bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Historical and Contemporary Review of Questionnaires Used in the Management of Post-Radical Prostatectomy Patients
Authors: Cooper Caleb A. , Sloan Matthew J. , Singh Armaan , Fantus Richard J. , Raheem Omer A. 
Published: August 2022

AbstractIntroductionPatients undergoing radical prostatectomy (RP) face obstacles to recovery spanning the domains of erectile and sexual function; urinary function; and health-related quality of life (HRQoL). Numerous patient-directed questionnaires exist that serve to assist in the care of these men.AimTo describe patient-directed questionnaires of historical and contemporary relevance involving the evaluation and treatment of men after radical prostatectomy.MethodsA comprehensive review of peer-reviewed publications on the topic was performed. Using PubMed, the search terms used were: "radical prostatectomy; erectile function; lower urinary tract symptoms; sexual dysfunction; urinary incontinence; and health-related quality of life. Main Outcome Measure: We aimed to summarize questionnaires and survey devices of historical and contemporary importance for the care of men after RP.ResultsMany questionnaires have been developed specifically for, or conscripted for use in, the care of men after RP. Some of the oldest questionnaires relating to sexual function, urinary function, and general and cancer-specific QoL are important and still utilized in the routine clinical care of post-RP patients. However, recent devices that may offer clinicians a more comprehensive understanding to aid in the evaluation and care of these men.ConclusionsPost-RP patients face numerous challenges that require a thoughtful approach, one that is broad enough to identify a variety of potential physical and emotional disturbances, yet granular enough to identify appropriate areas for intervention. While there is not a “best” questionnaire for this population, having an appropriate understanding of the current available instruments and what information they provide may help clinicians more thoroughly assess and treat these men.
Priapism or Prolonged Erection: Is 4 – 6 Hours of Cavernous Ischemia the Time Point of Irreversible Tissue Injury?
Authors: Dekalo Snir , Stern Noah , Broderick Gregory A. , Brock Gerald 
Published: August 2022

Abstract

Introduction
Ischemic priapism remains a significant cause of morbidity among men. To date, the precise time when penile ischemia results in permanent, non-reversible cavernosal smooth muscle injury, compromising subsequent erectile integrity, remains ill-defined.

Objectives
To review the medical literature pertaining to ischemic priapism, focusing on factors that predict the exact timeline of irreversible cavernous tissue injury.

Methods
A comprehensive literature search was performed. Our search included both publications on animal models and retrospective clinical series through January 2022. Articles were eligible for inclusion if they contained original data regarding nonreversible tissue injury on histology and/or provided a timeline of erectile function loss or preservation and had full text available in English.

Results
Innovative studies in the 1990s using invitro models with strips of rabbit, rat, canine and monkey corpus cavernosal tissue demonstrated that anoxia eliminated spontaneous contractile activity and reduced tissue responsiveness to electrical field stimulation or pharmacological agents. The same models demonstrated that the inhibitory effects of field stimulated relaxation, were mediated by nitric oxide. Subsequent studies using similar models demonstrated that exposure of corpus cavernosum smooth muscle to an acidotic environment impairs its ability to contract. A pH of 6.9 was chosen for these experiments based on a case series of men with priapism, in whom a mean pH of 6.9 was measured in corporal blood after 4–6 hours of priapism. Invivo animal studies demonstrated that after erection periods of 6–8 hours, microscopy shows sporadic endothelial defects but otherwise normal cavernous smooth muscle. In these studies, greater durations of ischemic priapism were shown to result in more pronounced ultrastructural changes and presumably irreversibility. In studies involving human corporal tissues, samples were obtained from men who had experienced priapism for at least 12 hours. Overall, erectile function outcome data is deficient in priapism reporting, especially within treatment windows less than 6 hours. Some reports on ischemic priapism have documented good erectile function outcomes with reversal by 12 hours.

