bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transatlantic Noise
Authors: Meer Sarah 
Published: November 2020

AbstractThese three books position themselves within Atlantic studies, but despite significant differences in conceiving that frame, they all, to some extent, conflate the Atlantic world with the US. I suggest that this reflex contraction bears out the regular complaints that the field is prone to Eurocentricism, and dominated by northern, anglophone perspectives. Moreover, as the unequal distribution of academic prestige is reflected in our professional culture and its productions, it is worth attending to the effects of global disparities on writers, journals and scholarly organizations, and their responses to them. For Europeans, studying certain issues on the other side of the Atlantic can be a way to avoid facing them at home; meanwhile, the appearance of an African center for studying the US is hailed as a decolonizing event. Yet both manifest the westward pull of research attention that is so often evident in Atlantic studies, including in these books.There is an important difference … between exploring one’s worldliness and mistaking oneself for the world. Each of the reviewed texts could be charged … with sailing an American ship under an Atlantic flag.
Encyclopedia of tools for the analysis of miRNA isoforms
Authors: Schmartz Georges Pierre , Kern Fabian , Fehlmann Tobias , Wagner Viktoria , Fromm Bastian , Keller Andreas 
Published: November 2020

Abstract
RNA sequencing data sets rapidly increase in quantity. For microRNAs (miRNAs), frequently dozens to hundreds of billion reads are generated per study. The quantification of annotated miRNAs and the prediction of new miRNAs are leading computational tasks. Now, the increased depth of coverage allows to gain deeper insights into the variability of miRNAs. The analysis of isoforms of miRNAs (isomiRs) is a trending topic, and a range of computational tools for the analysis of isomiRs has been developed. We provide an overview on 27 available computational solutions for the analysis of isomiRs. These include both stand-alone programs (17 tools) and web-based solutions (10 tools) and span a publication time range from 2010 to 2020. Seven of the tools were published in 2019 and 2020, confirming the rising importance of the topic. While most of the analyzed tools work for a broad range of organisms or are completely independent of a reference organism, several tools have been tailored for the analysis of human miRNA data or for plants. While 14 of the tools are general analysis tools of miRNAs, and isomiR analysis is one of their features, the remaining 13 tools have specifically been developed for isomiR analysis. A direct comparison on 20 deep sequencing data sets for selected tools provides insights into the heterogeneity of results. With our work, we provide users a comprehensive overview on the landscape of isomiR analysis tools and in that support the selection of the most appropriate tool for their respective research task.
Evolution of litter size in bats and its influence on longevity and roosting ecology
Authors: Garbino Guilherme Siniciato Terra , Feijó Anderson , Beltrão-Mendes Raone , Da Rocha Patrício Adriano 
Published: November 2020

Abstract
Litter size varies in mammals, with about half of the species producing at least two offspring per gestation (polytocy). In bats, however, the modal litter size is one (monotocy), and polytocy is restricted to family Vespertilionidae. Here, we reconstruct the evolutionary history of polytocy in chiropterans and use phylogenetically informed regressions to investigate its relationship to roost type, longevity and group size. Our phylogenetic reconstructions suggested that production of multiple offspring was the ancestral condition in family Vespertilionidae. The distribution of monotocy/polytocy in Chiroptera was best explained by a minimum of two evolutionary transitions from monotocy to polytocy and by ≥ 18 transitions from polytocy to monotocy. The regression models showed that longevity and roost type explained the variation in litter size, whereas group size did not. Our analyses also revealed a greater diversity of polytocous bats in the Northern Hemisphere, in both temperate and tropical regions. We suggest that the high resource allocation to reproduction in polytocous bats limited their lifespan. The absence of a relationship between polytocy and group size indicates that the benefits of cooperative breeding surpass the costs of intrasexual competition in bats.
Species diversity and biogeography of an ancient frog clade from the Guiana Shield (Anura: Microhylidae:Adelastes,Otophryne,Synapturanus) exhibiting spectacular phenotypic diversification
Authors: Fouquet Antoine , Leblanc Killian , Framit Marlene , Réjaud Alexandre , Rodrigues Miguel T , Castroviejo-Fisher Santiago , Peloso Pedro L V , Prates Ivan , Manzi Sophie , Suescun Uxue , Baroni Sabrina , Moraes Leandro J C L , Recoder Renato , de Souza Sergio Marques , Dal Vecchio Francisco , Camacho Agustín , Ghellere José Mario , Rojas-Runjaic Fernando J M , Gagliardi-Urrutia Giussepe , de Carvalho Vinícius Tadeu , Gordo Marcelo , Menin Marcelo , Kok Philippe J R , Hrbek Tomas , Werneck Fernanda P , Crawford Andrew J , Ron Santiago R , Mueses-Cisneros Jonh Jairo , Rojas Zamora Rommel Roberto , Pavan Dante , Ivo Simões Pedro , Ernst Raffael , Fabre Anne-Claire 
Published: November 2020

