bluuebunny/crossref_metadata_2025_split huggingface dataset:
Theorizing the Emergence of Security Regions: An Adaptation for the Regional Security Complex Theory
Authors: Amable Dennis Senam 
Published: October 2022

Abstract
This paper presents an analytical framework as an adaptation for the regional security complex theory (RSCT). Following the end of the Cold War, regional systems have become imperative for understanding security dynamics. Barry Buzan and Ole Wæver's expanded version of the regional security complex (RSC) concept described the regional level as the level where most of the action of security occurs. In fact, the RSCT is one of the most comprehensive frameworks that outline distinct variables necessary for regional security analysis. However, the RSCT overlooked how these RSCs (security regions) emerge and evolve into fully fledged security complexes as described by Buzan and Wæver (2003). Thus, the concept remains under-theorized on how the nascent structures of an RSC build—as it prioritizes already established RSCs. In this respect, this study develops an analytical framework with a set of criteria for identifying the nascent stages of an RSC, as an adaptation for the RSCT. The framework examines the nascent structures of an RSC and highlights the roles played by external great powers in the emergence and evolution of RSCs.
Prevalence of Multidrug-Resistant Organism in ICU Burns Patients at Tertiary Care Hospital
Authors: Buriro Fahmina , Ishaque Sadia , Saeed Aniqa , Qamar Mohammad Aadil , Batool Amna 
Published: October 2022

Abstract
Burns carries a high-risk of mortality and morbidity. This with increased chances of drug-resistant infections makes the management complicated. Hence this study was conducted to find out the prevalence of multidrug-resistant organisms (MDRO) in burns patients admitted to the intensive care unit at a tertiary care hospital. A 2-year retrospective study was conducted where burn patients reporting MDRO were included. Statistical analysis was performed using SPSS version 26 where a P-value &lt; .05 was considered statistically significant. Out of 97 patients, tissue cultures of 65 patients revealed the presence of MDRO in 27 (27.8%) patients. A male predominance (17, 63.0%) was noted with a mean age of 29.0-year-old. Fire burn (15, 55.6%) was reported to be the most common cause of burn with an average of 29.9% of Total Body Surface Area (TBSA) involved. MDR Pseudomonas aeruginosa was the commonest organism reported in 12 (44%) patients. The average length of stay (LOS) was noted to be 11.3 days with a mortality rate of 48.1% (overall, in all MDRO’S infections). Patients who reported MDRO showed a tendency for longer hospitalization with a higher risk of mortality as the TBSA increased. However, in presence of other factors in burns like higher TBSA, inhalation injury and lack of advanced skin substitute these mortality figures, and their association can be debated. Lastly, the implementation of control measures, as basic as hand hygiene, should be partaken to reduce the burden of MDR infections.
Organizational dynamics: culture, design, and performance
Authors: Besley Timothy , Persson Torsten 
Published: October 2022

Abstract
We examine the two-way interplay between organizational cultures and organizational design, where culture is modeled as the prevailing social identities among workplace groups that can affect project choices. In a setting where cultural dynamics depend on the expected relative payoffs of holding different identities, we investigate how tribalism and charismatic leadership shape organizational dynamics and steady-state cultures. We show how a strong culture can be a virtue when it permits greater delegated authority, but a vice when the culture is poorly aligned with organizational objectives. We apply our analysis to concrete debates about the interaction of design, performance, and culture (JEL L23, M14).
Polygenic risk of any, metastatic, and fatal prostate cancer in the Million Veteran Program
Authors: Pagadala Meghana S , Lynch Julie , Karunamuni Roshan , Alba Patrick R , Lee Kyung Min , Agiri Fatai Y , Anglin Tori , Carter Hannah , Gaziano J Michael , Jasuja Guneet Kaur , Deka Rishi , Rose Brent S , Panizzon Matthew S , Hauger Richard L , Seibert Tyler M 
Published: October 2022

Abstract

Background
Genetic scores may provide an objective measure of prostate cancer risk and thus inform screening decisions. We evaluated whether a polygenic hazard score based on 290 genetic variants (PHS290) is associated with prostate cancer risk in a diverse population, including Black men, who have higher average risk of prostate cancer death but are often treated as a homogeneously high-risk group.

