bluuebunny/crossref_metadata_2025_split huggingface dataset:
Highly efficient reprogrammable mouse lines with integrated reporters to track the route to pluripotency
Authors: Elbaz Judith , Puri Mira C. , Faiz Maryam , Bang K. W. Annie , Nguyen Lena , Makovoz Bar , Gertsenstein Marina , Hussein Samer M. I. , Zandstra Peter W. , Briollais Laurent , Shakiba Nika , Nagy Andras 
Published: December 2022

Revealing the molecular events associated with reprogramming different somatic cell types to pluripotency is critical for understanding the characteristics of induced pluripotent stem cell (iPSC) therapeutic derivatives. Inducible reprogramming factor transgenic cells or animals—designated as secondary (2°) reprogramming systems—not only provide excellent experimental tools for such studies but also offer a strategy to study the variances in cellular reprogramming outcomes due to different in vitro and in vivo environments. To make such studies less cumbersome, it is desirable to have a variety of efficient reprogrammable mouse systems to induce successful mass reprogramming in somatic cell types. Here, we report the development of two transgenic mouse lines from which 2° cells reprogram with unprecedented efficiency. These systems were derived by exposing primary reprogramming cells containing doxycycline-inducible Yamanaka factor expression to a transient interruption in transgene expression, resulting in selection for a subset of clones with robust transgene response. These systems also include reporter genes enabling easy readout of endogenous
Oct4
activation (GFP), indicative of pluripotency, and reprogramming transgene expression (mCherry). Notably, somatic cells derived from various fetal and adult tissues from these 2° mouse lines gave rise to highly efficient and rapid reprogramming, with transgene-independent iPSC colonies emerging as early as 1 wk after induction. These mouse lines serve as a powerful tool to explore sources of variability in reprogramming and the mechanistic underpinnings of efficient reprogramming systems.
A step in the right direction? Analyzing the Wess Zumino Dark Radiation solution to the Hubble tension
Authors: Schöneberg Nils , Franco Abellán Guillermo 
Published: December 2022

Abstract
The Wess Zumino Dark Radiation (WZDR) model first proposed in [1] shows great promise as a well-motivated simple explanation of the Hubble tension between local and CMB-based measurements, reducing the tension from 4.8σ to around 2.7σ. In this work we investigate the assumptions made in the original proposal and confront the model with additional independent data sets. We show that the original assumptions can have an impact on the overall results but are usually well motivated. If one assumes that the abundance of the WZDR is already produced during times relevant for big bang nucleosynthesis, the ability of the model to ease the Hubble tension is restricted. We further demonstrate that the preference for negative Ω
k
observed in Planck data remains at a similar level as for the ΛCDM model, while the AL
tension is slightly increased. Furthermore, the tension between Planck data for ℓ < 800 and ℓ ≥ 800 is significantly reduced for the WZDR model.
The Planck-independent data sets show slightly more permissive bounds on the Hubble parameter, allowing the tension to be further reduced from 2.7σ to 2.1σ (CMB-independent) or 1.9σ (ACT+WMAP). However, no combination shows a large preference for the presence of WZDR. We also investigate whether additional dark radiation-dark matter interactions can help in easing the S
8 tension as well. Assuming all of the dark matter to be interacting and a temperature-independent scattering rate, we find that the CMB data are too restrictive on this additional component as to allow a significant decrease in the clustering.
Regimes of Extreme Permission in Southeast Asia: Theorizing State-Corporate Crime in the Global South
Authors: Ciocchini Pablo , Greener Joe 
Published: December 2022

