Miracle-dz/UniFAR-FTUs huggingface dataset:
Stress and corticosteroids regulate rat hippocampal mitochondrial DNA gene expression via the glucocorticoid receptor

Significance Successful response to stress requires that an organism rapidly direct its energy toward an appropriate survival response. The brain is central to successful survival decisions, and therefore its ability to allocate energetic resources precisely in response to stress is paramount. Glucocorticoid stress hormones have long been known to assist in the liberation of energy during stress via their ability to regulate the activity of the nuclear genome. The cellular powerhouse, the mitochondria, also contains a genome; herein we show that glucocorticoids, acting through their receptors, regulate the expression of mitochondrial genes in the brain. These findings demonstrate a direct molecular linkage between stress and mitochondrial function. Glucocorticoids (GCs) are involved in stress and circadian regulation, and produce many actions via the GC receptor (GR), which is classically understood to function as a nuclear transcription factor. However, the nuclear genome is not the only genome in eukaryotic cells. The mitochondria also contain a small circular genome, the mitochondrial DNA (mtDNA), that encodes 13 polypeptides. Recent work has established that, in the brain and other systems, the GR is translocated from the cytosol to the mitochondria and that stress and corticosteroids have a direct influence on mtDNA transcription and mitochondrial physiology. To determine if stress affects mitochondrially transcribed mRNA (mtRNA) expression, we exposed adult male rats to both acute and chronic immobilization stress and examined mtRNA expression using quantitative RT-PCR. We found that acute stress had a main effect on mtRNA expression and that expression of NADH dehydrogenase 1, 3, and 6 (ND-1, ND-3, ND-6) and ATP synthase 6 (ATP-6) genes was significantly down-regulated. Chronic stress induced a significant up-regulation of ND-6 expression. Adrenalectomy abolished acute stress-induced mtRNA regulation, demonstrating GC dependence. ChIP sequencing of GR showed that corticosterone treatment induced a dose-dependent association of the GR with the control region of the mitochondrial genome. These findings demonstrate GR and stress-dependent transcriptional regulation of the mitochondrial genome in vivo and are consistent with previous work linking stress and GCs with changes in the function of brain mitochondria.
Cerebral Sinovenous Thrombosis in Children and Neonates

Our aim is to present the etiology and risk factors for cerebral sinovenous thrombosis (CSVT) and the radiological findings, anticoagulant therapy used, and treatment outcome of patients with CSVT. This study included 12 patients who were treated for CSVT at the Ankara University, School of Medicine, Department of Pediatric Neurology. This study included 5 girls (41.7%) and 7 boys (58.3%) with a mean age of symptom onset of 5.2 ± 6.29 years (range: 0-18 years), who were followed at our institution for a mean of 1.8 ± 1.73 years (range: 0-6.5 years). Among the patients, 3 had no risk factors, 2 had 1 risk factor, and 7 had multiple risk factors. Anticoagulant therapy was administered to 4 patients, of which 1 had neurological sequelae; neurological sequelae or exitus occurred in 4 of the 8 patients who did not receive anticoagulant therapy. The present findings showed that appropriate prophylaxis in appropriately selected patients reduced the rate of recurrence of CSVT.
Abstract 62: A genome-wide association study identifies two new susceptibility loci for lung adenocarcinoma in the Japanese population.