Methods
This was a retrospective analysis of the Million Veteran Program, a national, population-based cohort study of US military veterans conducted 2011-2021. Cox proportional hazards analyses tested for association of genetic and other risk factors (including self-reported race and ethnicity and family history) with age at death from prostate cancer, age at diagnosis of metastatic (nodal or distant) prostate cancer, and age at diagnosis of any prostate cancer.

Results
A total of 590 750 male participants were included. Median age at last follow-up was 69 years. PHS290 was associated with fatal prostate cancer in the full cohort and for each racial and ethnic group (P &lt; .001). Comparing men in the highest 20% of PHS290 with those in the lowest 20% (based on percentiles from an independent training cohort), the hazard ratio for fatal prostate cancer was 4.42 (95% confidence interval = 3.91 to 5.02). When accounting for guideline-recommended risk factors (family history, race, and ethnicity), PHS290 remained a strong independent predictor of any, metastatic, and fatal prostate cancer.

Conclusions
PHS290 stratified US veterans of diverse ancestry for lifetime risk of prostate cancer, including metastatic and fatal cancer. Predicting genetic risk of lethal prostate cancer with PHS290 might inform individualized decisions about prostate cancer screening.
Update From the September 2022 Meeting of the Advisory Committee on Immunization Practices
Authors: Gaviria-Agudelo Claudia , Yonts Alexandra B , O’Leary Sean T , Anderson Evan J 
Published: October 2022

Abstract
The Advisory Committee on Immunization Practices (ACIP), a group of medical and public health experts that provides expert advice to the Centers for Disease Control and Prevention, normally meets three times per year to develop US vaccine recommendations. The ACIP increased its meeting frequency over the past 2.5 years to address vaccine-related issues during the severe acute respiratory syndrome coronavirus 2 pandemic. They met to discuss updating coronavirus disease-2019 (COVID-19) booster dose recommendations on September 1, 2022 recommending the use of new bivalent COVID-19 booster vaccines which include equal amounts of ancestral and Omicron BA.4/BA.5 variant mRNA that encodes the spike protein.
The new uORFdb: integrating literature, sequence, and variation data in a central hub for uORF research
Authors: Manske Felix , Ogoniak Lynn , Jürgens Lara , Grundmann Norbert , Makałowski Wojciech , Wethmar Klaus 
Published: October 2022

Abstract
Upstream open reading frames (uORFs) are initiated by AUG or near-cognate start codons and have been identified in the transcript leader sequences of the majority of eukaryotic transcripts. Functionally, uORFs are implicated in downstream translational regulation of the main protein coding sequence and may serve as a source of non-canonical peptides. Genetic defects in uORF sequences have been linked to the development of various diseases, including cancer. To simplify uORF-related research, the initial release of uORFdb in 2014 provided a comprehensive and manually curated collection of uORF-related literature. Here, we present an updated sequence-based version of uORFdb, accessible at https://www.bioinformatics.uni-muenster.de/tools/uorfdb. The new uORFdb enables users to directly access sequence information, graphical displays, and genetic variation data for over 2.4 million human uORFs. It also includes sequence data of &gt;4.2 million uORFs in 12 additional species. Multiple uORFs can be displayed in transcript- and reading-frame-specific models to visualize the translational context. A variety of filters, sequence-related information, and links to external resources (UCSC Genome Browser, dbSNP, ClinVar) facilitate immediate in-depth analysis of individual uORFs. The database also contains uORF-related somatic variation data obtained from whole-genome sequencing (WGS) analyses of 677 cancer samples collected by the TCGA consortium.
SPEED: Single-cell Pan-species atlas in the light of Ecology and Evolution for Development and Diseases
Authors: Chen Yangfeng , Zhang Xingliang , Peng Xi , Jin Yicheng , Ding Peiwen , Xiao Jiedan , Li Changxiao , Wang Fei , Chang Ashley , Yue Qizhen , Pu Mingyi , Chen Peixin , Shen Jiayi , Li Mengrou , Jia Tengfei , Wang Haoyu , Huang Li , Guo Guoji , Zhang Wensheng , Liu Hebin , Wang Xiangdong , Chen Dongsheng 
Published: October 2022

