bluuebunny/crossref_metadata_2025_split huggingface dataset:
Parenthood and Couples’ Relative Earnings in Norway
Authors: Bergsvik Janna , Kitterød Ragni Hege , Wiik Kenneth Aarskaug 
Published: November 2019

AbstractWith the advance of the gender revolution, income dynamics in couples are changing. Nonetheless, in most Western societies, parenthood still promotes specialized gender roles. Utilizing Norwegian register data on all married and cohabiting couples born 1946–1989, we investigate possible changes in the associations between parenthood and within-couple inequality in earnings in the years 2005–2014. Precisely, using interactions and fixed effects models, we compare the development of within-couple gender gaps in earnings over time between childless couples and couples with children of different ages, and within couples before and after childbirth. Results showed that the gender gap in earnings in couples increased with the number of children and was most distinct among couples with children below 6 years. However, the association between parenthood and within-couple inequality in earnings was reduced across the study period, a development partly driven by a decreasing fatherhood premium evident from 2009 onwards. Not only women’s but also men’s income development is now negatively affected by having young children in the household. Our findings, thus, indicate important changes in how men and women prioritize paid labour after a childbirth.
Stress Is Associated With Neurocognitive Function in Hispanic/Latino Adults: Results From HCHS/SOL Socio-Cultural Ancillary Study
Authors: Muñoz Elizabeth , Gallo Linda C , Hua Simin , Sliwinski Martin J , Kaplan Robert , Lipton Richard B , González Hector M , Penedo Frank J , Tarraf Wassim , Daviglus Martha L , Llabre Maria M , Isasi Carmen R 
Published: November 2019

AbstractObjectivesThe purpose of this study was to evaluate the hypothesis that chronic and acculturative stress would be negatively associated with neurocognitive function among middle aged to older Hispanics/Latinos.MethodOur analytic sample consisted of 3,265 participants (mean age = 56.7 (±0.24)) from the Hispanic Community Health Study/Study of Latinos who participated in its Sociocultural Ancillary Study. During the baseline phase of this project, participants were assessed on multiple domains of neurocognitive function, and completed self-report measures of chronic and acculturative stress.ResultsEach standard deviation increase in chronic stress was associated with lower performance in a verbal learning task (B = −.17, 95% CI [−.32, −.01]); this association was no longer significant after adjusting for mental and physical health symptoms, including depression and anxiety symptoms, and cardiovascular health. A standard deviation increase in acculturative stress was associated with poorer performance in all cognitive measures (Bs range = −.13 to −1.03). Associations of acculturation stress with psychomotor speed, verbal learning, and word fluency remained significant after adjusting for mental and physical health symptoms.DiscussionOur results suggest that mental and physical health may help explain some cross-sectional associations between stress and cognition and highlight the need to examine culture-specific psychosocial stressors to better understand the context of psychosocial risk factors for neurocognitive performance.
Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv
Authors: Khan Farah Zaib , Soiland-Reyes Stian , Sinnott Richard O , Lonie Andrew , Goble Carole , Crusoe Michael R 
Published: November 2019

Abstract

Background
The automation of data analysis in the form of scientific workflows has become a widely adopted practice in many fields of research. Computationally driven data-intensive experiments using workflows enable automation, scaling, adaptation, and provenance support. However, there are still several challenges associated with the effective sharing, publication, and reproducibility of such workflows due to the incomplete capture of provenance and lack of interoperability between different technical (software) platforms.

Results
Based on best-practice recommendations identified from the literature on workflow design, sharing, and publishing, we define a hierarchical provenance framework to achieve uniformity in provenance and support comprehensive and fully re-executable workflows equipped with domain-specific information. To realize this framework, we present CWLProv, a standard-based format to represent any workflow-based computational analysis to produce workflow output artefacts that satisfy the various levels of provenance. We use open source community-driven standards, interoperable workflow definitions in Common Workflow Language (CWL), structured provenance representation using the W3C PROV model, and resource aggregation and sharing as workflow-centric research objects generated along with the final outputs of a given workflow enactment. We demonstrate the utility of this approach through a practical implementation of CWLProv and evaluation using real-life genomic workflows developed by independent groups.