Conclusion
Based on our extensive review of animal models and clinical reports, we found that many clinical papers rely on the same small set of animal studies to suggest the time point of irreversible ischemic damage at 4–6 hours. Our review suggests an equal number of retrospective clinical studies demonstrate that ischemic priapism reversed within 6–12 hours may preserve erectile function in many patients.
Associations Between Fear of Guilt and Obsessive–Compulsive Symptoms
Authors: Kenny Niamh C. , Starcevic Vladan , Berle David 
Published: August 2022

AbstractHalf of the people who seek treatment for Obsessive–Compulsive Disorder (OCD) do not benefit from first-line interventions. A better understanding of the factors associated with obsessions and compulsions may inform the development of more effective treatments. This study aimed to examine whether a fear of guilt is associated with obsessive–compulsive symptoms. Fear of guilt incorporates two domains: punishment (the tendency to believe that guilt means one is bad and to punish oneself for feelings of guilt) and harm prevention (the tendency to believe that guilt implies failure to be one's ideal self and the drive to prevent feelings of guilt). Online questionnaires assessing OCD symptoms, fear of guilt, and other related factors were administered to 192 adults. In contrast to previous studies, key conceptually relevant constructs, such as shame, anxiety, and depression symptoms, were also assessed. The punishment dimension of fear of guilt subscale was positively associated with OCD symptoms controlling for age, sex, guilt, shame, responsibility for harm, generalised anxiety, and depression. The punishment domain of fear of guilt may therefore be an important factor to consider and potentially target in treatments for OCD. Future investigations with clinical populations may clarify the importance of fear of guilt in OCD.
The Abelian/Nonabelian Correspondence and Gromov–Witten Invariants of Blow-Ups
Authors: Coates Tom , Lutz Wendelin , Shafi Qaasim 
Published: August 2022

Abstract
We prove the abelian/nonabelian correspondence with bundles for target spaces that are partial flag bundles, combining and generalising results by Ciocan-Fontanine–Kim–Sabbah, Brown, and Oh. From this, we deduce how genus-zero Gromov–Witten invariants change when a smooth projective variety X is blown up in a complete intersection defined by convex line bundles. In the case where the blow-up is Fano, our result gives closed-form expressions for certain genus-zero invariants of the blow-up in terms of invariants of X. We also give a reformulation of the abelian/nonabelian Correspondence in terms of Givental’s formalism, which may be of independent interest.
From Worker-Peasant to Reluctant Revolutionary Industrial Worker in the Establishment of Iran's Copper Industry: The Sarcheshmeh Copper Mine, 1960s–1970s
Authors: Alamdar Abdolreza 
Published: August 2022

AbstractThis paper studies the transformation of the worker-peasant to reluctant revolutionary industrial worker during the establishment of Iran's copper industry at the Sarcheshmeh copper mine from 1966 to 1979. It explores the procedural rules implemented by mine management, such as coercion and paternalism, and the nature of the employment relationship, including methods of control, bargaining, and dispute resolution. Consideration is given to engagement of different agents with welfare policy and industrial relations, including the nature of capital, the structure of ownership, the path of traditional labor relations, and international contributors on one side and workers’ agency and their structural power in the context of evolving domestic and international environments on the other. Also highlighted is the role played by the workers’ background and economic improvement and how these factors affected their political stance during the 1979 revolution.
Recognition of visual scene elements from a story text in Persian natural language
Authors: Hashemi-Namin Mojdeh , Jahed-Motlagh Mohammad Reza , Torkaman Rahmani Adel 
Published: August 2022

