL) is hard since there are no vaccines available as well as the treatment is hampered by toxicity and resistant parasites. Furthermore, as human, and canine VL causes immunosuppression, the combination of drugs with immunostimulatory agents is interesting to upregulate the immunity, reducing side-effects, improving treatment approaches against disease. Herein, we assessed the immunochemotherapy using miltefosine along with a vaccine formulated by Leishmania braziliensis antigens + saponin + monophosphoryl lipid-A (LBSapMPL) in L. infantum-infected hamsters. Two months after infection, the animals received treatments, and after 15 days they were evaluated for the treatment effect. The potential anti-Leishmania effect of miltefosine + LBSapMPL-vaccine was revealed by a specific immune response activation reflecting in control of spleen parasitism using half the miltefosine treatment time. The treated animals also showed an increase of total and T-CD4 splenocytes producing IFN-γ and TNF-α and a decrease of interleukin-10 and anti-Leishmania circulating IgG. In addition, it was demonstrated that the control of spleen parasitism is related to the generation of a protective Th1 immune response. Hence, due to the combinatorial action of miltefosine with LBSapMPL-vaccine in immunostimulating and controlling parasitism, this immunochemotherapy protocol can be an important alternative option against canine and human VL.
Modelling the impact of universal influenza vaccines on seasonal influenza with different subtypes
Authors: Li Rui , Li Qian , Liu Yiming , Shen Mingwang , Zhang Lei , Zhuang Guihua 
Published: November 2021

Abstract
Several candidates of universal influenza vaccine (UIV) have entered phase III clinical trials, which are expected to improve the willingness and coverage of the population substantially. The impact of UIV on the seasonal influenza epidemic in low influenza vaccination coverage regions like China remains unclear. We proposed a new compartmental model involving the transmission of different influenza subtypes to evaluate the effects of UIV. We calibrated the model by weekly surveillance data of influenza in Xi'an City, Shaanxi Province, China, during 2010/11–2018/19 influenza seasons. We calculated the percentage of averted infections under 2-month (September to October) and 6-month (September to the next February) vaccination patterns with varied UIV effectiveness and coverage in each influenza season, compared with no UIV scenario. A total of 195 766 influenza-like illness (ILI) cases were reported during the nine influenza seasons (2010/11–2018/19), of which the highest ILI cases were among age group 0–4 (59.60%) years old, followed by 5–14 (25.22%), 25–59 (8.19%), 15–24 (3.75%) and ⩾60 (3.37%) years old. The influenza-positive rate for all age groups among ILI cases was 17.51%, which is highest among 5–14 (23.75%) age group and followed by 25–59 (16.44%), 15–24 (16.42%), 0–4 (14.66%) and ⩾60 (13.98%) age groups, respectively. Our model showed that UIV might greatly avert influenza infections irrespective of subtypes in each influenza season. For example, in the 2018/19 influenza season, 2-month vaccination pattern with low UIV effectiveness (50%) and coverage (10%), and high UIV effectiveness (75%) and coverage (30%) could avert 41.6% (95% CI 27.8–55.4%) and 83.4% (80.9–85.9%) of influenza infections, respectively; 6-month vaccination pattern with low and high UIV effectiveness and coverage could avert 32.0% (15.9–48.2%) and 74.2% (69.7–78.7%) of influenza infections, respectively. It would need 11.4% (7.9–15.0%) of coverage to reduce half of the influenza infections for 2-month vaccination pattern with low UIV effectiveness and 8.5% (5.0–11.2%) of coverage with high UIV effectiveness, while it would need 15.5% (8.9–20.7%) of coverage for 6-month vaccination pattern with low UIV effectiveness and 11.2% (6.5–15.0%) of coverage with high UIV effectiveness. We conclude that UIV could significantly reduce the influenza infections even for low UIV effectiveness and coverage. The 2-month vaccination pattern could avert more influenza infections than the 6-month vaccination pattern irrespective of influenza subtype and UIV effectiveness and coverage.
An outbreak of food poisoning due toEscherichia coliserotype O7:H4 carryingastAfor enteroaggregativeE. coliheat-stable enterotoxin1 (EAST1)
Authors: Kashima K. , Sato M. , Osaka Y. , Sakakida N. , Kando S. , Ohtsuka K. , Doi R. , Chiba Y. , Takase S. , Fujiwara A. , Shimada S. , Ishii R. , Mizokoshi A. , Takano M. , Lee K. , Iyoda S. , Honda A. 
Published: November 2021

AbstractIn June 2020, a large-scale food poisoning outbreak involving about 3000 elementary and junior high school students occurred in Yashio, Saitama, Japan. A school lunch was the only food stuff ingested by all of the patients.Escherichia coliserotype O7:H4 carrying theastAgene for enteroaggregativeE. coli(EAggEC) heat-stable enterotoxin 1 (EAST1) was detected in faecal specimens from the patients, and sample inspection revealed its presence in a seaweed salad and red seaweed (Gigartina tenella) as one of the raw materials. Analysis of the antibiotic sensitivity of the isolates revealed resistance to ampicillin and cefotaxime. All isolates were confirmed to be of the same origin by pulsed-field gel electrophoresis after digestion with the restriction enzymeXbaI, and single nucleotide polymorphism analysis using whole genome sequencing. To our knowledge, this is the first report of a large-scale food poisoning caused byE. coliO7:H4, which lacks well-characterized virulence genes other thanastA.
A Werner A2 ewer from Byzantine Cartagena and the distribution of bronze cast vessels in the western Mediterranean around 600 CE
Authors: Pinar Gil Joan , Vizcaíno Sánchez Jaime 
Published: November 2021