Conclusions
The underlying principles of the standards utilized by CWLProv enable semantically rich and executable research objects that capture computational workflows with retrospective provenance such that any platform supporting CWL will be able to understand the analysis, reuse the methods for partial reruns, or reproduce the analysis to validate the published findings.
Stigma and Disclosure in Patients With Inflammatory Bowel Disease
Authors: Guo Ling , Rohde Jacob , Farraye Francis A 
Published: November 2019

Abstract
Stigma in patients suffering from chronic disease is associated with worse clinical outcomes and secondary medical issues such as depression, anxiety, and decreased quality of life. We believe various forms of stigma can have different clinical significance in patients with inflammatory bowel disease (IBD). With further insight and research, we suggest that these forms of stigma could be identified and targeted by researchers or clinicians to lessen the psychological disease burden in patients and to potentially improve their physical well-being. In the current review, we discuss public perceptions, knowledge, and stigmatization of IBD, the prevalence of various forms of IBD stigma, and the impact of such stigma on patient outcomes. We also discuss IBD disclosure, its association with stigma, and the tendencies and effects of such disclosures among youth and adult patient populations. We finish the review by highlighting possible modalities and research areas for future IBD interventions.
Balanced Activation of Striatal Output Pathways by Faster Off-Rate PDE10A Inhibitors Elicits Not Only Antipsychotic-Like Effects But Also Procognitive Effects in Rodents
Authors: Harada Akina , Kaushal Nidhi , Suzuki Kazunori , Nakatani Atsushi , Bobkov Konstantin , Vekich John A , Doyle Joseph P , Kimura Haruhide 
Published: November 2019

Abstract

Background
Faster off-rate competitive enzyme inhibitors are generally more sensitive than slower off-rate ones to binding inhibition by enzyme substrates. We previously reported that the cyclic adenosine monophosphate concentration in dopamine D1 receptor-expressing medium spiny neurons (D1-MSNs) may be higher than that in D2-MSNs. Consequently, compared with slower off-rate phosphodiesterase 10A inhibitors, faster off-rate ones comparably activated D2-MSNs but partially activated D1-MSNs. We further investigated the pharmacological profiles of phosphodiesterase 10A inhibitors with different off-rates.

Methods
Phosphodiesterase 10A inhibitors with slower (T-609) and faster (T-773) off-rates were used. D1- and D2-MSN activation was assessed by substance P and enkephalin mRNA induction, respectively, in rodents. Antipsychotic-like effects were evaluated by MK-801- and methamphetamine-induced hyperactivity and prepulse inhibition in rodents. Cognition was assessed by novel object recognition task and radial arm maze in rats. Prefrontal cortex activation was evaluated by c-Fos immunohistochemistry in rats. Gene translations in D1- and D2-MSNs were evaluated by translating ribosome affinity purification and RNA sequencing in mice.

Results
Compared with T-609, T-773 comparably activated D2-MSNs but partially activated D1-MSNs. Haloperidol (a D2 antagonist) and T-773, but not T-609, produced antipsychotic-like effects in all paradigms. T-773, but not T-609 or haloperidol, activated the prefrontal cortex and improved cognition. Overall gene translation patterns in D2-MSNs by all drugs and those in D1-MSNs by T-773 and T-609 were qualitatively similar.

Conclusions
Differential pharmacological profiles among those drugs could be attributable to activation balance of D1- and D2-MSNs. The “balanced activation” of MSNs by faster off-rate phosphodiesterase 10A inhibitors may be favorable to treat schizophrenia.
The Complex Orthogonal Gelfand–Zeitlin System
Authors: Colarusso Mark , Evens Sam 
Published: November 2019

Abstract
In this paper, we use the theory of algebraic groups to prove a number of new and fundamental results about the orthogonal Gelfand–Zeitlin system. We show that the moment map (orthogonal Kostant–Wallach map) is surjective and simplify criteria of Kostant and Wallach for an element to be strongly regular. We further prove the integrability of the orthogonal Gelfand–Zeitlin system on regular adjoint orbits and describe the generic flows of the integrable system. We also study the nilfibre of the moment map and show that in contrast to the general linear case it contains no strongly regular elements. This extends results of Kostant, Wallach, and Colarusso from the general linear case to the orthogonal case.
Cosmological constrains on minimally and non-minimally coupled scalar field models
Authors: Davari Zahra , Marra Valerio , Malekjani Mohammad 
Published: November 2019

