bluuebunny/crossref_metadata_2025_split huggingface dataset:
The role of the microbiota in myelopoiesis during homeostasis and inflammation
Authors: Kim Yeji , Kamada Nobuhiko 
Published: January 2023

Abstract
Abstract The microbiota engages in the development and maintenance of the host immune system. The microbiota affects not only mucosal tissues where it localizes but also the distal organs. Myeloid cells are essential for host defense as first responders of the host immune system. Their generation, called myelopoiesis, is regulated by environmental signals, including commensal microbiota. Hematopoietic stem and progenitor cells in bone marrow can directly or indirectly sense microbiota-derived signals, thereby giving rise to myeloid cell lineages at steady-state and during inflammation. In this review, we discuss the role of commensal microorganisms in the homeostatic regulation of myelopoiesis in the bone marrow. We also outline the effects of microbial signals on myelopoiesis during inflammation and infection, with a particular focus on the development of innate immune memory. Studying the relationship between the microbiota and myelopoiesis will help us understand how the microbiota regulates immune responses at a systemic level beyond the local mucosa.
Optic tract edema in craniopharyngioma as a predictor of BRAFV600E mutation presence
Authors: Taguchi Akira , Kinoshita Yasuyuki , Kojima Masato , Amatya Vishwa J , Tominaga Atsushi , Takeshima Yukio , Arita Kazunori , Hiyama Eiso , Yamasaki Fumiyuki , Horie Nobutaka 
Published: January 2023

AbstractObjectivethe advent of BRAF inhibitors for preoperative treatment of craniopharyngioma has necessitated the identification of BRAFV600E status. Hence, we investigated predictors of BRAFV600E mutation in craniopharyngiomas.Methodsthis retrospective study utilized data from 30 patients who were newly diagnosed with craniopharyngioma between 2011 and 2021. Magnetic resonance imaging (MRI) and computed tomography were performed within 1 week prior to surgery. Genetic analysis for BRAF mutation was performed using the Oncomine next-generation sequencing panel or Sanger sequencing. The relationship between BRAF mutation and demographic data, endocrinological function and tumour characteristics on imaging was assessed.Resultstumour tissue carried the BRAFV600E mutation in nine patients. There was no significant difference in age, sex, or presence of hormonal dysfunction amongst patients with and without the BRAFV600E mutation in the tumour. Most tumours with the BRAFV600E mutation were histologically categorized as papillary craniopharyngioma (P = 0.0005), and were solid (P = 0.0002) and supra-diaphragmatic (P = 0.0033) on MRI. BRAFV600E tumours were more frequently associated with optic tract edema than wild-type tumour s (55.6 vs. 0%, P = 0.0009) and all tumour s with optic tract edema carried the BRAFV600E mutation. Optic tract edema was not associated with tumour volume, cysts, or preoperative pituitary function.Conclusionsin craniopharyngiomas, the presence of optic tract edema can predict the presence of BRAFV600E mutation with a positive predictive value of 100%. The finding should be verified in larger prospective cohorts and multivariate regression analysis.
Risk of early death in adolescents and young adults with cancer: a population-based study
Authors: Berkman Amy M , Andersen Clark R , Hildebrandt Michelle A T , Livingston J A , Green Adam L , Puthenpura Vidya , Peterson Susan K , Milam Joel , Miller Kimberly A , Freyer David R , Roth Michael E 
Published: January 2023