AbstractDuring the 6th and 7th c. CE, Carthago Spartaria (modern Cartagena) became one of the most important cities in the Byzantine province of Spania. Recent archaeological excavations at Cerro del Molinete have significantly increased our knowledge of the ancient city, enabling the exploration of an early Byzantine neighborhood built over the Roman Forum district. A cast bronze ewer of type Werner A2 was found in a pit dug over the temple that presided over the Forum. The associated materials, mainly pottery and glass vessels, are compatible with a deposition between 580/90 and 650/60 CE. This assemblage improves our understanding of the trade networks interconnecting the Mediterranean basin during the 6th and 7th c. CE. In this context, we argue that the unknown production center of the A2 ewers was located in the northern Adriatic, probably in Ravenna.
Arginine methylation and ubiquitylation crosstalk controls DNA end-resection and homologous recombination repair
Authors: Sanchez-Bailon Maria Pilar , Choi Soo-Youn , Dufficy Elizabeth R. , Sharma Karan , McNee Gavin S. , Gunnell Emma , Chiang Kelly , Sahay Debashish , Maslen Sarah , Stewart Grant S. , Skehel J. Mark , Dreveny Ingrid , Davies Clare C. 
Published: November 2021

AbstractCross-talk between distinct protein post-translational modifications is critical for an effective DNA damage response. Arginine methylation plays an important role in maintaining genome stability, but how this modification integrates with other enzymatic activities is largely unknown. Here, we identify the deubiquitylating enzyme USP11 as a previously uncharacterised PRMT1 substrate, and demonstrate that the methylation of USP11 promotes DNA end-resection and the repair of DNA double strand breaks (DSB) by homologous recombination (HR), an event that is independent from another USP11-HR activity, the deubiquitylation of PALB2. We also show that PRMT1 is a ubiquitylated protein that it is targeted for deubiquitylation by USP11, which regulates the ability of PRMT1 to bind to and methylate MRE11. Taken together, our findings reveal a specific role for USP11 during the early stages of DSB repair, which is mediated through its ability to regulate the activity of the PRMT1-MRE11 pathway.
The generative capacity of probabilistic protein sequence models
Authors: McGee Francisco , Hauri Sandro , Novinger Quentin , Vucetic Slobodan , Levy Ronald M. , Carnevale Vincenzo , Haldane Allan 
Published: November 2021

AbstractPotts models and variational autoencoders (VAEs) have recently gained popularity as generative protein sequence models (GPSMs) to explore fitness landscapes and predict mutation effects. Despite encouraging results, current model evaluation metrics leave unclear whether GPSMs faithfully reproduce the complex multi-residue mutational patterns observed in natural sequences due to epistasis. Here, we develop a set of sequence statistics to assess the “generative capacity” of three current GPSMs: the pairwise Potts Hamiltonian, the VAE, and the site-independent model. We show that the Potts model’s generative capacity is largest, as the higher-order mutational statistics generated by the model agree with those observed for natural sequences, while the VAE’s lies between the Potts and site-independent models. Importantly, our work provides a new framework for evaluating and interpreting GPSM accuracy which emphasizes the role of higher-order covariation and epistasis, with broader implications for probabilistic sequence models in general.
Molecular programs of fibrotic change in aging human lung
Authors: Lee Seoyeon , Islam Mohammad Naimul , Boostanpour Kaveh , Aran Dvir , Jin Guangchun , Christenson Stephanie , Matthay Michael A. , Eckalbar Walter L. , DePianto Daryle J. , Arron Joseph R. , Magee Liam , Bhattacharya Sunita , Matsumoto Rei , Kubota Masaru , Farber Donna L. , Bhattacharya Jahar , Wolters Paul J. , Bhattacharya Mallar 
Published: November 2021

AbstractLung fibrosis is increasingly detected with aging and has been associated with poor outcomes in acute lung injury or infection. However, the molecular programs driving this pro-fibrotic evolution are unclear. Here we profile distal lung samples from healthy human donors across the lifespan. Gene expression profiling by bulk RNAseq reveals both increasing cellular senescence and pro-fibrotic pathway activation with age. Quantitation of telomere length shows progressive shortening with age, which is associated with DNA damage foci and cellular senescence. Cell type deconvolution analysis of the RNAseq data indicates a progressive loss of lung epithelial cells and an increasing proportion of fibroblasts with age. Consistent with this pro-fibrotic profile, second harmonic imaging of aged lungs demonstrates increased density of interstitial collagen as well as decreased alveolar expansion and surfactant secretion. In this work, we reveal the transcriptional and structural features of fibrosis and associated functional impairment in normal lung aging.