Abstract
We study the minimally and non-minimally coupled scalar field models as possible alternatives for dark energy, the mysterious energy component that is driving the accelerated expansion of the universe. After discussing the dynamics at both the background and perturbation level, we confront the two models with the latest cosmological data. After obtaining updated constraints on their parameters we perform model selection using the basic information criteria. We found that the ΛCDM model is strongly favored when the local determination of the Hubble constant is not considered and that this statement is weakened once local H0 is included in the analysis. We calculate the parameter combination $S_8=\sigma _8\sqrt{\Omega _{m}/0.3}$ and show the decrement of the tension with respect to the Planck results in the case of minimally and non-minimally coupled scalar field models. Finally, for the coupling constant between DE and gravity, we obtain the constraint $\xi \simeq -0.06^{+0.19}_{-0.19}$, approaching the one from solar system tests |ξ| ≲ 10−2 and comparable to the conformal value ξ = 1/6 at 1σ uncertainty.
Structural insights into target DNA recognition by R2R3-MYB transcription factors
Authors: Wang Baihui , Luo Qiang , Li Yingping , Yin Liufan , Zhou Nana , Li Xiangnan , Gan Jianhua , Dong Aiwu 
Published: November 2019

AbstractAs the largest group of MYB family transcription factors, R2R3-MYB proteins play essential roles during plant growth and development. However, the structural basis underlying how R2R3-MYBs recognize the target DNA remains elusive. Here, we report the crystal structure of Arabidopsis WEREWOLF (WER), an R2R3-MYB protein, in complex with its target DNA. Structural analysis showed that the third α-helices in both the R2 and R3 repeats of WER fit in the major groove of the DNA, specifically recognizing the DNA motif 5′-AACNGC-3′. In combination with mutagenesis, in vitro binding and in vivo luciferase assays, we showed that K55, N106, K109 and N110 are critical for the function of WER. Although L59 of WER is not involved in DNA binding in the structure, ITC analysis suggested that L59 plays an important role in sensing DNA methylation at the fifth position of cytosine (5mC). Like 5mC, methylation at the sixth position of adenine (6mA) in the AAC element also inhibits the interaction between WER and its target DNA. Our study not only unravels the molecular basis of how WER recognizes its target DNA, but also suggests that 5mC and 6mA modifications may block the interaction between R2R3-MYB transcription factors and their target genes.
TFregulomeR reveals transcription factors’ context-specific features and functions
Authors: Lin Quy Xiao Xuan , Thieffry Denis , Jha Sudhakar , Benoukraf Touati 
Published: November 2019

AbstractTranscription factors (TFs) are sequence-specific DNA binding proteins, fine-tuning spatiotemporal gene expression. Since genomic occupancy of a TF is highly dynamic, it is crucial to study TF binding sites (TFBSs) in a cell-specific context. To date, thousands of ChIP-seq datasets have portrayed the genomic binding landscapes of numerous TFs in different cell types. Although these datasets can be browsed via several platforms, tools that can operate on that data flow are still lacking. Here, we introduce TFregulomeR (https://github.com/benoukraflab/TFregulomeR), an R-library linked to an up-to-date compendium of cistrome and methylome datasets, implemented with functionalities that facilitate integrative analyses. In particular, TFregulomeR enables the characterization of TF binding partners and cell-specific TFBSs, along with the study of TF’s functions in the context of different partnerships and DNA methylation levels. We demonstrated that TFs’ target gene ontologies can differ notably depending on their partners and, by re-analyzing well characterized TFs, we brought to light that numerous leucine zipper TFBSs derived from ChIP-seq experiments documented in current databases were inadequately characterized, due to the fact that their position weight matrices were assembled using a mixture of homodimer and heterodimer binding sites. Altogether, analyses of context-specific transcription regulation with TFregulomeR foster our understanding of regulatory network-dependent TF functions.
Risk factors of damage in early diagnosed systemic lupus erythematosus: results of the Italian multicentre Early Lupus Project inception cohort
Authors: Piga Matteo , Floris Alberto , Sebastiani Gian Domenico , Prevete Imma , Iannone Florenzo , Coladonato Laura , Govoni Marcello , Bortoluzzi Alessandra , Mosca Marta , Tani Chiara , Doria Andrea , Iaccarino Luca , Franceschini Franco , Fredi Micaela , Conti Fabrizio , Spinelli Francesca Romana , Galeazzi Mauro , Bellisai Francesca , Zanetti Anna , Carrara Greta , Scirè Carlo Alberto , Mathieu Alessandro 
Published: November 2019