AbstractIt is a challenge to efficiently integrate and present the tremendous amounts of single-cell data generated from multiple tissues of various species. Here, we create a new database named SPEED for single-cell pan-species atlas in the light of ecology and evolution for development and diseases (freely accessible at http://8.142.154.29 or http://speedatlas.net). SPEED is an online platform with 4 data modules, 7 function modules and 2 display modules. The ‘Pan’ module is applied for the interactive analysis of single cell sequencing datasets from 127 species, and the ‘Evo’, ‘Devo’, and ‘Diz’ modules provide comprehensive analysis of single-cell atlases on 18 evolution datasets, 28 development datasets, and 85 disease datasets. The ‘C2C’, ‘G2G’ and ‘S2S’ modules explore intercellular communications, genetic regulatory networks, and cross-species molecular evolution. The ‘sSearch’, ‘sMarker’, ‘sUp’, and ‘sDown’ modules allow users to retrieve specific data information, obtain common marker genes for cell types, freely upload, and download single-cell datasets, respectively. Two display modules (‘HOME’ and ‘HELP’) offer easier access to the SPEED database with informative statistics and detailed guidelines. All in all, SPEED is an integrated platform for single-cell RNA sequencing (scRNA-seq) and single-cell whole-genome sequencing (scWGS) datasets to assist the deep-mining and understanding of heterogeneity among cells, tissues, and species at multi-levels, angles, and orientations, as well as provide new insights into molecular mechanisms of biological development and pathogenesis.
Vitamin C enhances NF-κB-driven epigenomic reprogramming and boosts the immunogenic properties of dendritic cells
Authors: Morante-Palacios Octavio , Godoy-Tena Gerard , Calafell-Segura Josep , Ciudad Laura , Martínez-Cáceres Eva M , Sardina José Luis , Ballestar Esteban 
Published: October 2022

Abstract
Dendritic cells (DCs), the most potent antigen-presenting cells, are necessary for effective activation of naïve T cells. DCs’ immunological properties are modulated in response to various stimuli. Active DNA demethylation is crucial for DC differentiation and function. Vitamin C, a known cofactor of ten-eleven translocation (TET) enzymes, drives active demethylation. Vitamin C has recently emerged as a promising adjuvant for several types of cancer; however, its effects on human immune cells are poorly understood. In this study, we investigate the epigenomic and transcriptomic reprogramming orchestrated by vitamin C in monocyte-derived DC differentiation and maturation. Vitamin C triggers extensive demethylation at NF-κB/p65 binding sites, together with concordant upregulation of antigen-presentation and immune response-related genes during DC maturation. p65 interacts with TET2 and mediates the aforementioned vitamin C-mediated changes, as demonstrated by pharmacological inhibition. Moreover, vitamin C increases TNFβ production in DCs through NF-κB, in concordance with the upregulation of its coding gene and the demethylation of adjacent CpGs. Finally, vitamin C enhances DC’s ability to stimulate the proliferation of autologous antigen-specific T cells. We propose that vitamin C could potentially improve monocyte-derived DC-based cell therapies.
The International Mouse Phenotyping Consortium: comprehensive knockout phenotyping underpinning the study of human disease
Authors: Groza Tudor , Gomez Federico Lopez , Mashhadi Hamed Haseli , Muñoz-Fuentes Violeta , Gunes Osman , Wilson Robert , Cacheiro Pilar , Frost Anthony , Keskivali-Bond Piia , Vardal Bora , McCoy Aaron , Cheng Tsz Kwan , Santos Luis , Wells Sara , Smedley Damian , Mallon Ann-Marie , Parkinson Helen 
Published: October 2022

Abstract
The International Mouse Phenotyping Consortium (IMPC; https://www.mousephenotype.org/) web portal makes available curated, integrated and analysed knockout mouse phenotyping data generated by the IMPC project consisting of 85M data points and over 95,000 statistically significant phenotype hits mapped to human diseases. The IMPC portal delivers a substantial reference dataset that supports the enrichment of various domain-specific projects and databases, as well as the wider research and clinical community, where the IMPC genotype–phenotype knowledge contributes to the molecular diagnosis of patients affected by rare disorders. Data from 9,000 mouse lines and 750 000 images provides vital resources enabling the interpretation of the ignorome, and advancing our knowledge on mammalian gene function and the mechanisms underlying phenotypes associated with human diseases. The resource is widely integrated and the lines have been used in over 4,600 publications indicating the value of the data and the materials.
‘We Can’t Afford to be a Branch Office’: The Territorial Dynamics of the British Labour Party, 2015–2019
Authors: Brown Swan Coree , Kenny Michael 
Published: October 2022