Abstract Adenocarcinoma is the most common type, comprising ˜40% of all lung cancer cases, and its incidence is increasing both in Asian and Western countries. The development of lung adenocarcinoma is more weakly associated with smoking than other histological types of lung cancer, such as squamous and small cell carcinomas, indicating that the mechanisms of carcinogenesis differ among these types. A better understanding of the genetic factors underlying lung adenocarcinoma development is strongly needed to elucidate the disease etiology and to identify high-risk individuals for targeted screening and/or prevention. To identify genetic factors that influence the risk of lung adenocarcinoma, we conducted a genome-wide association study and two validation studies in the Japanese population that consisted of a total of 6,029 lung adenocarcinoma cases and 13,535 controls (Shiraishi et al, Nat Genet, 2012). Associations of two previously reported loci, 5p15.33 (rs2853677 in TERT; PCombined = 2.8x10-40, odds ratio (OR) = 1.41) and 3q28 (rs10937405 in TP63; PCombined = 6.9x10-17, OR = 1.25) (Landi et al, AJHG, 2009; Miki et al, Nat Genet, 2010), were validated. In addition, we identified two new susceptibility loci, 17q24.3 (rs7216064 in BPTF; PCombined = 7.4x10-11, OR = 1.20) and 6p21.3 (rs3817963 in BTNL2; PCombined = 2.7x10-10, OR = 1.18). BPTF encodes a chromatin remodeling factor that regulates transcription via specific recognition of methylated histone proteins. BPTF mRNA levels in noncancerous lung tissues were different depending on the genotype of the rs7216064 SNP (P = 0.02), implying a low expression from the risk allele. The BTNL2 gene encodes a T cell co-stimulatory molecule, and associations between BTNL2 SNPs and risk have been reported in several immune-related diseases. These data provide further evidence supporting genetic susceptibility to the development of lung adenocarcinoma. Citation Format: Kouya Shiraishi, Hideo Kunitoh, Yataro Daigo, Atsushi Takahashi, Koichi Goto, Hiromi Sakamoto, Sumiko Ohnami, Yoko Shimada, Kyota Ashikawa, Akira Saito, Shunichi Watanabe, Koji Tsuta, Naoyuki Kamatani, Teruhiko Yoshida, Yusuke Nakamura, Jun Yokota, Michiaki Kubo, Takashi Kohno. A genome-wide association study identifies two new susceptibility loci for lung adenocarcinoma in the Japanese population. [abstract]. In: Proceedings of the AACR Special Conference on Post-GWAS Horizons in Molecular Epidemiology: Digging Deeper into the Environment; 2012 Nov 11-14; Hollywood, FL. Philadelphia (PA): AACR; Cancer Epidemiol Biomarkers Prev 2012;21(11 Suppl):Abstract nr 62.
Asymmetric collapse by dissolution or melting in a uniform flow

An advection–diffusion-limited dissolution model of an object being eroded by a two-dimensional potential flow is presented. By taking advantage of the conformal invariance of the model, a numerical method is introduced that tracks the evolution of the object boundary in terms of a time-dependent Laurent series. Simulations of a variety of dissolving objects are shown, which shrink and collapse to a single point in finite time. The simulations reveal a surprising exact relationship, whereby the collapse point is the root of a non-analytic function given in terms of the flow velocity and the Laurent series coefficients describing the initial shape. This result is subsequently derived using residue calculus. The structure of the non-analytic function is examined for three different test cases, and a practical approach to determine the collapse point using a generalized Newton–Raphson root-finding algorithm is outlined. These examples also illustrate the possibility that the model breaks down in finite time prior to complete collapse, due to a topological singularity, as the dissolving boundary overlaps itself rather than breaking up into multiple domains (analogous to droplet pinch-off in fluid mechanics). The model raises fundamental mathematical questions about broken symmetries in finite-time singularities of both continuous and stochastic dynamical systems.
Hyperinduction of Host Beta Interferon by a Listeria monocytogenes Strain Naturally Overexpressing the Multidrug Efflux Pump MdrT