AbstractThe outstanding biodiversity of the Guiana Shield has raised many questions about its origins and evolution. Frogs of the genera Adelastes, Otophryne and Synapturanus form an ancient lineage distributed mostly across this region. These genera display strikingly disparate morphologies and life-history traits. Notably, Synapturanus is conspicuously adapted to fossoriality and is the only genus within this group to have dispersed further into Amazonia. Moreover, morphological differences among Synapturanus species suggest different degrees of fossoriality that might be linked to their biogeographical history. Through integrative analysis of genetic, morphometric and acoustic data, we delimited 25 species in this clade, representing a fourfold increase. We found that the entire clade started to diversify ~55 Mya and Synapturanus ~30 Mya. Members of this genus probably dispersed three times out of the Guiana Shield both before and after the Pebas system, a wetland ecosystem occupying most of Western Amazonia during the Miocene. Using a three-dimensional osteological dataset, we characterized a high morphological disparity across the three genera. Within Synapturanus, we further characterized distinct phenotypes that emerged concomitantly with dispersals during the Miocene and possibly represent adaptations to different habitats, such as soils with different physical properties.
Differentiation in the eastern AsianPeriphyllus koelreuteriae(Hemiptera: Aphididae) species complex driven by climate and host plant
Authors: Li Qiang , Lin Xiaolan , Li Junjie , Liu Bing , Huang Xiaolei 
Published: November 2020

AbstractDivergent adaptation to different ecological conditions is regarded as important for speciation. For phytophagous insects, there is limited empirical evidence on species differentiation driven by climate and host plant. The recent application of molecular data and integrative taxonomic practice may improve our understanding of population divergence and speciation. Periphyllus koelreuteriae aphids feed exclusively on Koelreuteria (Sapindaceae) in temperate and subtropical regions of eastern Asia, and show morphological and phenological variations in different regions. In this study, phylogenetic and haplotype network analyses based on four genes revealed that P. koelreuteriae populations comprised three distinct genetic clades corresponding to climate and host plants, with the populations from subtropical highland regions and on Koelreuteria bipinnata host plants representing the most basal clade. These genetic lineages also showed distinct characteristics in terms of morphology and life cycle. The results indicate that P. koelreuteriae is a species complex with previously unrevealed lineages, whose differentiation may have been driven by climatic difference and host plant.
A benchmark for dose-finding studies with unknown ordering
Authors: Mozgunov Pavel , Paoletti Xavier , Jaki Thomas 
Published: November 2020

Summary
An important tool to evaluate the performance of a dose-finding design is the nonparametric optimal benchmark that provides an upper bound on the performance of a design under a given scenario. A fundamental assumption of the benchmark is that the investigator can arrange doses in a monotonically increasing toxicity order. While the benchmark can be still applied to combination studies in which not all dose combinations can be ordered, it does not account for the uncertainty in the ordering. In this article, we propose a generalization of the benchmark that accounts for this uncertainty and, as a result, provides a sharper upper bound on the performance. The benchmark assesses how probable the occurrence of each ordering is, given the complete information about each patient. The proposed approach can be applied to trials with an arbitrary number of endpoints with discrete or continuous distributions. We illustrate the utility of the benchmark using recently proposed dose-finding designs for Phase I combination trials with a binary toxicity endpoint and Phase I/II combination trials with binary toxicity and continuous efficacy.
Constituting Child-to-Parent Violence: Lessons from England and Wales
Authors: Holt Amanda , Lewis Sam 
Published: November 2020