Abstract
Despite having delivered devolution, the British Labour Party has faced significant challenges in adapting to, and competing effectively in, a multi-level political space. This article explores this dynamic in the context of a pivotal period of change (2015–2019), in which the party was led by Jeremy Corbyn, a political outsider, and when British politics was riven by Brexit. In this article we highlight the operation of a key strategic duality underlying the territorial politics pursued by both Scottish and Welsh Labour parties: an endemic and unresolved desire to seek greater autonomy from the UK party, on the one hand: and the preference to retain or gain influence at the centre of British politics, on the other. How these goals were pursued, and tensions between them managed by the territorial parties and their leaders, are central to an understanding of how the party handled the challenges created by devolution more broadly.
A reverse chromatin immunoprecipitation technique based on the CRISPR–dCas9 system
Authors: Wang Zhibo , He Zihang , Liu Zhujun , Qu Ming , Gao Caiqiu , Wang Chao , Wang Yucheng 
Published: October 2022

AbstractDNA–protein interaction is one of the most crucial interactions in biological processes. However, the technologies available to study DNA–protein interactions are all based on DNA hybridization; however, DNA hybridization is not highly specific and is relatively low in efficiency. RNA-guided DNA recognition is highly specific and efficient. To overcome the limitations of technologies based on DNA hybridization, we built a DNA-binding protein capture technology based on the clustered regularly interspaced palindromic repeats (CRISPR)–dead Cas9 (dCas9) system and transient genetic transformation, termed reverse chromatin immunoprecipitation based on CRISPR–dCas9 system (R-ChIP–dCas9). In this system, dCas9 was fused with Strep-Tag II to form a fusion protein for StrepTactin affinity purification. Transient transformation was performed for the expression of dCas9 and guide RNA (gRNA) to form the dCas9–gRNA complex in birch (Betula platyphylla) plants, which binds to the target genomic DNA region. The dCas9–gRNA–DNA complex was crosslinked, then the chromatin was sonicated into fragments, and purified using StrepTactin beads. The proteins binding to the target genomic DNA region were identified using mass spectrometry. Using this method, we determined the upstream regulators of a NAM, ATAF, and CUC (NAC) transcription factor (TF), BpNAC090, and 32 TFs potentially regulating BpNAC090 were identified. The reliability of R-ChIP–dCas9 was further confirmed by chromatin immunoprecipitation, electrophoretic mobility shift assays, and yeast one-hybrid. This technology can be adapted to various plant species and does not depend on the availability of a stable transformation system; therefore, it has wide application in identifying proteins bound to genomic DNA.
S&T resource allocation considering both performance and potential: The case of Chinese research institutes
Authors: Zhao Teng-Yu , Pei Ruimin , Yang Guo-Liang 
Published: October 2022

Abstract
The ex-post assessment of institutional performance has been applied to allocate scientific and technological (S&T) resource to universities and public research institutes. However, over-emphasis on particular types of performance could lead to unintended results and harm the science system. This research assesses the performance of these universities and public research institutes using ‘technical efficiency’ and their potential using ‘capacity utilization’, which are obtained by data envelopment analysis methods. Moreover, a comprehensive S&T resource allocation framework is proposed, where the organizations can be classified into four groups according to their performance and potential assessment results. An empirical study is conducted using the data of 58 Chinese research institutes from 2011 to 2018. Results indicate different patterns in the distribution and evolution of the performance and potential of these research institutes. The approaches proposed by this research are expected to complement existing performance-based S&T resource allocations.
Describing the state of a research network: A mixed methods approach to network evaluation
Authors: Bowen James M , Ouimet Mathieu , Lawarée Justin , Bielecki Joanna , Rhéaume Ashley , Greenberg Caylee , Rac Valeria E 
Published: October 2022