ABSTRACT Many pathogens regulate or modify their immune-stimulating ligands to avoid detection by their infected hosts. Listeria monocytogenes, a facultative intracellular bacterial pathogen, interacts with multiple components of mammalian innate immunity during its infection cycle. During replication within the cytosol of infected cells, L. monocytogenes utilizes two multidrug efflux pumps, MdrM and MdrT, to secrete the small nucleic acid second messenger cyclic-di-AMP (c-di-AMP). Host recognition of c-di-AMP triggers the production of type I interferons, including beta interferon (IFN-β), which, surprisingly, promote L. monocytogenes virulence. In this study, we have examined the capacity of multiple laboratory and clinical isolates of L. monocytogenes to stimulate host production of IFN-β. We have identified the L. monocytogenes strain LO28 as able to hyperinduce IFN-β production in infected cells ∼30-fold more than the common laboratory clone L. monocytogenes strain 10403S. Genomic analyses determined that LO28 contains a naturally occurring loss-of-function allele of the transcriptional regulator BrtA and correspondingly derepresses expression of MdrT. Surprisingly, while derepression of MdrT resulted in hyperstimulation of IFN-β, it results in significant attenuation in multiple mouse models of infection. While type I interferons may promote L. monocytogenes virulence, this study demonstrates that unregulated expression of the c-di-AMP-secreting efflux pump MdrT significantly restricts virulence in vivo by an unknown mechanism.
Women at Work

Organizations benefit from gender diversity, as research clearly documents. Nevertheless, statistics reveal consistent gender differences in career development and payment. Women who feel undervalued at work will re-evaluate their priorities and are tempted to “opt out. ” Organizations that wish to reap the benefits of gender diversity can profit from behavioral science research identifying mechanisms that may prevent women from making the same career choices as men: (a) implicit bias decreases the odds that women will enter and perform in male-dominated job levels or organizations, (b) glass cliff effects make career development less attractive for women, (c) Queen Bee effects prevent women in leadership from acting as role models for other women, and (d) some work–family approaches imply that women have to give up family life to be successful in their professional career. Being aware of these mechanisms, their implications, and possible remedies can benefit organizations and policy makers, and encourage women in different career stages to “lean in. ”
A Cretaceous-aged Palaeotropical dispersal established an endemic lineage of Caribbean praying mantises

Recent phylogenetic advances have uncovered remarkable biogeographic histories that have challenged traditional concepts of dispersal, vicariance and diversification in the Greater Antilles. Much of this focus has centred on vertebrate lineages despite the high diversity and endemism of terrestrial arthropods, which account for 2.5 times the generic endemism of all Antillean plants and non-marine vertebrates combined. In this study, we focus on three Antillean endemic praying mantis genera, Callimantis, Epaphrodita and Gonatista, to determine their phylogenetic placement and geographical origins. Each genus is enigmatic in their relation to other praying mantises due to their morphological affinities with both Neotropical and Old World groups. We recovered the three genera as a monophyletic lineage among Old World groups, which was supported by molecular and morphological evidence. With a divergence at approximately 107 Ma, the lineage originated during the break-up of Gondwana. Ancestral range reconstruction indicates the lineage dispersed from an African + Indomalayan range to the Greater Antilles, with a subsequent extinction in the Old World. The profound ecomorphic convergence with non-Caribbean groups obscured recognition of natural relationships within the same geographical distribution. To the best of our knowledge, the lineage is one of the oldest endemic animal groups in the Greater Antilles and their morphological diversity and restricted distribution mark them as a critical taxon to conserve.
The Importance of Family and Friends in Advice-Seeking for Rights Problems

Rights problems such as debt, employment, welfare benefits and family problems are widespread. They are problems of everyday life, affecting many people and many aspects of people's lives and are now well documented. In contrast, there has been little research on the role of family and friends when experiencing a problem and seeking advice. Drawing on comprehensive qualitative research, this article explores how people seeking advice for their rights problems rely on family and friends for help in the advice-seeking process. The research shows that help lies on a continuum from encouraging people to seek advice to assistance with the tasks necessary for problem resolution. The implications of this for service design are considered.
International Journal of Approximate Reasoning

