bluuebunny/crossref_metadata_2025_split huggingface dataset:
Repeating fast radio bursts with high burst rates by plate collisions in neutron star crusts
Authors: Li Qiao-Chu , Yang Yuan-Pei , Wang F Y , Xu Kun , Dai Zi-Gao 
Published: September 2022

ABSTRACT
Some repeating fast radio burst (FRB) sources show high burst rates, and the physical origin is still unknown. Outstandingly, the first repeater FRB 121102 appears extremely high burst rate with the maximum value reaching $122\, \mathrm{h^{-1}}$ or even higher. In this work, we propose that the high burst rate of an FRB repeater may be due to plate collisions in the crust of young neutron stars (NSs). In the crust of an NS, vortex lines are pinned to the lattice nuclei. When the relative angular velocity between the superfluid neutrons and the NS lattices is non-zero, a pinned force will act on the vortex lines, which will cause the lattice displacement and the strain on the NS crust growing. With the spin evolution, the crustal strain reaches a critical value, then the crust may crack into plates, and each of plates will collide with its adjacent ones. The Aflvén wave could be launched by the plate collisions and further produce FRBs. In this scenario, the predicted burst rate can reach $\sim 770\, \mathrm{h}^{-1}$ for an NS with the magnetic field of $10^{13}\, {\rm G}$ and the spin period of $0.01\, {\rm s}$. We further apply this model to FRB 121102, and predict the waiting time and energy distribution to be $P(t_{\mathrm{w}}) \propto t_{\text{w}}^{\alpha _{t_{\text{w}}}}$ with $\alpha _{t_{\text{w}}} \simeq -1.75$ and $N(E)\text{d}E \propto E^{\alpha _{E}}\text{d}E$ with αE ≃ −1.67, respectively. These properties are consistent with the observations of FRB 121102.
Locating the flickering source in polars
Authors: Iłkiewicz Krystian , Scaringi Simone , Littlefield Colin , Mason Paul A 
Published: September 2022

ABSTRACT
Flickering is a fast variability observed in all accreting systems. It has been shown that in most cataclysmic variables flickering originates in the accretion disc. However, in polars the strong magnetic field of the white dwarf prevents the formation of an accretion disc. Therefore, the origin of flickering in polars is not clear. We analysed the changes of flickering amplitude with orbital phase in seven polars in order to reveal its site of origin. We show that at least in some polars there are two separate sources of flickering. Moreover, at least one of the sources is located at a large distance from the main source of light in the system.
Accurate measurement of microsatellite length by disrupting its tandem repeat structure
Authors: Wang Zihua , Moffitt Andrea B , Andrews Peter , Wigler Michael , Levy Dan 
Published: September 2022

AbstractTandem repeats of simple sequence motifs, also known as microsatellites, are abundant in the genome. Because their repeat structure makes replication error-prone, variant microsatellite lengths are often generated during germline and other somatic expansions. As such, microsatellite length variations can serve as markers for cancer. However, accurate error-free measurement of microsatellite lengths is difficult with current methods precisely because of this high error rate during amplification. We have solved this problem by using partial mutagenesis to disrupt enough of the repeat structure of initial templates so that their sequence lengths replicate faithfully. In this work, we use bisulfite mutagenesis to convert a C to a U, later read as T. Compared to untreated templates, we achieve three orders of magnitude reduction in the error rate per round of replication. By requiring agreement from two independent first copies of an initial template, we reach error rates below one in a million. We apply this method to a thousand microsatellite loci from the human genome, revealing microsatellite length distributions not observable without mutagenesis.
The KdmB-EcoA-RpdA-SntB chromatin complex binds regulatory genes and coordinates fungal development with mycotoxin synthesis
Authors: Karahoda Betim , Pardeshi Lakhansing , Ulas Mevlut , Dong Zhiqiang , Shirgaonkar Niranjan , Guo Shuhui , Wang Fang , Tan Kaeling , Sarikaya-Bayram Özlem , Bauer Ingo , Dowling Paul , Fleming Alastair B , Pfannenstiel Brandon T , Luciano-Rosario Dianiris , Berger Harald , Graessle Stefan , Alhussain Mohamed M , Strauss Joseph , Keller Nancy P , Wong Koon Ho , Bayram Özgür 
Published: September 2022