AbstractThis paper draws upon the first national study of local responses to child-to-parent violence (CPV) in England and Wales to examine emergent representations of CPV and consider their implications for children and families. Central amongst these is the Government’s depiction of CPV as a form of ‘domestic violence and abuse’. For many individuals and organizations, that term is synonymous with intimate partner violence. We contend that the resulting conflation of (and confusion between) violence by intimate partners, and by children, towards women is producing dominant representations of CPV that may have negative consequences for families. Our research with over 200 practitioners reveals the existence of subjugated knowledges of CPV, however, that provide pockets of resistance to these dominant representations.
Auditory localization should be considered as a sign of minimally conscious state based on multimodal findings
Authors: Carrière Manon , Cassol Helena , Aubinet Charlène , Panda Rajanikant , Thibaut Aurore , Larroque Stephen K , Simon Jessica , Martial Charlotte , Bahri Mohamed A , Chatelle Camille , Martens Géraldine , Chennu Srivas , Laureys Steven , Gosseries Olivia 
Published: November 2020

AbstractAuditory localization (i.e. turning the head and/or the eyes towards an auditory stimulus) is often part of the clinical evaluation of patients recovering from coma. The objective of this study is to determine whether auditory localization could be considered as a new sign of minimally conscious state, using a multimodal approach. The presence of auditory localization and the clinical outcome at 2 years of follow-up were evaluated in 186 patients with severe brain injury, including 64 with unresponsive wakefulness syndrome, 28 in minimally conscious state minus, 71 in minimally conscious state plus and 23 who emerged from the minimally conscious state. Brain metabolism, functional connectivity and graph theory measures were investigated by means of 18F-fluorodeoxyglucose positron emission tomography, functional MRI and high-density electroencephalography in two subgroups of unresponsive patients, with and without auditory localization. These two subgroups were also compared to a subgroup of patients in minimally conscious state minus. Auditory localization was observed in 13% of unresponsive patients, 46% of patients in minimally conscious state minus, 62% of patients in minimally conscious state plus and 78% of patients who emerged from the minimally conscious state. The probability to observe an auditory localization increased along with the level of consciousness, and the presence of auditory localization could predict the level of consciousness. Patients with auditory localization had higher survival rates (at 2-year follow-up) than those without localization. Differences in brain function were found between unresponsive patients with and without auditory localization. Higher connectivity in unresponsive patients with auditory localization was measured between the fronto-parietal network and secondary visual areas, and in the alpha band electroencephalography network. Moreover, patients in minimally conscious state minus significantly differed from unresponsive patients without auditory localization in terms of brain metabolism and alpha network centrality, whereas no difference was found with unresponsive patients who presented auditory localization. Our multimodal findings suggest differences in brain function between unresponsive patients with and without auditory localization, which support our hypothesis that auditory localization should be considered as a new sign of minimally conscious state. Unresponsive patients showing auditory localization should therefore no longer be considered unresponsive but minimally conscious. This would have crucial consequences on these patients’ lives as it would directly impact the therapeutic orientation or end-of-life decisions usually taken based on the diagnosis.
Frequent neurocognitive deficits after recovery from mild COVID-19
Authors: Woo Marcel S , Malsy Jakob , Pöttgen Jana , Seddiq Zai Susan , Ufer Friederike , Hadjilaou Alexandros , Schmiedel Stefan , Addo Marylyn M , Gerloff Christian , Heesen Christoph , Schulze Zur Wiesch Julian , Friese Manuel A 
Published: November 2020