One of the challenges presented by Boolean matrix factorization consists in what became known as the ability to deal with noise in data. In this paper, we critically examine existing considerations regarding noise, reported results regarding various algorithms’ ability to deal with noise, and approaches used to evaluate this ability. We argue that the current understanding is underdeveloped in several respects and, in particular, that the present way to assess the ability to handle noise in data is deﬁcient. We provide a new, quantitative way to assess this ability. Our method is based on a common-sense deﬁnition of robustness requiring that the factorizations computed from data should not be affected much by varying the noise in the data. We present an experimental evaluation of several algorithms, and compare the results to the observations available in the literature. The experiments reveal important properties of these algorithms as regards handling noise. In addition to providing methodological justiﬁcation of some properties claimed in the literature without proper justiﬁcation, they reveal properties which were not reported as well as properties which counter certain claims made in the literature. Importantly, our approach reveals a line separating robust-to-noise from sensitive-to-noise algorithms, which has not been revealed by the previous approaches. We conclude by outlining open problems to which the present considerations and experiments lead. © 2018 Elsevier Inc. All rights reserved.
The Desire to Acquire and IPO Long-Run Underperformance

Abstract We analyze 3,547 initial public offerings (IPOs) from 1985 through 2003 to determine the impact of acquisition activity on long-run stock performance. The results show that IPOs that acquire within a year of going public significantly underperform for 1- through 5-year holding periods following the 1st year, whereas nonacquiring IPOs do not significantly underperform over these time frames. For example, the mean 3-year style-adjusted abnormal return is – 15.6% for acquirers and 5.9% for nonacquirers. Our cross-sectional and calendar-time results suggest that the acquisition activity of newly public firms plays an important and previously unrecognized role in the long-run underperformance of IPOs.
Cisplatin versus Cetuximab Given Concurrently with Definitive Radiation Therapy for Locally Advanced Head and Neck Squamous Cell Carcinoma

Objective: Whether or not cisplatin and cetuximab are similarly effective in improving outcomes when added to radiation therapy (RT) in squamous cell carcinoma of the head and neck is unknown. Methods: Retrospective analysis was performed of patients treated with definitive RT and cisplatin (n = 18) or cetuximab (n = 29). Results: T and N classifications, stage, human papillomavirus status and smoking history were balanced in the two groups; however, patients in the cisplatin group were younger and had a better performance status. Delivery of RT was similar between the two groups. Median follow-up was 23 (4-64) months. Disease-specific survival (DSS) at 3 years was 83% in the cisplatin group and 31% in the cetuximab group. Recurrent disease was more common in the cetuximab group compared with the cisplatin group (17 vs. 4 patients). Propensity score analysis to adjust for differences in patient characteristics which influenced treatment selection showed that DSS was indeed longer with cisplatin than with cetuximab (DSS hazard ratio 0.15, confidence interval 0.033, 0.66; p = 0.012). Conclusions: DSS was superior in the patients given cisplatin with definitive RT compared to cetuximab with definitive RT due to a lower risk of recurrent disease in the cisplatin group. These observations could not be explained by differences between the two groups in the patient and tumor characteristics or in treatment delivery.
Flexible Inflation Targets, Forex Interventions and Exchange Rate Volatility in Emerging Countries

Emerging economies with inflation targets (IT) face a dilemma between fulfilling the theoretical conditions of “strict IT”, which imply a fully flexible exchange rate, or applying a “flexible IT”, which entails a de facto managed-floating exchange rate with foreign exchange (forex) interventions to moderate exchange rate volatility. Using a panel data model for 37 countries we find that, although IT lead to higher exchange rate instability than alternative regimes, forex interventions in some IT countries have been more effective to lower volatility than in non-IT countries, which may justify the use of “flexible IT” by policymakers.
A unified framework of plant adaptive strategies to drought: Crossing scales and disciplines