AbstractBackgroundAdvancements in treatment and supportive care have led to improved survival for adolescents and young adults (AYAs) with cancer; however, a subset of those diagnosed remain at risk for early death (within 2 months of diagnosis). Factors that place AYAs at increased risk of early death have not been well studied.MethodsThe Surveillance, Epidemiology, and End Results registry was used to assess risk of early death in AYAs with hematologic malignancies, central nervous system tumors, and solid tumors. Associations between age at diagnosis, sex, race, ethnicity, socioeconomic status, insurance status, rurality, and early death were assessed.ResultsA total of 268 501 AYAs diagnosed between 2000 and 2016 were included. Early death percentage was highest in patients diagnosed with hematologic malignancies (3.1%, 95% confidence interval [CI] = 2.9% to 3.2%), followed by central nervous system tumors (2.5%, 95% CI = 2.3% to 2.8%), and solid tumors (1.0%, 95% CI = 0.9% to 1.0%). Age at diagnosis, race, ethnicity, lower socioeconomic status, and insurance status were associated with increased risk of early death in each of the cancer types. For AYAs with hematologic malignancies and solid tumors, risk of early death decreased statistically significantly over time.ConclusionsA subset of AYAs with cancer remains at risk for early death. In addition to cancer type, sociodemographic factors also affect risk of early death. A better understanding of the interplay of factors related to cancer type, treatment, and health systems that place certain AYA subsets at higher risk for early death is needed to address these disparities and improve outcomes.
Lifetime ovulatory years and risk of epithelial ovarian cancer: a multinational pooled analysis
Authors: Fu Zhuxuan , Brooks Maria Mori , Irvin Sarah , Jordan Susan , Aben Katja K H , Anton-Culver Hoda , Bandera Elisa V , Beckmann Matthias W , Berchuck Andrew , Brooks-Wilson Angela , Chang-Claude Jenny , Cook Linda S , Cramer Daniel W , Cushing-Haugen Kara L , Doherty Jennifer A , Ekici Arif B , Fasching Peter A , Fortner Renée T , Gayther Simon A , Gentry-Maharaj Aleksandra , Giles Graham G , Goode Ellen L , Goodman Marc T , Harris Holly R , Hein Alexander , Kaaks Rudolf , Kiemeney Lambertus A , Köbel Martin , Kotsopoulos Joanne , Le Nhu D , Lee Alice W , Matsuo Keitaro , McGuire Valerie , McLaughlin John R , Menon Usha , Milne Roger L , Moysich Kirsten B , Pearce Celeste Leigh , Pike Malcolm C , Qin Bo , Ramus Susan J , Riggan Marjorie J , Rothstein Joseph H , Schildkraut Joellen M , Sieh Weiva , Sutphen Rebecca , Terry Kathryn L , Thompson Pamela J , Titus Linda , van Altena Anne M , White Emily , Whittemore Alice S , Wu Anna H , Zheng Wei , Ziogas Argyrios , Taylor Sarah E , Tang Lu , Songer Thomas , Wentzensen Nicolas , Webb Penelope M ,   AOCS Group, Risch Harvey A , Modugno Francesmary 
Published: January 2023

Abstract

Background
The role of ovulation in epithelial ovarian cancer (EOC) is supported by the consistent protective effects of parity and oral contraceptive use. Whether these factors protect through anovulation alone remains unclear. We explored the association between lifetime ovulatory years (LOY) and EOC.

Methods
LOY was calculated using 12 algorithms. Odds ratios (ORs) and 95% confidence intervals (CIs) estimated the association between LOY or LOY components and EOC among 26 204 control participants and 21 267 case patients from 25 studies. To assess whether LOY components act through ovulation suppression alone, we compared beta coefficients obtained from regression models with expected estimates assuming 1 year of ovulation suppression has the same effect regardless of source.

Results
LOY was associated with increased EOC risk (OR per year increase = 1.014, 95% CI = 1.009 to 1.020 to OR per year increase = 1.044, 95% CI = 1.041 to 1.048). Individual LOY components, except age at menarche, also associated with EOC. The estimated model coefficient for oral contraceptive use and pregnancies were 4.45 times and 12- to 15-fold greater than expected, respectively. LOY was associated with high-grade serous, low-grade serous, endometrioid, and clear cell histotypes (ORs per year increase = 1.054, 1.040, 1.065, and 1.098, respectively) but not mucinous tumors. Estimated coefficients of LOY components were close to expected estimates for high-grade serous but larger than expected for low-grade serous, endometrioid, and clear cell histotypes.

Conclusions
LOY is positively associated with nonmucinous EOC. Differences between estimated and expected model coefficients for LOY components suggest factors beyond ovulation underlie the associations between LOY components and EOC in general and for non-HGSOC.
A Systematic Review of Sleep Disturbances in Pediatric Inflammatory Bowel Disease
Authors: Moorman Erin L , Koskela-Staples Natalie C , Janicke David M 
Published: January 2023

Abstract

Objective
The current systematic review (PROSPERO ID: CRD42020220142) aims to characterize sleep health in pediatric inflammatory bowel disease (IBD) and evaluate disease-related and psychosocial prognostic factors associated with sleep disturbances in pediatric IBD.