AbstractCorporations’ profit-making objectives are a central force guiding development strategies in the Global South but contradictorily can be blamed for a range of social and environmental harms. This article brings a state-corporate crime lens to bear on the economic and political processes that shape Global South-located commodity production. It seeks to understand the functioning of neo-imperialist profiteering through elaborating the concept of regimes of extreme permission, described as modalities of ‘intense’ accumulation, defined by weaker or unstable forms of hegemony consolidation, illegal/illicit practices, state-sanctioned violence and various socio-environmental degradations. Through analyses of two regimes of extreme permission in the SE Asian context—Indonesian palm oil plantations and Export Processing Zones for garment production in the Greater Mekong Subregion—the paper describes the role of states and corporations in constructing the repressive socio-political space required for neo-colonial corporate accumulation. We contribute to ‘Southernizing’ criminology by re-articulating state-corporate crime theory within imperialist contexts. It also shows that neo-colonialism can be understood as the de-regulation of corporate accumulation.
Long-term weight loss and metabolic benefit from Roux-en-Y gastric bypass in patients with superobesity
Authors: Mantziari Styliani , Thomopoulos Theodoros , Abboretti Francesco , Gaspar-Figueiredo Sergio , Dayer Anna , Demartines Nicolas , Suter Michel 
Published: December 2022

Abstract

Background
Although Roux-en-Y gastric bypass (RYGB) is widely performed worldwide, its efficacy in patients with a body mass index (BMI) greater than 50 kg/m2 remains controversial. The aim of the present paper was to assess long-term (10 years or more) weight loss and metabolic results of RYGB in patients with superobesity (SO; BMI &gt; 50 kg/m2), compared with patients with morbid obesity (MO; BMI 35–50 kg/m2).

Methods
This study involved retrospective analysis of a prospectively followed cohort of adult patients operated on for a primary RYGB between 1999 and 2008. Long-term weight loss and metabolic parameters were compared between SO and MO patients, with a sex-specific subgroup analysis in SO patients. Multiple logistic regression assessed independent predictors of poor long-term weight loss.

Results
Among the 957 included patients, 193 (20.2 per cent) were SO (mean BMI 55.3 kg/m2versus 43.3 kg/m2 in MO). Upon 10-year follow-up, which was complete in 86.3 per cent of patients, BMI remained higher in SO patients (mean 39.1 kg/m2versus 30.8 kg/m2, P &lt; 0.001) although total bodyweight loss (per cent TBWL) was similar (28.3 per cent versus 28.8 per cent, P = 0.644). Male SO patients had a trend to higher 10-year per cent TBWL, while initial BMI greater than 50 kg/m2 and low 5-year per cent TBWL were independent predictors of long-term TBWL less than 20 per cent. Diabetes remission was observed in 39 per cent SO and 40.9 per cent MO patients (P = 0.335) at 10 years, and all patients had a significant lipid profile improvement.

Conclusion
Substantial improvement in co-morbidities was observed in all patients 10 years after RYGB. Total weight loss was similar in SO and MO patients, leaving SO patients with higher BMI. Suboptimal TBWL 5 years after surgery in SO, especially female patients, may warrant prompt reassessment to improve long-term outcomes.
Emotional states as distinct configurations of functional brain networks
Authors: Dan Rotem , Weinstock Marta , Goelman Gadi 
Published: December 2022

AbstractThe conceptualization of emotional states as patterns of interactions between large-scale brain networks has recently gained support. Yet, few studies have directly examined the brain’s network structure during emotional experiences. Here, we investigated the brain’s functional network organization during experiences of sadness, amusement, and neutral states elicited by movies, in addition to a resting-state. We tested the effects of the experienced emotion on individual variability in the brain’s functional connectome. Next, for each state, we defined a community structure of the brain and quantified its segregation and integration. We found that sadness, relative to amusement, was associated with higher modular integration and increased connectivity of cognitive control networks: the salience and fronto-parietal networks. Moreover, in both the functional connectome and the emotional report, the similarity between individuals was dependent on the sex. Our results suggest that the experience of emotion is linked to a reconfiguration of whole-brain distributed, not emotion-specific, functional networks and that the brain’s topological structure carries information about the subjective emotional experience.
Elevated integration within the reward network underlies vulnerability to distress
Authors: Kozak Stas , Dezachyo Or , Stanford William , Bar-Haim Yair , Censor Nitzan , Dayan Eran 
Published: December 2022