AbstractChromatin complexes control a vast number of epigenetic developmental processes. Filamentous fungi present an important clade of microbes with poor understanding of underlying epigenetic mechanisms. Here, we describe a chromatin binding complex in the fungus Aspergillus nidulans composing of a H3K4 histone demethylase KdmB, a cohesin acetyltransferase (EcoA), a histone deacetylase (RpdA) and a histone reader/E3 ligase protein (SntB). In vitro and in vivo evidence demonstrate that this KERS complex is assembled from the EcoA-KdmB and SntB-RpdA heterodimers. KdmB and SntB play opposing roles in regulating the cellular levels and stability of EcoA, as KdmB prevents SntB-mediated degradation of EcoA. The KERS complex is recruited to transcription initiation start sites at active core promoters exerting promoter-specific transcriptional effects. Interestingly, deletion of any one of the KERS subunits results in a common negative effect on morphogenesis and production of secondary metabolites, molecules important for niche securement in filamentous fungi. Consequently, the entire mycotoxin sterigmatocystin gene cluster is downregulated and asexual development is reduced in the four KERS mutants. The elucidation of the recruitment of epigenetic regulators to chromatin via the KERS complex provides the first mechanistic, chromatin-based understanding of how development is connected with small molecule synthesis in fungi.
Trypanosoma brucei histones are heavily modified with combinatorial post-translational modifications and mark Pol II transcription start regions with hyperacetylated H2A
Authors: Maree Johannes P , Tvardovskiy Andrey , Ravnsborg Tina , Jensen Ole N , Rudenko Gloria , Patterton Hugh-G 
Published: September 2022

Abstract
Trypanosomes diverged from the main eukaryotic lineage about 600 million years ago, and display some unusual genomic and epigenetic properties that provide valuable insight into the early processes employed by eukaryotic ancestors to regulate chromatin-mediated functions. We analysed Trypanosoma brucei core histones by high mass accuracy middle-down mass spectrometry to map core histone post-translational modifications (PTMs) and elucidate cis-histone combinatorial PTMs (cPTMs). T. brucei histones are heavily modified and display intricate cPTMs patterns, with numerous hypermodified cPTMs that could contribute to the formation of non-repressive euchromatic states. The Trypanosoma brucei H2A C-terminal tail is hyperacetylated, containing up to five acetylated lysine residues. MNase-ChIP-seq revealed a striking enrichment of hyperacetylated H2A at Pol II transcription start regions, and showed that H2A histones that are hyperacetylated in different combinations localised to different genomic regions, suggesting distinct epigenetic functions. Our genomics and proteomics data provide insight into the complex epigenetic mechanisms used by this parasite to regulate a genome that lacks the transcriptional control mechanisms found in later-branched eukaryotes. The findings further demonstrate the complexity of epigenetic mechanisms that were probably shared with the last eukaryotic common ancestor.
Formation and removal of 1,N6-dimethyladenosine in mammalian transfer RNA
Authors: You Xue-Jiao , Zhang Shan , Chen Juan-Juan , Tang Feng , He Jingang , Wang Jie , Qi Chu-Bo , Feng Yu-Qi , Yuan Bi-Feng 
Published: September 2022

Abstract
RNA molecules harbor diverse modifications that play important regulatory roles in a variety of biological processes. Over 150 modifications have been identified in RNA molecules. N6-methyladenosine (m6A) and 1-methyladenosine (m1A) are prevalent modifications occurring in various RNA species of mammals. Apart from the single methylation of adenosine (m6A and m1A), dual methylation modification occurring in the nucleobase of adenosine, such as N6,N6-dimethyladenosine (m6,6A), also has been reported to be present in RNA of mammals. Whether there are other forms of dual methylation modification occurring in the nucleobase of adenosine other than m6,6A remains elusive. Here, we reported the existence of a novel adenosine dual methylation modification, i.e. 1,N6-dimethyladenosine (m1,6A), in tRNAs of living organisms. We confirmed that m1,6A is located at position 58 of tRNAs and is prevalent in mammalian cells and tissues. The measured level of m1,6A ranged from 0.0049% to 0.047% in tRNAs. Furthermore, we demonstrated that TRMT6/61A could catalyze the formation of m1,6A in tRNAs and m1,6A could be demethylated by ALKBH3. Collectively, the discovery of m1,6A expands the diversity of RNA modifications and may elicit a new tRNA modification-mediated gene regulation pathway.
The stochastic world of emerging viruses
Authors: Gavotte Laurent , Frutos Roger 
Published: September 2022