Methods
A search of PubMed, PsycINFO, CINAHL, Web of Science, and Cochrane databases was performed. Included studies were written in English, presented original peer-reviewed research, included participants with a mean age of 8–18 years, and reported on at least one quantitative sleep outcome for children with IBD or factors impacting sleep for these children. Studies that did not report on a sleep outcome or factors influencing sleep, or only examined fatigue were excluded. Study quality was evaluated using validated quality assessment tools. The data from the included studies were extracted and synthesized across sleep health domains.

Results
Database searches yielded 122 records (total participants = 3,905). After full-text and reference/citation searches, 28 articles were included in the review. Methods used to evaluate sleep widely varied across studies and a majority of the studies were cross-sectional. Results suggest that children with IBD may not experience more frequent sleep disturbance than healthy children. Greater sleep disturbance in pediatric IBD was found to be associated with poorer psychosocial functioning and greater active disease/severe symptoms.

Conclusions
The findings from this review highlight the complex associations between sleep disturbances, inflammation, disease severity, and psychosocial functioning in children with IBD. Additional research with greater methodological rigor (e.g., use of validated sleep measures, longitudinal design, reporting of effect sizes) is warranted to further elucidate these relationships.

Summary
The current systematic review examines the existing evidence and methods of measurement of sleep disturbances in pediatric inflammatory bowel disease. We describe and evaluate factors associated with sleep disturbance in this population. The quality of evidence, strengths and weaknesses of the literature, and future directions are described.
Evolution and trends in referrals to a specialist gender identity unit in Spain over 10 years (2012-2021)
Authors: Expósito-Campos Pablo , Gómez-Balaguer Marcelino , Hurtado-Murillo Felipe , Morillas-Ariño Carlos 
Published: January 2023

AbstractBackgroundInternational studies have reported an increase in referrals to gender identity units, a shift in the assigned sex ratio of adolescents, a decrease in the age at first visit, and a growing presence of individuals with nonbinary gender identities.AimTo investigate whether these trends are present in a Spanish sample of individuals referred to a gender identity unit over the last 10 years.MethodsWe conducted a retrospective chart review of 913 consecutive referrals to a gender identity unit between 2012 and 2021 and retrieved information regarding sex assigned at birth, age at first visit, and expressed gender identity. We stratified the patients into 5 age categories: children (&lt;12 years), adolescents (12-17 years), young adults (18-25 years), adults (26-45 years), and older adults (&gt;45 years). The data were analyzed via descriptive and regression analyses.OutcomesOutcomes included the number of annual referrals, age at first visit, assigned sex ratio, and individuals with nonbinary gender identities.ResultsThe number of referrals increased 10-fold, from 18 in 2012 to 189 in 2021. The rates of increase over time were significantly more pronounced for adolescents and young adults and significantly greater for those assigned female at birth (AFAB). The age of referrals at first visit decreased, and AFAB individuals were, on average, younger than individuals assigned male at birth. The assigned sex ratio favored AFAB patients among adolescents (2.4:1) and young adults (1.75:1). Logistic regression showed that the odds of a new referral being AFAB increased by 9% per calendar year and that adolescent and young adult new referrals were significantly more likely to be AFAB. There were 21 referrals of nonbinary individuals starting in 2017, making up 6.4% of applications in 2021 and 2.9% during the last 5 years.Clinical ImplicationsThe evolution and trends observed in this study highlight the need for expanded resources, competent care, and careful reflection about implications for best practice.Strengths and LimitationsThis investigation involves a large sample of patients and is the first in our country to include people of all ages. However, the findings might not be generalizable to other gender identity units or the broader population of gender-diverse individuals.ConclusionOverall, our findings were consistent with previous international reports. We observed a marked increase in referrals, particularly among AFAB adolescents and young adults, a decreased age at first visit, and a growing presence of nonbinary individuals.
Proof theory for the logics of bringing-it-about: Ability, coalitions and means-end relationship
Authors: Dalmonte Tiziano , Grellois Charles , Olivetti Nicola 
Published: January 2023