AbstractText-to-scene conversion systems map natural language text to formal representations required for visual scenes. The difficulty involved in this mapping is one of the most critical challenges for developing these systems. The current study mapped Persian natural language text as the headmost system to a conceptual scene model. This conceptual scene model is an intermediate semantic representation between natural language and the visual scene and contains descriptions of visual elements of the scene. It will be used to produce meaningful animation based on an input story in this ongoing study. The mapping task was modeled as a sequential labeling problem, and a conditional random field (CRF) model was trained and tested for sequential labeling of scene model elements. To the best of the authors’ knowledge, no dataset for this task exists; thus, the required dataset was collected for this task. The lack of required off-the-shelf natural language processing modules and a significant error rate in the available corpora were important challenges to dataset collection. Some features of the dataset were manually annotated. The results were evaluated using standard text classification metrics, and an average accuracy of 85.7% was obtained, which is satisfactory.
Translated Emission Pathways (TEPs): Long‐Term Simulations of COVID‐19 CO2 Emissions and Thermosteric Sea Level Rise Projections
Authors: Gonzalez Alan R. , Lin Ting 
Published: August 2022

AbstractWithin the scientific community, climate models have been established to relate long‐term emission scenarios to their respective environmental response. Although data at high resolutions can be obtained, this research framework is often computationally complex and offers limited readability for the general public. With the COVID‐19 pandemic bringing forth a new sense of lifestyle and reduced human activity, the CO2 emission data related to this global event can be used to illustrate the context of climate science to a broader audience. This study proposes a series of translated emission pathways (TEPs) that consist of CO2 emission patterns from the various phases of COVID‐19 response and demonstrate a resemblance to the forcing scenarios utilized within climate research. A simple climate model and radiative forcing expression are used to parameterize the CO2 emission data from the TEPs to its respective atmospheric conditions. Thermosteric sea level rise is used as a metric of environmental impact to highlight the differences between the TEPs. By referencing the COVID‐19 pandemic and establishing a linear research framework, this study introduces climate research to the general public and serves as a call to action for environmental responsibility.
Azimuthal Motion of Poleward Moving Auroral Forms
Authors: Guo Jin , Wang Boyi , Lu San , Lu Quanming , Lin Yu , Wang Xueyi , Wang Rongsheng , Zhang Qinghe , Xing Zanyang , Nishimura Yukitoshi , Wu Yen‐Jung 
Published: August 2022

AbstractPoleward moving auroral forms (PMAFs), the most common dayside auroral structure, images the process of energy and particle transport from the solar wind to the magnetosphere via magnetic reconnection. This form of aurora moves not only poleward, but also in the azimuthal (dawn‐dusk) direction. However, the underlying mechanism responsible for the azimuthal motion of PMAFs are not thoroughly investigated. Here based on all‐sky imager observations in the southern hemisphere, we statistically determine that the azimuthal motion of PMAFs is highly dependent on the dawn‐dusk component of the interplanetary magnetic field (IMF By). Using three‐dimensional (3‐D) global hybrid simulations, we demonstrate that IMF By controls the azimuthal motion of PMAFs through plasma flow derived from magnetic tension of magnetopause flux ropes. Our study, by focusing on the azimuthal motion of PMAFs, allows a better understanding of space weather, especially from a 3‐D perspective.
RING-finger E3 ligases regulatory network in PI3K/AKT-mediated glucose metabolism
Authors: Wang Wenke , Shi Bei , Cong Ruiting , Hao Mingjun , Peng Yuanyuan , Yang Hongyue , Song Jiahui , Feng Di , Zhang Naijin , Li Da 
Published: August 2022