Abstract
The acquisition of new hosts is a fundamental mechanism by which parasitic organisms expand their host range and perpetuate themselves on an evolutionary scale. Among pathogens, viruses, due to their speed of evolution, are particularly efficient in producing new emergence events. However, even though these phenomena are particularly important to the human species and therefore specifically studied, the processes of virus emergence in a new host species are very complex and difficult to comprehend in their entirety. In order to provide a structured framework for understanding emergence in a species (including humans), a comprehensive qualitative model is an indispensable cornerstone. This model explicitly describes all the stages necessary for a virus circulating in the wild to come to the crossing of the epidemic threshold. We have therefore developed a complete descriptive model explaining all the steps necessary for a virus circulating in host populations to emerge in a new species. This description of the parameters presiding over the emergence of a new virus allows us to understand their nature and importance in the emergence process.
Intellectual Property Rights and Debt Financing
Authors: Suh Paula 
Published: September 2022

Abstract
I examine how the investment and financing of innovation are affected by the contractual allocation of intellectual property rights using a Federal Circuit ruling that strengthened firms’ property rights to employee patents. I find that treatment firms’ total debt-to-assets ratio and R&D spending increase by 18% and 9%, respectively, as the residual control over patents increases firms’ incentives to innovate. These effects are more pronounced when ex ante holdup exposure is high. Furthermore, I find a positive marginal effect of asset complementarity as it limits the decline in employee incentives. Consistently, I show that firms’ ex post asset complementarity improves.
Authors have furnished an Internet Appendix, which is available on the Oxford University Press Web site next to the link to the final published paper online.
SLE stratification based on BAFF and IFN-I bioactivity for biologics and implications of BAFF produced by glomeruli in lupus nephritis
Authors: Itotagawa Eri , Tomofuji Yoshihiko , Kato Yasuhiro , Konaka Hachiro , Tsujimoto Kohei , Park JeongHoon , Nagira Daiki , Hirayama Takehiro , Jo Tatsunori , Hirano Toru , Morita Takayoshi , Nishide Masayuki , Nishida Sumiyuki , Shima Yoshihito , Narazaki Masashi , Okada Yukinori , Takamatsu Hyota , Kumanogoh Atsushi 
Published: September 2022

Abstract

Objective
B-cell activating factor (BAFF) is implicated in SLE pathogenesis. Blocking BAFF signalling has contributed to reducing glucocorticoid dosage and preventing organ damage. However, clinical characteristics of patients who may benefit from this therapy are not yet fully elucidated. Therefore, we identified patients with high BAFF-bioactivity to investigate their clinical characteristics and BAFF-producing cells.

Methods
We established the reporter cell for BAFF and investigated the clinical characteristics of SLE patients with high BAFF-bioactivity. We identified BAFF-expressing kidney cells using publicly available scRNA-seq data and immunohistological analysis. SLE patients were stratified based on the bioactivity of BAFF and type-I IFN (IFN-I) to identify associated characteristic clinical manifestations.

Results
SLE patients, especially patients with LN, had significantly higher serum BAFF-bioactivity than healthy controls (HC) and non-LN patients. Additionally, single-cell-RNA-seq data and immunohistological analysis of kidney samples from LN patients revealed that BAFF is expressed in glomerular macrophages and mesangial cells. Notably, BAFF bioactivity was elevated in the urine of LN patients compared with that of non-LN patients, while no IFN-I bioactivity was detected in the urine. Furthermore, SLE stratification based on bioactivities of serum BAFF and IFN-I revealed the clinical characteristics of patients: high BAFF represented patients with LN and high IFN-I represented patients with blood and skin manifestations.

Conclusions
Monitoring urinary BAFF-bioactivity may be valuable in diagnosing LN. Furthermore, stratification based on serum BAFF and IFN-I bioactivities may allow the identification of appropriate patients for biologics targeting BAFF and IFN-I.
Biopsychosocial Attributes of Single-region and Multi-region Body Pain During Early Adolescence
Authors: Senger-Carpenter Thea , Scott Eric L. , Marriott Deanna J. , Lenko Rachel , Seng Julia , Ploutz-Snyder Robert , Robinson-Lane Sheria G. , Cofield Cherie , Chen Bingxin , Voepel-Lewis Terri 
Published: September 2022

Objectives:
Multi-region pain during adolescence is associated with a higher symptom burden and lower quality of life. The purpose of this study was to describe and compare the biopsychosocial attributes of single-region and multi-region pain among healthy young adolescents.