Abstract
The logic of bringing-it-about (BIAT) aims to capture a notion of agency in which actions are analysed in terms of their results: ‘An agent does something’ means that the agent brings it about that something takes place. Our starting point is the basic BIAT logic as introduced by Elgesem in the ‘90s: this logic contains only a modal operator to express BIAT statements by single agents. Several extensions have been proposed by Elgesem himself and others, notably with the capability operator, coalitions of agents and means-end BIAT statements (i.e. of the form ‘the agent does B by doing A’). We first propose a variant of the neighbourhood semantics, called bi-neighbourhood semantics, for the basic BIAT logic and the mentioned extensions, in which a world is equipped by a set of pairs or neighbourhoods. Differently from the semantics defined in the literature, this reformulation is well suited for countermodel construction. We then introduce modular hypersequent calculi for all logics considered in this work. Our calculi enjoy the fundamental property of cut admissibility, from which it follows their completeness with respect to the axiomatization. Moreover, our calculi provide at the same time a decision procedure, as well as the first practical countermodel extraction procedure: from a single failed proof it is possible to build directly a finite countermodel of the formula under verification in the bi-neighbourhood semantics. By this last result, we obtain constructive proofs of the semantic completeness of the calculi and consequently of the finite model property for all logics.
Experience in Providing Ambulatory Surgery From an Expeditionary Fast Transport Mobile and Rapidly Deployable Expeditionary Medical Unit During Continuing Promise 2018
Authors: Garry Conor B , Middlebrooks Reginald , Moore John D , Souza Jason M , Sayles Timothy E , Ricca Robert L 
Published: January 2023

ABSTRACT

Introduction
This article describes the surgical component of the Continuing Promise 2018 (CP-18) medical training and military cooperation mission. We report on the surgical experience and lessons learned from performing peacetime ambulatory surgeries in a tent-based facility constructed on partner nation territory.

Methods
This CP mission was unique in utilizing a land-based expeditionary surgical facility. Institutional Review Board approval was obtained to collect prospective deidentified patient data and aggregate information on all surgical cases performed. Specific aims of this study included describing surgical patient characteristics and evaluating conservatively selected cases performed in this environment. Body mass index (BMI) was used as a crude screening tool for perioperative risk to assist patient selection. Our secondary aim was to report lessons learned from preparation, logistics, and host nation exchanges. The team coordinated medical credentialing and documentation of all medical supplies with each host nation. Advance teams collaborated with local physicians in country to arrange training exchanges and identify surgical candidates.

Results
The mission was conducted from February to April 2018. Only two of five planned partner nation visits were completed. The surgical facility supported 78 procedures over 14 surgical days, averaging over six cases performed per core surgical day. Patients were predominantly female, with a mean age of 25.4 and a mean BMI of 31.1. The average surgical time was 37.5 minutes, the average anesthesia time was 70 minutes, and the average recovery time was 47.6 minutes. No significant complications or adverse events were noted.

Conclusions
CP-18 was the first CP mission to perform elective ambulatory surgery on foreign soil using a tent-based facility in a noncombat, nondisaster environment instead of a hospital or amphibious ship. This mission demonstrated that such a facility may be employed to safely perform low-risk ambulatory surgeries on carefully selected patients. The Expeditionary Medical Unit, coupled with the fast transport vessel enabled rapid expeditionary surgical facility setup with significant military and disaster relief applications. Expansion of surgical indications should be performed carefully and deliberately to avoid complications and damage to international relationships.
Residuals of an equilibrium model for the galaxy reveal a state of disequilibrium in the Solar Neighbourhood
Authors: Li Haochuan , Widrow Lawrence M 
Published: January 2023

ABSTRACTWe simultaneously model the gravitational potential and phase space distribution function (DF) of giant stars near the Sun using the Gaia DR2 radial velocity catalogue. We assume that the Galaxy is in equilibrium and is symmetric about both the spin axis of the disc and the Galactic mid-plane. The potential is taken as a sum of terms that nominally represent contributions from the gas and stellar discs, the bulge, and the dark matter halo. Our model for the DF comprises two components to account for a mix of thin and thick disc stars. Each component is described by an analytic function of the energy, the spin angular momentum, and the vertical energy, in accord with Jeans theorem. We present model predictions for the radial and vertical forces within $\sim 2\, {\rm kpc}$ of the Sun, highlighting the rotation curve, the asymmetric drift curve, and the vertical force profile. We then show residuals for star counts in the R–z and z–vz planes as well as maps of the mean radial and azimuthal velocities in the z–vz plane. Using our model for the potential, we map the star count residuals in action-frequency-angle coordinates. The Gaia phase spiral, velocity arches, bending waves, and some of the known moving groups appear as well-defined features in these maps.
A theoretical study of propynal under interstellar conditions and beyond, covering low-frequency infrared spectra, spectroscopic constants, and hot bands
Authors: Tschöpe Martin , Rauhut Guntram 
Published: January 2023