AbstractThe phosphatidylinositol 3-kinase (PI3K)/AKT signaling pathway plays an essential role in glucose metabolism, promoting glycolysis and resisting gluconeogenesis. PI3K/AKT signaling can directly alter glucose metabolism by phosphorylating several metabolic enzymes or regulators of nutrient transport. It can indirectly promote sustained aerobic glycolysis by increasing glucose transporters and glycolytic enzymes, which are mediated by downstream transcription factors. E3 ubiquitin ligase RING-finger proteins are mediators of protein post-translational modifications and include the cullin-RING ligase complexes, the tumor necrosis factor receptor-associated family, the tripartite motif family and etc. Some members of the RING family play critical roles in regulating cell signaling and are involved in the development and progression of various metabolic diseases, such as cancer, diabetes, and dyslipidemia. And with the progression of modern research, as a negative or active regulator, the RING-finger adaptor has been found to play an indispensable role in PI3K/AKT signaling. However, no reviews have comprehensively clarified the role of RING-finger E3 ligases in PI3K/AKT-mediated glucose metabolism. Therefore, in this review, we focus on the regulation and function of RING ligases in PI3K/AKT-mediated glucose metabolism to establish new insights into the prevention and treatment of metabolic diseases.
Temporal dynamics of oropharyngeal microbiome among SARS-CoV-2 patients reveals continued dysbiosis even after Viral Clearance
Authors: Paine Suman Kalyan , Rout Usha Kiran , Bhattacharyya Chandrika , Parai Debaprasad , Alam Mahabub , Nanda Rasmi Ranjan , Tripathi Devashish , Choudhury Parveena , Kundu Chanakya Nath , Pati Sanghamitra , Bhattacharya Debdutta , Basu Analabha 
Published: August 2022

AbstractThe severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) pandemic has posed multiple challenges to global public health. Clinical features and sequela of SARS-CoV-2 infection include long-term and short-term complications often clinically indistinguishable from bacterial sepsis and acute lung infection. Post-hoc studies of previous SARS outbreaks postulate secondary bacterial infections with microbial dysbiosis. Oral microbial dysbiosis, particularly the altered proportion of Firmicutes and Proteobacteria, observed in other respiratory virus infection, like influenza, has shown to be associated with increased morbidity and mortality. Oropharynx and lung share similar kinds of bacterial species. We hypothesized that alteration in the Human Oropharyngeal Microbiome in SARS-CoV-2 patients can be a clinical indicator of bacterial infection related complications. We made a longitudinal comparison of oropharyngeal microbiome of 20 SARS-CoV-2 patients over a period of 30 days; at three time points, with a 15 days interval; contrasting them with a matched group of 10 healthy controls. Present observation indicates that posterior segment of the oropharyngeal microbiome is a key reservoir for bacteria causing pneumonia and chronic lung infection on SARS-CoV-2 infection. Oropharyngeal microbiome is indeed altered and its α-diversity decreases, indicating reduced stability, in all SARS-CoV-2 positive individuals right at Day-1; i.e. within ~24 h of post clinical diagnosis. The dysbiosis persists long-term (30 days) irrespective of viral clearance and/or administration of antibiotics. There is a severe depletion of commensal bacteria phyla like Firmicutes among the patients and that depletion is compensated by higher proportion of bacteria associated with sepsis and severe lung infection from phyla Proteobacteria. We also found elevated proportions of certain genus that have previously been shown to be causal for lung pneumonia in studies of model organisms and human autopsies’ including Stenotrophomonas, Acenetobactor, Enterobactor, Klebsiella and Chryseobacterium that were to be elevated among the cases. We also show that responses to the antibiotics (Azithromycin and Doxycycline) are not uniform for all individuals.
Divergent genomic trajectories predate the origin of animals and fungi
Authors: Ocaña-Pallarès Eduard , Williams Tom A. , López-Escardó David , Arroyo Alicia S. , Pathmanathan Jananan S. , Bapteste Eric , Tikhonenkov Denis V. , Keeling Patrick J. , Szöllősi Gergely J. , Ruiz-Trillo Iñaki 
Published: August 2022