Materials and Methods:
We analyzed data from 10,320 children aged 10.6 to 14 years who self-reported pain in the Adolescent Brain and Cognitive Development Study. Pain was coded as single-region or multi-region based on body map data.

Results:
One in 5 young adolescents indicated recent multi-region pain. Sequential regression supported improved model fit when psychological and sociocultural factors were added to a biological model of pain; however, these models improved the classification of multi-region but not single-region pain. A significant interaction effect of sex and puberty remained constant across models with increased odds of pain at each advancing pubertal stage for both sexes compared with prepuberty, but no difference between girls and boys at late puberty (adjusted odds ratio [OR]=2.45 [1.72, 3.49] and adjusted OR=1.63 [1.20, 2.23], respectively). Psychological factors improved the classification of multi-region pain with significant effects of anxiety, somatic symptoms, and somnolence. Finally, compared with White and non-Hispanic children, Black and Hispanic children were less likely to report pain (adjusted OR=0.70 [0.61, 0.80]; adjusted OR=0.88 [0.78, 0.99], respectively) but had significantly higher pain interference when pain was present (adjusted OR=1.49 [1.29, 1.73] and adjusted OR=1.20 [1.06, 1.35], respectively).

Discussion:
Pain is a biopsychosocial phenomenon, but psychological and sociocultural features may be more relevant for multi-region compared with single-region pain during early adolescence.
WHO 2021 and beyond: new types, molecular markers and tools for brain tumor classification
Authors: Tran Suzanne , Bielle Franck 
Published: September 2022

Purpose of review
The fifth edition of the WHO classification of central nervous system tumors was published in 2021. It implemented major advances in the current diagnostic practice such as DNA methylation profiling. The review addresses how our understanding of the diversity of brain tumors has recently much improved through omics analysis and derived molecular biomarkers.

Recent findings
Latest impactful studies identifying new diagnostic or prognostic biomarkers in frequent tumors and describing new rare tumor types are summarized about adult and pediatric gliomas, rare neuroepithelial tumors, ependymomas, medulloblastomas and meningiomas. Some controversies are debated. The role of methylation classes and surrogate immunohistochemical markers is highlighted.

Summary
New diagnostic criteria and better definitions of tumor types aim at improving the management of brain tumor patients and at better evaluating new treatments in clinical trials. The rapidly evolving field of brain tumor classification opens exciting perspectives and many challenges to integrate clinical, radiological, histological and molecular information into a framework relevant for care and research.
Perioperative Bleeding Associated With Ibrutinib in Dermatologic Surgery: A Case–Control Study
Authors: Aghazadeh Nessa , Jin Mauricio F. , Pride Renee L. , O'Byrne Jamie , Vidal Nahid Y. 
Published: September 2022

BACKGROUND
Ibrutinib, an irreversible Bruton tyrosine kinase inhibitor, has been associated with an increased risk of bleeding. There is a paucity of data on the risk of bleeding in patients on ibrutinib undergoing dermatologic surgery.

OBJECTIVE
To determine the frequency of bleeding complications associated with ibrutinib in patients undergoing dermatologic surgery.

MATERIALS AND METHODS
A retrospective, single-center, case–control study of patients on ibrutinib undergoing skin surgery between January 2013 and March 2020 compared with sex, disease, and age-matched control patients undergoing cutaneous surgeries.

RESULTS
A total of 75 surgeries performed on 37 case patients and 116 surgeries performed on 64 control patients were included. Ibrutinib was associated with a statistically significant increased rate of bleeding events (6/75 [8%] vs 1/116 [0.8%], p-value = .02). Compared with ibrutinib patients who did not have a bleeding event, those on ibrutinib who suffered bleeding were all men, older (mean age 82.7 vs 73.0, p-value= .01), and had lower mean platelet counts (104.0 vs 150.5 K/μL, p-value = .03).