AbstractObjectiveTo investigate risk factors for damage development in a prospective inception cohort of early diagnosed SLE patients.MethodsThe Early Lupus Project recruited an inception cohort of patients within 12 months of SLE classification (1997 ACR criteria). At enrolment and every 6 months thereafter, the SLICC/ACR Damage Index was recorded. The contribution of baseline and time-varying covariates to the development of damage, defined as any SLICC/ACR Damage Index increase from 0 to ≥1, was assessed using univariate analysis. Forward-backward Cox regression models were fitted with covariates with P &lt; 0.05 to identify factors independently associated with the risk of damage development.ResultsOverall, 230 patients with a mean (s.d.) age of 36.5 (14.4) years were eligible for this study; the mean number of visits per patient was 5.3 (2.7). There were 51 (22.2%) patients with SLICC/ACR Damage Index ≥1 after 12 months, 59 (25.6%) after 24 months and 67 (29.1%) after 36 months. Dyslipidaemia [P = 0.001; hazard ratio (HR) 2.9; 95% CI 1.5, 5.6], older age (P = 0.001; HR 3.0; 95% CI 1.6, 5.5), number of organs/systems involved (P = 0.002; HR 1.4; 95% CI 1.1, 1.8) and cardiorespiratory involvement (P = 0.041; HR 1.9; 95% CI 1.0, 3.7) were independently associated with an increased risk of developing damage. Risk profiles for damage development differed for glucocorticoid-related and -unrelated damage. HCQ use (P = 0.005; HR 0.4; 95% CI 0.2, 0.8) reduced the risk of glucocorticoid-unrelated damage.ConclusionWe identified risk factors of damage development, but little effect of glucocorticoids, in this early SLE cohort. Addressing modifiable risk factors from the time of SLE diagnosis might improve patient outcomes.
Eight in one: morphological and molecular analyses reveal cryptic diversity in Amazonian alopoglossid lizards (Squamata: Gymnophthalmoidea)
Authors: Ribeiro-Júnior Marco Antonio , Choueri Erik , Lobos Simon , Venegas Pablo , Torres-Carvajal Omar , Werneck Fernanda 
Published: November 2019

AbstractAmong the currently recognized species of Alopoglossus, the Amazonian Alopoglossus angulatus has the widest distribution. We here analyse variation in scutellation and morphometrics of A. angulatus by examining 785 specimens of Alopoglossus. We also analyse intra- and interspecific genetic structure and differentiation using two mitochondrial (Cytb and ND4) and two nuclear (SNCAIP and PRLR) genes from 97 samples. Both morphological and molecular analyses are based on specimens and samples from Brazil, Colombia, Ecuador, French Guiana, Guyana, Peru and Suriname. Our results reveal A. angulatus as a monophyletic group composed of eight independently evolved lineages: A. angulatus s.s. plus three revalidated species plus two newly described species plus two putative species. We provide descriptions of all taxa, except for the putative species, including the first description of the neotype of A. angulatus and redescriptions of resurrected junior synonyms. Illustrations, diagnoses and geographical distribution maps are provided. Gene and species trees are also provided. The two new taxa recognized in this paper, along with the revalidation of three taxa, increase the total number of known species of Alopoglossus from nine to 14.
Acute myocarditis complicated with permanent complete atrioventricular block caused by Escherichia coli bacteremia
Authors: Hsu Ching-Tsai , Hsiao Po-Jen , Liu Ching-Han , Chou Yen-Lien , Chen Bo-Hau , Liou Jun-Ting 
Published: November 2019

Abstract

Rationale:
Acute myocarditis complicated with complete atrioventricular block (CAVB) is rare in clinical scenario. We report an uncommon case of myocarditis complicated with permanent CAVB caused by Escherichia coli (E coli) bacteremia.

Patient concerns:
A 77-year-old woman presented at the emergency department with chest pain, dizziness, nausea, and cold sweats of 1-day duration. She had histories of type 2 diabetes mellitus, hyperlipidemia, and chronic kidney disease with regular medical therapy.