ABSTRACTFrom an astrochemical point of view, propynal is a complex organic molecule. Moreover, it is a potential candidate for the formation of prebiotic propanal and propenal. Therefore, this molecule is of particular interest for astrochemical investigations. As it has been detected in the interstellar medium, it is of high relevance in this field of research. Although experimental data are available for the vibrational fundamental bands and rotational constants, experimental data for vibrational overtones and combination bands are scarce and fairly old. Additionally, high-level ab initio calculations are also not reported. In this work, we provide accurate quantum chemical calculations as well as a detailed analysis of vibrational and rovibrational properties for this molecule. The low-frequency spectrum up to $350\, \,\,\text{cm}^{-1}$ has been studied for temperatures between 10 and $300\, \text{K}$. For the same temperature range, partition functions are provided. Furthermore, the impact of hot bands up to room temperature has been investigated. A comparison of our results with experimental data is provided for the rotational constants, geometrical parameters, and a rovibrational spectrum. The underlying potential energy surface within these calculations is based on explicitly correlated coupled-cluster theory and includes up to four-mode coupling terms within an n-mode expansion. The vibrational and rovibrational calculations rely on vibrational and rovibrational configuration interaction theories, respectively.
The nucleosome unwrapping free energy landscape defines distinct regions of transcription factor accessibility and kinetics
Authors: Donovan Benjamin T , Luo Yi , Meng Zhiyuan , Poirier Michael G 
Published: January 2023

AbstractTranscription factors (TF) require access to target sites within nucleosomes to initiate transcription. The target site position within the nucleosome significantly influences TF occupancy, but how is not quantitatively understood. Using ensemble and single-molecule fluorescence measurements, we investigated the targeting and occupancy of the transcription factor, Gal4, at different positions within the nucleosome. We observe a dramatic decrease in TF occupancy to sites extending past 30 base pairs (bp) into the nucleosome which cannot be explained by changes in the TF dissociation rate or binding site orientation. Instead, the nucleosome unwrapping free energy landscape is the primary determinant of Gal4 occupancy by reducing the Gal4 binding rate. The unwrapping free energy landscape defines two distinct regions of accessibility and kinetics with a boundary at 30 bp into the nucleosome where the inner region is over 100-fold less accessible. The Gal4 binding rate in the inner region no longer depends on its concentration because it is limited by the nucleosome unwrapping rate, while the frequency of nucleosome rewrapping decreases because Gal4 exchanges multiple times before the nucleosome rewraps. Our findings highlight the importance of the nucleosome unwrapping free energy landscape on TF occupancy and dynamics that ultimately influences transcription initiation.
Upstream of N-Ras C-terminal cold shock domains mediate poly(A) specificity in a novel RNA recognition mode and bind poly(A) binding protein
Authors: Hollmann Nele Merret , Jagtap Pravin Kumar Ankush , Linse Johanna-Barbara , Ullmann Philip , Payr Marco , Murciano Brice , Simon Bernd , Hub Jochen S , Hennig Janosch 
Published: January 2023

AbstractRNA binding proteins (RBPs) often engage multiple RNA binding domains (RBDs) to increase target specificity and affinity. However, the complexity of target recognition of multiple RBDs remains largely unexplored. Here we use Upstream of N-Ras (Unr), a multidomain RBP, to demonstrate how multiple RBDs orchestrate target specificity. A crystal structure of the three C-terminal RNA binding cold-shock domains (CSD) of Unr bound to a poly(A) sequence exemplifies how recognition goes beyond the classical ππ-stacking in CSDs. Further structural studies reveal several interaction surfaces between the N-terminal and C-terminal part of Unr with the poly(A)-binding protein (pAbp). All interactions are validated by mutational analyses and the high-resolution structures presented here will guide further studies to understand how both proteins act together in cellular processes.