Abstract
Distress tolerance (DT), the capability to persist under negative circumstances, underlies a range of psychopathologies. It has been proposed that DT may originate from the activity and connectivity in diverse neural networks integrated by the reward system. To test this hypothesis, we examined the link between DT and integration and segregation in the reward network as derived from resting-state functional connectivity data. DT was measured in 147 participants from a large community sample using the Behavioral Indicator of Resiliency to Distress task. Prior to DT evaluation, participants underwent a resting-state functional magnetic resonance imaging scan. For each participant, we constructed a whole-brain functional connectivity network and calculated the degree of reward network integration and segregation based on the extent to which reward network nodes showed functional connections within and outside their network. We found that distress-intolerant participants demonstrated heightened reward network integration relative to the distress-tolerant participants. In addition, these differences in integration were higher relative to the rest of the brain and, more specifically, the somatomotor network, which has been implicated in impulsive behavior. These findings support the notion that increased integration in large-scale brain networks may constitute a risk for distress intolerance and its psychopathological correlates.
Entrepreneurship and digital capitalism: an assessment of corporate power
Authors: Catalano Domenico 
Published: December 2022

AbstractI propose verifying whether, in the context of “high-tech” capitalism, large companies have reinforced their control over innovation. The new digital economy has often been associated with the emergence of a market democracy which is favourable to new entrants through the adoption of innovative entrepreneurial approaches. The economic evolution resulting from the digital economy seems to call into question the findings of the theory of monopoly capitalism formulated in the context of industrial capitalism, which gives a central place to giant companies. The identification and exploitation of innovative opportunities were thus considered to be the prerogative of large firms, thus limiting the possibilities of market entry. Based on the analysis of 10,900 patent applications, I demonstrate that the control of innovation by Big Tech companies in the digital industry is stronger than in other industries and less favourable to new entrants.
Thoracic aortic vascular graft infection: outcome after conservative treatment without graft removal
Authors: Kouijzer Ilse J E , Baranelli Celine T , Maat Ianthe , van den Heuvel Frederik M A , Aarntzen Erik H J G , Smith Tim , de Mast Quirijn , Geuzebroek Guillaume S C 
Published: December 2022

Abstract

OBJECTIVES
Surgical debridement with aortic graft removal is considered the preferred treatment for thoracic aortic vascular graft infection (VGI). Conservative treatment with antibiotics only is usually reserved for inoperable patients. Due to Outpatient Parenteral Antimicrobial Therapy (OPAT) and better understanding of the antibiotic impact on biofilms, long-term targeted antibiotic therapy without graft removal may be an alternative treatment option for selected thoracic aortic VGI patients. The aim of this case series was to evaluate the outcome in patients with thoracic aortic VGI who were treated without graft removal.

METHODS
This single-centre retrospective cohort study evaluated patients with a thoracic aortic VGI diagnosed between 2008 and 2021 and who were treated without graft removal. The primary outcome parameter was the 6-month mortality rate after VGI diagnosis. Secondary outcome parameters were cure rates and relapse of infection.

RESULTS
Twenty-four patients with thoracic aortic VGI who were managed without graft removal were identified. The mortality rate 6 months after VGI diagnosis was 8% (2/24); one of these deaths was infection related. The median antibiotic treatment duration was 13 months (interquartile range 15). A total of 16 patients (67%) were cured. No relapses occurred after a median of 24-month (interquartile range 32) follow-up.

CONCLUSIONS
Intensive antibiotic treatment, without graft removal, may be a non-inferior option in patients with a thoracic aortic VGI who are not considered for surgery.
Global trends and regional differences in incidence and mortality of cardiovascular disease, 1990−2019: findings from 2019 global burden of disease study
Authors: Li Yan , Cao Gui-ying , Jing Wen-zhan , Liu Jue , Liu Min 
Published: December 2022

Abstract

Aims
Cardiovascular disease (CVD) is the main cause of morbidity and mortality worldwide and is linked with a regional economic burden. We analysed and compared global trends as well as regional and sociodemographic differences in CVD incidence and mortality.