CONCLUSION
Ibrutinib may be associated with increased risk of bleeding in patients with hematologic malignancies, particularly older men with lower platelet levels and on multiple anticoagulants. Transient discontinuation of ibrutinib should be considered for dermatologic surgeries.
How to deal with nonsevere stenoses in coronary artery bypass grafting – a critical perspective on competitive flow and surgical precision
Authors: Doenst Torsten , Sousa-Uva Miguel 
Published: September 2022

Purpose of review
For invasive treatment of coronary artery disease (CAD), we assess anatomical complexity, analyse surgical risk and make heart-team decisions for percutaneous coronary intervention (PCI) or coronary artery bypass grafting (CABG). With PCI, treating flow-relevant lesions is recommended, and reintervention easily treats disease progression. For CABG, some stenoses may only be borderline or nonsevere despite a clear surgical indication. As reoperations are not easy, the question on how to address these lesions has been around from the start, but has never satisfactorily been answered.

Recent findings
With a new mechanistic perspective, we had suggested that infarct-prevention by surgical collateralization is the main prognostic mechanism of CABG in chronic coronary syndrome. Importantly, the majority of infarctions arise from nonsevere coronary lesions. Thus, surgical collateralization may be a valid treatment option for nonsevere lesions, but graft patency moves more into focus here, because graft patency directly correlates with the severity of coronary stenoses. In addition, CABG may even accelerate native disease progression.

Summary
We here review the evidence for and against grafting nonsevere CAD lesions, suggesting that patency of grafts (to moderate lesions) may be improved by increasing surgical precision. In addition, we must improve our ability to predict future myocardial infarctions.
Selection and management considerations to enhance outcomes in patients supported by left ventricular assist devices
Authors: Lander Matthew , Bhardwaj Anju , Kanwar Manreet 
Published: September 2022

Purpose of review
Left ventricular assist devices (LVADs) are life-saving therapies for patients in end-stage heart failure (HF) with reduced ejection fraction regardless of candidacy for heart transplantation. Multiple clinical trials have demonstrated improved morbidity and mortality with LVADs when compared to medical therapy alone. However, the uptake of LVADs as a therapeutic option in a larger section of end-stage HF patients remains limited, partly due to associated adverse events and re-hospitalization.

Recent Findings
Accurate assessment and staging of HF patients is crucial to guide appropriate use of LVADs. Innovative methods to risk stratify patients and manage cardiac and noncardiac comorbidities can translate to improved outcomes in LVAD recipients. Inclusion of quality of life metrics and measurements of adverse events can better inform heart failure cardiologists to help identify ideal LVAD candidates. Addition of machine learning algorithms to this process may guide patient selection to improve outcomes.

Summary
Patient selection and assessment of reversible medical comorbidities are critical to the postoperative success of LVAD implantation. Identifying patients most likely to benefit and least likely to experience adverse events should be a priority.
Patterns and predictors of elevated blood pressure and hypertension among primary school children in urban Kenya
Authors: Gewa Constance A. , Onyango Agatha C. , Opiyo Rose O. , Gittelsohn Joel , Cheskin Lawrence J. 
Published: September 2022

Objective:
We examined the prevalence of elevated blood pressure (BP) and hypertension among 390 primary school children of different socioeconomic status (SES) in two urban settings in Kenya and explored the association between children's BP status and their sociodemographic characteristics, dietary behaviours and overweight/obesity status.

Methods:
Children's BP and anthropometric measurements were taken and parents, with the help of their children, completed questionnaires on the children's dietary behaviours. An average of three BP readings was used to calculate BP percentiles by age, sex and height. BMI-for-age z-scores, waist-circumference-to-height ratio and the sum of skinfold measures were calculated. We utilized prevalence ratio analysis to examine the association between BP and sociodemographic characteristics, dietary behaviours and overweight/obesity.

Results:
About 9% of the school children had elevated BP and 33% had stage 1 hypertension. Among overweight children, the proportion of children with elevated BP was 1.85-fold greater and the proportion of children with hypertension was 1.83-fold greater compared with children with healthy body weight. Similar patterns of significant associations were seen among obese children, children with central obesity and children with high total skinfold values. The proportion of children with hypertension was 1.42-fold greater among children with high frequency of consumption of chips/crisps compared with children with lower frequency of consumption.

Conclusion:
These results increase our understanding BP patterns and determinants among school children in Kenya and can help inform noncommunicable disease prevention efforts.