Abstract
Neuropsychiatric complications associated with coronavirus disease 2019 caused by the Coronavirus SARS-CoV-2 (COVID-19) are increasingly appreciated. While most studies have focussed on severely affected individuals during acute infection, it remains unclear whether mild COVID-19 results in neurocognitive deficits in young patients. Here, we established a screening approach to detect cognitive deficiencies in post-COVID-19 patients. In this cross-sectional study, we recruited 18 mostly young patients 20–105 days (median, 85 days) after recovery from mild to moderate disease who visited our outpatient clinic for post-COVID-19 care. Notably, 14 (78%) patients reported sustained mild cognitive deficits and performed worse in the Modified Telephone Interview for Cognitive Status screening test for mild cognitive impairment compared to 10 age-matched healthy controls. While short-term memory, attention and concentration were particularly affected by COVID-19, screening results did not correlate with hospitalization, treatment, viremia or acute inflammation. Additionally, Modified Telephone Interview for Cognitive Status scores did not correlate with depressed mood or fatigue. In two severely affected patients, we excluded structural or other inflammatory causes by magnetic resonance imaging, serum and cerebrospinal fluid analyses. Together, our results demonstrate that sustained sub-clinical cognitive impairments might be a common complication after recovery from COVID-19 in young adults, regardless of clinical course that were unmasked by our diagnostic approach.
Distribution and prognostic impact of M1 macrophage on esophageal squamous cell carcinoma
Authors: Jiang Chen Hao , Liang Wei Hua , Li Fan Ping , Xie Yu Fang , Yuan Xin , Zhang Hai Jun , Li Man , Li Jiang Fen , Zhang An Zhi , Yang Lan , Liu Chun Xia , Pang Li Juan , Li Feng , Hu Jian Ming 
Published: November 2020

Abstract
Macrophages are a double-edged sword with potential cancer-promoting and anticancer effects. Controversy remains regarding the effect of macrophages, especially M1 macrophages, on tumor promotion and suppression. We aimed to investigate the role of M1 macrophages in the occurrence and progression of esophageal squamous cell carcinoma (ESCC). Analyzing the data in Gene Expression Omnibus database by the CIBERSORT algorithm found that M1 macrophages were one of the important components of many immune cells in ESCCs, and the increase in their number was obviously negatively correlated with tumor T staging. This result was verified by our experimental data: the density of CD68/HLA-DR double-stained M1 macrophages in ESCC tumor nest and tumor stroma was significantly higher than that in cancer-adjacent normal (CAN) tissues. The density of M1 macrophages in ESCC tumor nest was negatively correlated with the patient’s lymph node metastasis and clinical stage (P &lt; 0.05), and the negative tendency was more obvious for M1 macrophages in ESCC tumor stroma (P &lt; 0.001). Exposure to M1 macrophage-conditioned medium inhibited ESCC cell migration and invasion ability significantly (P &lt; 0.05). Moreover, the increased M1 macrophage density in ESCC tumor stroma correlated positively with good prognosis of ESCC. M1 macrophages were involved in inhibiting ESCC cell migration and invasion, which could serve as a good prognostic factor in patients with ESCC.
Actual and Imagined Movements Reveal a Dual Role of the Insular Cortex for Motor Control
Authors: Rousseau Célia , Barbiero Marie , Pozzo Thierry , Papaxanthis Charalambos , White Olivier 
Published: November 2020

Abstract
Movements rely on a mixture of feedforward and feedback mechanisms. With experience, the brain builds internal representations of actions in different contexts. Many factors are taken into account in this process among which is the immutable presence of gravity. Any displacement of a massive body in the gravitational field generates forces and torques that must be predicted and compensated by appropriate motor commands. The insular cortex is a key brain area for graviception. However, no attempt has been made to address whether the same internal representation of gravity is shared between feedforward and feedback mechanisms. Here, participants either mentally simulated (only feedforward) or performed (feedforward and feedback) vertical movements of the hand. We found that the posterior part of the insular cortex was engaged when feedback was processed. The anterior insula, however, was activated only in mental simulation of the action. A psychophysical experiment demonstrates participants’ ability to integrate the effects of gravity. Our results point toward a dual internal representation of gravity within the insula. We discuss the conceptual link between these two dualities.
Desirability of Outcome Ranking for the Management of Antimicrobial Therapy (DOOR MAT): A Framework for Assessing Antibiotic Selection Strategies in the Presence of Drug Resistance
Authors: Wilson Brigid M , Jiang Yunyun , Jump Robin L P , Viau Roberto A , Perez Federico , Bonomo Robert A , Evans Scott R 
Published: November 2020