Methods and results
We obtained data to annual incident cases, deaths, age-standardized incidence rates (ASIRs), and age-standardized mortality rates (ASMRs) of CVD during 1990–2019 from the 2019 Global Burden of Disease Study. To quantify the temporal trends, we calculated changes in the incident cases and deaths as well as the estimated annual percentage changes (EAPCs) of age-standardized rates. Globally, CVD incident cases increased by 77.12% from 31.31 million in 1990 to 55.45 million in 2019; deaths rose by 53.81% from 12.07 million in 1990 to 18.56 million in 2019. The overall ASIR [EAPC, −0.56; 95% confidence interval (CI), −0.59 to −0.53] and ASMR (EAPC, −1.46; 95%CI, −1.51 to −1.40) decreased in this period. Against the global trend of ASIR falling, an increasing trend was found in Uzbekistan (EAPC, 1.24; 95%CI, 0.97–1.50), Tajikistan (EAPC, 0.49; 95%CI, 0.47–0.52), and Zimbabwe (EAPC, 0.42; 95%CI, 0.33–0.50). The number of CVD incident cases increased remarkably in low (108.3%), low-middle (114.81%), and middle (117.85%) sociodemographic index regions in 1990–2019.

Conclusion
Despite the increased number of CVD cases and deaths after adjusting for changes in population age, we observed a consistent decrease in age-standardized incidence and mortality in most countries. However, specific regions—especially low to middle SDI regions—present worrying increases in CVD cases and deaths.
Characterization of the Doublesex/MAB-3 transcription factor DMD-9 in Caenorhabditis elegans
Authors: Godini Rasoul , Pocock Roger 
Published: December 2022

Abstract
DMD-9 is a Caenorhabditis elegans Doublesex/MAB-3 Domain transcription factor (TF) of unknown function. Single-cell transcriptomics has revealed that dmd-9 is highly expressed in specific head sensory neurons, with lower levels detected in non-neuronal tissues (uterine cells and sperm). Here, we characterized endogenous dmd-9 expression and function in hermaphrodites and males to identify potential sexually dimorphic roles. In addition, we dissected the trans- and cis-regulatory mechanisms that control DMD-9 expression in neurons. Our results show that of the 22 neuronal cell fate reporters we assessed in DMD-9-expressing neurons, only the neuropeptide-encoding flp-19 gene is cell-autonomously regulated by DMD-9. Further, we did not identify defects in behaviors mediated by DMD-9 expressing neurons in dmd-9 mutants. We found that dmd-9 expression in neurons is regulated by 4 neuronal fate regulatory TFs: ETS-5, EGL-13, CHE-1, and TTX-1. In conclusion, our study characterized the DMD-9 expression pattern and regulatory logic for its control. The lack of detectable phenotypes in dmd-9 mutant animals suggests that other proteins compensate for its loss.
Genome assembly and association tests identify interacting loci associated with vigor, precocity, and sex in interspecific pistachio rootstocks
Authors: Palmer William , Jacygrad Ewelina , Sagayaradj Sagayamary , Cavanaugh Keri , Han Rongkui , Bertier Lien , Beede Bob , Kafkas Salih , Golino Deborah , Preece John , Michelmore Richard 
Published: December 2022