AbstractAnimals and fungi have radically distinct morphologies, yet both evolved within the same eukaryotic supergroup: Opisthokonta1,2. Here we reconstructed the trajectory of genetic changes that accompanied the origin of Metazoa and Fungi since the divergence of Opisthokonta with a dataset that includes four novel genomes from crucial positions in the Opisthokonta phylogeny. We show that animals arose only after the accumulation of genes functionally important for their multicellularity, a tendency that began in the pre-metazoan ancestors and later accelerated in the metazoan root. By contrast, the pre-fungal ancestors experienced net losses of most functional categories, including those gained in the path to Metazoa. On a broad-scale functional level, fungal genomes contain a higher proportion of metabolic genes and diverged less from the last common ancestor of Opisthokonta than did the gene repertoires of Metazoa. Metazoa and Fungi also show differences regarding gene gain mechanisms. Gene fusions are more prevalent in Metazoa, whereas a larger fraction of gene gains were detected as horizontal gene transfers in Fungi and protists, in agreement with the long-standing idea that transfers would be less relevant in Metazoa due to germline isolation3–5. Together, our results indicate that animals and fungi evolved under two contrasting trajectories of genetic change that predated the origin of both groups. The gradual establishment of two clearly differentiated genomic contexts thus set the stage for the emergence of Metazoa and Fungi.
Fos ensembles encode and shape stable spatial maps in the hippocampus
Authors: Pettit Noah L. , Yap Ee-Lynn , Greenberg Michael E. , Harvey Christopher D. 
Published: August 2022

AbstractIn the hippocampus, spatial maps are formed by place cells while contextual memories are thought to be encoded as engrams1–6. Engrams are typically identified by expression of the immediate early gene Fos, but little is known about the neural activity patterns that drive, and are shaped by, Fos expression in behaving animals7–10. Thus, it is unclear whether Fos-expressing hippocampal neurons also encode spatial maps and whether Fos expression correlates with and affects specific features of the place code11. Here we measured the activity of CA1 neurons with calcium imaging while monitoring Fos induction in mice performing a hippocampus-dependent spatial learning task in virtual reality. We find that neurons with high Fos induction form ensembles of cells with highly correlated activity, exhibit reliable place fields that evenly tile the environment and have more stable tuning across days than nearby non-Fos-induced cells. Comparing neighbouring cells with and without Fos function using a sparse genetic loss-of-function approach, we find that neurons with disrupted Fos function have less reliable activity, decreased spatial selectivity and lower across-day stability. Our results demonstrate that Fos-induced cells contribute to hippocampal place codes by encoding accurate, stable and spatially uniform maps and that Fos itself has a causal role in shaping these place codes. Fos ensembles may therefore link two key aspects of hippocampal function: engrams for contextual memories and place codes that underlie cognitive maps.
Brain–phenotype models fail for individuals who defy sample stereotypes
Authors: Greene Abigail S. , Shen Xilin , Noble Stephanie , Horien Corey , Hahn C. Alice , Arora Jagriti , Tokoglu Fuyuze , Spann Marisa N. , Carrión Carmen I. , Barron Daniel S. , Sanacora Gerard , Srihari Vinod H. , Woods Scott W. , Scheinost Dustin , Constable R. Todd 
Published: August 2022

AbstractIndividual differences in brain functional organization track a range of traits, symptoms and behaviours1–12. So far, work modelling linear brain–phenotype relationships has assumed that a single such relationship generalizes across all individuals, but models do not work equally well in all participants13,14. A better understanding of in whom models fail and why is crucial to revealing robust, useful and unbiased brain–phenotype relationships. To this end, here we related brain activity to phenotype using predictive models—trained and tested on independent data to ensure generalizability15—and examined model failure. We applied this data-driven approach to a range of neurocognitive measures in a new, clinically and demographically heterogeneous dataset, with the results replicated in two independent, publicly available datasets16,17. Across all three datasets, we find that models reflect not unitary cognitive constructs, but rather neurocognitive scores intertwined with sociodemographic and clinical covariates; that is, models reflect stereotypical profiles, and fail when applied to individuals who defy them. Model failure is reliable, phenotype specific and generalizable across datasets. Together, these results highlight the pitfalls of a one-size-fits-all modelling approach and the effect of biased phenotypic measures18–20 on the interpretation and utility of resulting brain–phenotype models. We present a framework to address these issues so that such models may reveal the neural circuits that underlie specific phenotypes and ultimately identify individualized neural targets for clinical intervention.