Diagnosis:
Both blood and urine cultures were positive for E coli. Regional inferior wall motion abnormalities on echocardiography, unexplained life-threatening arrhythmias, newly abnormal electrocardiogram, elevated cardiac troponins, and healthy coronary arteries on angiography were consistent with E coli-induced myocarditis.

Interventions:
The patient received implantation of a dual-chamber pacemaker because of irreversible CAVB.

Outcomes:
The patient was discharged on day 8 and remained asymptomatic at 15 months of follow-up, with ST-segment normalization and normal left ventricular function.

Lessons:
This extremely rare case of E coli-induced myocarditis masquerading as acute STEMI and with permanent CAVB sequelae, highlights the importance of sensitivity to non-ischemia etiologies of ST-segment elevation and the potential impact of E coli sepsis on the cardiac conduction system.
18F-NaF Uptake in Retroperitoneal Neurofibroma and Uterine Leiomyoma Calcifications
Authors: Liu Huipan , Chen Yue , Yang Ling , Fu Wenhui 
Published: November 2019

Abstract
A 48-year-old woman with intermittent lower back pain for 9 months and known retroperitoneal neurofibroma underwent 18F-NaF PET/CT scan to assess possible bony lesions causing the pain. Incidentally, the images showed elevated NaF activity in the retroperitoneal neurofibroma. In addition, uterine leiomyoma with heterogeneous calcifications revealed increased NaF activity.
Effects of Fibroblast Growth Factor-2 Combined With a Collagen/Gelatin Sponge for Adipogenesis in the Mouse Subcutis
Authors: Kakudo Natsuko , Morimoto Naoki , Ogawa Takeshi , Kusumoto Kenji 
Published: November 2019

Introduction
A collagen/gelatin sponge (CGS) is a new scaffold that promotes wound healing by slowly releasing fibroblast growth factor (FGF)-2. FGF-2 induces mitogenesis, angiogenesis, and adipogenesis. In this study, the adipogenesis-inducing effects of CGS combined with FGF-2 in the subcutis of mice were evaluated.

Methods
Collagens/gelatin sponges (10 × 5 mm) were impregnated with 50 μL of FGF-2 solution (10 or 100 μg/mL). A CGS (Gunze Corp, Osaka, Japan) combined with FGF-2 was implanted subcutaneously into the thoracic region of mice. At 1, 2, 3, and 4 weeks, samples were collected for hematoxylin and eosin staining, von Willebrand factor immunostaining, and perilipin immunostaining to examine adipose tissue localization and angiogenesis. A CGS with only saline solution was prepared as a control.

Results
Adipocytes in the collagen fibers appeared at 3 weeks, and a zonal fat layer was noted under the panniculus carnosus at 4 weeks in the FGF-2–combined CGS groups. The fat layer was significantly thicker in the FGF-2 (100 μg/mL) group than in the FGF-2 (10 μg/mL) group. In the control group, no fat pad was newly formed. The number of newly formed vessels in the FGF (10 μg/mL) and (100 μg/mL) groups was significantly greater in the FGF-2 group than in the control group.

Conclusion
This study presents a promising method to enhance adipogenic effects in the murine subcutis using CGS combined with FGF-2, representing a potential technique for soft tissue reconstruction.
AncientYersinia pestisgenomes provide no evidence for the origins or spread of the Justinianic Plague
Authors: Keller Marcel , Spyrou Maria A. , McCormick Michael , Bos Kirsten I. , Herbig Alexander , Krause Johannes 
Published: November 2019

AbstractAlong with the publication of 137 ancient human genomes retrieved from archaeological remains of the Eurasian steppe, Damgaard et al., 2018 identified two individuals infected withYersinia pestis, yielding one genome with 0.24x average coverage (DA147, 6th–9thc. AD) and another with 8.7x (DA101, 2nd–3rdc. AD). A phylogenetic analysis performed on the latter placed it in a position ancestral to a 6th-century Justinianic genome from Aschheim, Germany. These results are used to fuel an argument that the Justinianic Plague (541–544 AD) “was brought to Europe towards the end of the Hunnic period through the Silk Road along the southern fringes of the steppes” in contrast to the leading hypothesis of introduction via the Red Sea that is supported by historical accounts. In our reanalysis, we question the contested historical context of the presented genomes with the Justinianic Plague and show that the lower coverage genome might be rather related to the Black Death (1346–1353 AD).