Abstract
Understanding the basis of hybrid vigor remains a key question in crop breeding and improvement, especially for rootstock development where F1 hybrids are extensively utilized. Full-sibling UCB-1 F1 seedling rootstocks are widely planted in commercial pistachio orchards that are generated by crossing 2 highly heterozygous outbreeding parental trees of Pistacia atlantica (female) and P. integerrima (male). This results in extensive phenotypic variability, prompting costly removal of low-yielding small trees. To identify the genetic basis of this variability, we assembled chromosome-scale genome assemblies of the parental trees of UCB-1. We genotyped 960 UCB-1 trees in an experimental orchard for which we also collected multiyear phenotypes. We genotyped an additional 1,358 rootstocks in 6 commercial pistachio orchards and collected single-year tree-size data. Genome-wide single marker association tests identified loci associated with tree size and shape, sex, and precocity. In the experimental orchard, we identified multiple trait-associated loci and a strong candidate for ZZ/ZW sex chromosomes. We found significant marker associations unique to different traits and to early vs late phenotypic measures of the same trait. We detected 2 loci strongly associated with rootstock size in commercial orchards. Pseudo-testcross classification of markers demonstrated that the trait-associated alleles for each locus were segregating in the gametes of opposite parents. These 2 loci interact epistatically to generate the bimodal distribution of tree size with undesirable small trees observed by growers. We identified candidate genes within these regions. These findings provide a foundational resource for marker development and genetic selection of vigorous pistachio UCB-1 rootstock.
Bodies in the belfry: gender, sociability and urban space in early eighteenth-century London
Authors: Tullett William 
Published: December 2022

Abstract
Bells were central to eighteenth-century politics, culture and community, and yet we have little understanding of those that set them ringing. This article uses a manuscript compiled by the London bell-ringer and horologist William Laughton to trace how ringing offered men the opportunity to materialize civil manners, efface cultures of insult and work out forms of patriarchal fraternity through repetitive, ritual embodiment. Ringers imagined bells as women’s tongues to be set right and the belfry, sociable spaces and the household as layered transparencies that, when seen through each other, gave meaning to their urban associational culture.
Modularity, identity, and the constitutional diagonal
Authors: Langlois Richard N 
Published: December 2022

AbstractThe framework of modular systems articulated in Design Rules can be applied in the larger setting of social institutions. The principles of encapsulation and information hiding operate in society as mechanisms to internalize externalities. This essay focuses on intangible externalities, or “moralisms,” that involve the transmission across module boundaries of pure information rather than materials or energy. Such intangible externalities arise in the practice of identity, the affiliations through which individuals create and define their sense of self. Both formally and informally, individuals tend to modularize themselves into identity groups in order to minimize the costs of the intangible externalities that identities impose on one another. One important way to reduce conflict among identity groups is to create a governance structure in which some interactions are proscribed—the constitutional diagonal. In the end, because of the inherent incompatibilities—the non-modular interactions—between identities that arise inevitably from the very meaning and function of identity, genuine toleration is possible only through the increased standardization of identities. The essay applies these ideas to the problems facing large social networks like Facebook.
Accuracy of a precision dosing software program for predicting antibiotic concentrations in critically ill patients
Authors: Chai Ming G , Roberts Jason A , Farkas Andras , Cotta Menino O 
Published: December 2022

Abstract

Background
Critically ill patients with sepsis are predisposed to physiological changes that can reduce the probability of achieving target antibiotic exposures. Precision dosing software programs may be used to improve probability of obtaining these target exposures.

Objective
To quantify the accuracy of a precision dosing software program for predicting antibiotic concentrations as well as to assess the impact of using software predictions on actual dosing adjustments.

Patients and methods
The software program ID-ODS was used to predict concentrations for piperacillin, meropenem and vancomycin using patient covariate data with and without the use of therapeutic drug monitoring (TDM) data. The impact of these predictions on actual dosage adjustments was determined by using software predicted concentrations versus measured concentrations.

Results
Software predictions for piperacillin and meropenem exhibited large bias that improved with the addition of TDM data (bias improved from −28.8 to −2.0 mg/L for piperacillin and −3.0 to −0.1 mg/L for meropenem). Dosing changes using predicted concentrations of piperacillin and meropenem with TDM data versus measured concentrations were matched on 89.2% (107/120) and 71% (9/69) occasions, respectively. Although vancomycin predictions demonstrated good accuracy with and without TDM, these findings were limited by our small sample size.

Conclusion
These data demonstrate that precision dosing software programs may have scope to reasonably predict antibiotic concentrations in critically ill patients with sepsis. The addition of TDM data improves the predictive performance of the software for all three antibiotics and the ability to anticipate the correct dose change required.