Abstract
Diabetes Action Canada Strategy for Patient-Oriented Research (SPOR) Network in Chronic Disease was formed in 2016 and is funded primarily through the Canadian Institutes of Health Research (CIHR). We propose a novel mixed-methods approach to a network evaluation integrating the State of Network Evaluation framework and the Canadian Academy of Health Sciences (CAHS) preferred framework and indicators. We measure key network themes of connectivity, health and results, and impact and return on investment associated with health research networks. Our methods consist of a longitudinal cross-sectional network survey of members and social network analysis to examine Network Connectivity and assess the frequency of interactions, the topics discussed during them, and how networking effectively facilitates interactions and collaboration among members. Network Health will be evaluated through semistructured interviews, a membership survey inquiring about satisfaction and experience with the Network, and a review of documentary sources related to funding and infrastructure to evaluate Network Sustainability. Finally, we will examine Network Results and Impact using the CAHS preferred framework and indicators to measure returns on investment in health research across the five domains of the CAHS framework, which include: advancing knowledge, capacity building, informing decision making, health impact, and economic and social impact. Indicators will be assessed with various methods, including bibliometric analyses, review of relevant documentary sources (annual reports), member activities informing health and research policy, and Patient Partner involvement. The Network Evaluation will provide members and stakeholders with information for planning, improvements, and funding future Network endeavors.
Price Discrimination in the Information Age: Prices, Poaching, and Privacy with Personalized Targeted Discounts
Authors: Baik Simon Anderson, Alicia , Larson Nathan 
Published: October 2022

Abstract
We study list price competition when firms can individually target consumer discounts (at a cost) afterwards, and we address recent privacy regulation (like the GDPR) allowing consumers to choose whether to opt-in to targeting. Targeted consumers receive poaching and retention discount offers. Equilibrium discount offers are in mixed strategies, but only two firms vie for each contested consumer and final profits on them are Bertrand-like. When targeting is unrestricted, firm list pricing resembles monopoly. For plausible demand conditions and if targeting costs are not too low, firms and consumers are worse off with unrestricted targeting than banning it. However, targeting induces higher (lower) list prices if demand is convex (concave), and either side of the market can benefit if list prices shift enough in its favour. Given the choice, consumers opt in only when expected discounts exceed privacy costs. Under empirically plausible conditions, opt-in choice makes all consumers better off.
Reduction in Multiple Cardiometabolic Risk Factors With Combined Olanzapine/Samidorphan Compared With Olanzapine: Post Hoc Analyses From a 24-Week Phase 3 Study
Authors: Correll Christoph U , Stein Evan , Graham Christine , DiPetrillo Lauren , Akerman Sarah , Stanford Arielle D , Jiang Ying , Yagoda Sergey , McDonnell David , Hopkinson Craig 
Published: October 2022

AbstractBackground and HypothesesWeight gain and adverse cardiometabolic effects often limit the clinical utility of olanzapine. In ENLIGHTEN-2, combining olanzapine with the opioid receptor antagonist samidorphan (OLZ/SAM) mitigated olanzapine-associated weight gain. These analyses tested the hypothesis that OLZ/SAM would be associated with reduced adverse cardiometabolic effects compared with olanzapine.Study DesignThis phase 3 double-blind study randomized adults with schizophrenia to OLZ/SAM or olanzapine for 24 weeks. Post hoc analyses assessed changes from baseline to week 24 in cardiometabolic risk parameters, including body mass index (BMI), risk of developing obesity (BMI ≥30 kg/m2) or metabolic syndrome, waist circumference, along with mean and potentially clinically significant changes in blood pressure, glucose, and lipids.ResultsAfter 24 weeks’ treatment, compared with olanzapine, OLZ/SAM was associated with smaller least-squares mean (LSM) changes from baseline in systolic blood pressure (LSM difference, −2.63 mm Hg; 95% CI: −4.78, −0.47), diastolic blood pressure (LSM difference, −0.75 mm Hg; 95% CI: −2.31, 0.80), and BMI (LSM difference, −0.65 kg/m2; 95% CI: −1.01, −0.28). OLZ/SAM treatment was also associated with reduced risk of shifting from normal blood pressure to stage 1/2 hypertension (odds ratio [OR], 0.48; 95% CI: 0.24, 0.96), becoming obese (OR, 0.52; 95% CI: 0.32, 0.82), and developing metabolic syndrome (OR, 0.55; 95% CI: 0.31, 0.99) compared with olanzapine. No treatment group differences were noted for risk of hyperglycemia or hyperlipidemia.ConclusionsOLZ/SAM treatment was associated with lower risk of worsening cardiometabolic risk factors related to obesity, hypertension, and metabolic syndrome relative to olanzapine. NCT02694328, https://clinicaltrials.gov/ct2/show/NCT02694328.