Abstract
The complexities of antibiotic resistance mean that successful stewardship must consider both the effectiveness of a given antibiotic and the spectrum of that therapy to minimize imposing further selective pressure. To meet this challenge, we propose the Desirability of Outcome Ranking approach for the Management of Antimicrobial Therapy (DOOR MAT), a flexible quantitative framework that evaluates the desirability of antibiotic selection. Herein, we describe the steps required to implement DOOR MAT and present examples to illustrate how the desirability of treatment selection can be evaluated using resistance information. While treatments and the scoring of treatment selections must be adapted to specific clinical settings, the principle of DOOR MAT remains constant: The most desirable antibiotic choice effectively treats the patient while exerting minimal pressure on future resistance.
Tofacitinib for the Treatment of Ulcerative Colitis: Analysis of Infection Rates from the Ulcerative Colitis Clinical Programme
Authors: Winthrop Kevin L , Loftus Edward V , Baumgart Daniel C , Reinisch Walter , Nduaka Chudy I , Lawendy Nervin , Chan Gary , Mundayat Rajiv , Friedman Gary S , Salese Leonardo , Thorpe Andrew J , Su Chinyu 
Published: November 2020

Abstract

Background and Aims
Tofacitinib is an oral, small molecule JAK inhibitor for the treatment of ulcerative colitis. We report integrated analyses of infections in the Phase [P]2 and P3 OCTAVE programmes.

Methods
Three cohorts were analysed: Induction [P2/3 induction studies]; Maintenance [P3 maintenance study]; and Overall [all tofacitinib-treated patients in induction, maintenance, or ongoing, open-label, long-term extension studies; as of May 2019]. Proportions and incidence rates [IRs; unique patients with events/100 patient-years] of serious infections [SIs], herpes zoster [HZ] [non-serious and serious], and opportunistic infections [OIs] are reported [censored at time of event].

Results
In the Induction Cohort [N = 1220], no patients receiving placebo and eight [0.9%] receiving tofacitinib 10 mg twice daily [BID] developed SIs. Maintenance Cohort [N = 592] SI IRs (95% confidence interval [CI]) were 1.94 [0.23–7.00] for placebo and 1.35 [0.16–4.87] and 0.64 [0.02–3.54] for tofacitinib 5 and 10 mg BID, respectively; HZ IRs were 0.97 [0.02–5.42], 2.05 [0.42–6.00], and 6.64 [3.19–12.22], respectively. In the Overall Cohort [N = 1157; 82.9% predominantly received tofacitinib 10 mg BID], SI, HZ, and non-HZ OI IRs were 1.70 [1.24–2.27], 3.48 [2.79–4.30], and 0.15 [0.04–0.38], respectively. No SIs resulted in death.

Conclusions
During induction, SIs were more frequent with tofacitinib versus placebo. SIs were generally infrequent in the Maintenance and Overall Cohorts, with rates comparable between treatment groups. Maintenance Cohort HZ IR was numerically higher with tofacitinib 10 mg BID versus 5 mg BID. Overall Cohort HZ IRs remained stable over time. Non-HZ OIs and viral infections were rare.
Cost-effectiveness of cardiac telerehabilitation in coronary artery disease and heart failure patients: systematic review of randomized controlled trials
Authors: Scherrenberg Martijn , Falter Maarten , Dendale Paul 
Published: November 2020

Abstract
This systematic review aims to assess the cost-effectiveness of cardiac telerehabilitation in comparison with centre-based cardiac rehabilitation (CR). Evidence of cost-effectiveness is an important step towards implementation and reimbursement of telerehabilitation services. Electronic databases were searched for economic evaluations of telerehabilitation programmes. Only randomized controlled trials (RCTs) published in English were eligible for inclusion. Study quality and risk of bias were assessed using the Consensus Health Economic Criteria (CHEC) list. A total of eight economic evaluations met the review inclusion criteria. The total sample size consisted of 751 patients ranging from a minimum of 46 patients to a maximum of 162 patients per study. Maximal follow-up was 5 years. A total of seven of the eight included studies demonstrated that telerehabilitation could lead to similar or lower long-term costs and are thus as cost-effective as traditional centre-based CR. There is significant heterogeneity between all included telerehabilitation interventions in duration, used technology, cost included and follow-up. Based on these small short duration trials, telerehabilitation may be as cost-effective as traditional centre-based approaches. However, more assessments of the value for money of telerehabilitation in larger and longer RCTs are needed both in high- as low-income countries.