Plant adaptation to drought has been extensively studied at many scales from ecology to molecular biology across a large range of model species. However, the conceptual frameworks underpinning the definition of plant strategies, and the terminology used across the different disciplines and scales are not analogous. ‘Drought resistance’ for instance refers to plant responses as different as the maintenance of growth and productivity in crops, to the survival and recovery in perennial woody or grassland species. Therefore, this paper aims to propose a unified conceptual framework of plant adaptive strategies to drought based on a revised terminology in order to enhance comparative studies. Ecological strategies encapsulate plant adaptation to multidimensional variation in resource variability but cannot account for the dynamic and short‐term responses to fluctuations in water availability. Conversely, several plant physiological strategies have been identified along the mono‐dimensional gradient of water availability in a given environment. According to a revised terminology, dehydration escape, dehydration avoidance, dehydration tolerance, dormancy, and desiccation tolerance are clearly distinguishable. Their sequential expression is expressed as water deficit increases while cavitation tolerance is proposed here to be a major hydraulic strategy underpinning adaptive responses to drought of vascular plants. This continuum of physiological strategies can be interpreted in the context of the ecological trade‐off between water‐acquisition vs. water‐conservation, since growth maintenance is associated with fast water use under moderate drought while plant survival after growth cessation is associated with slow water use under severe drought. Consequently, the distinction between ‘drought resistance’ and ‘drought survival’, is emphasized as crucial to ensure a correct interpretation of plant strategies since ‘knowing when not to grow’ does not confer ‘drought resistance’ but may well enhance ‘drought survival’. This framework proposal should improve cross‐fertilization between disciplines to help tackle the increasing worldwide challenges that drought poses to plant adaptation.
Correlation between pulmonary functions and respiratory muscle activity in patients with forward head posture

[Purpose] The purpose of this study is to determine the effect that secondary postural deformities and chronic postural abnormalities have on lung capacity, as well as correlate the activity of the respiratory muscles. The results provide basic objective data about the forward head posture and respiratory muscle activity that can be used in clinical situations. [Subjects and Methods] The subjects used in this study were 24 patients aged 25 to 35 years old who visited a hospital in Jeollanam-do Province, Korea, between September 2015 and January 2016. The patients were diagnosed with forward head posture because the vertical line between the acromion process and the external acoustic meatus was at least 5 cm. We measured the craniovertebral angle, pulmonary functions, and respiratory muscle activity of the subjects for correlation analysis. [Results] A positive correlation was found between the craniovertebral angle and the forced vital capacity (r=0.63), while a negative correlation was found between the craniovertebral angle and the sternocleidomastoid muscle (r=–0.77). The craniovertebral angle and the anterior scalene muscle showed a negative correlation (r=–0.65). There were positive correlations between the forced vital capacity and the sternocleidomastoid muscle (r=0.71), and between the forced vital capacity and the anterior scalene muscle (r=0.59). [Conclusion] Severe forward head posture increased the activities of the sternocleidomastoid muscles and the anterior scalene muscles, and decreased the forced vital capacity. Thus, it is necessary to develop more efficient interventions for managing forward head posture based on pulmonary function and the activity of the respiratory synergist muscles.
Earnings Management to Avoid Earnings Declines across Publicly and Privately Held Banks

This study compares samples of publicly and privately held bank holding companies to examine whether the high frequency of small earnings increases relative to small earnings decreases reported by public firms is attributable to earnings management. We expect public banks' shareholders to be more likely than private banks' shareholders to rely on simple earnings‐based heuristics in evaluating firm performance, so we expect public banks to have more incentives to report steadily increasing earnings. Consistent with this expectation, we find that relative to private banks, public banks: (1) report fewer small earnings declines, (2) are more likely to use the loan loss provision and security gain realizations to eliminate small earnings decreases, and (3) report longer strings of consecutive earnings increases. These results suggest that the asymmetric pattern of more small earnings increases than decreases, first documented by Burgstahler and Dichev (1997), is attributable to earnings management and is not .
The Assessment: Financing and Managing Public Services

Public services can be, and are, delivered according to a variety of different arrangements. The public sector can finance and provide a service itself, or contract with the private sector to participate in provision, or its role may be limited to regulating a private provider. In this paper we examine the features determining the effectiveness of public-service delivery, including incentives for employees and teams within organizations providing public services, the structure of the organization and the competitive framework that it faces, and the role of the private sector. We assess the reform programme in the UK, which has involved substantial reorganization of public services and increasing involvement of the private sector. Reforms focus on the improvement of incentives; but while incentives are critical, the special characteristics of public services (and the people who provide them) must be recognized in the implementation of new structures and incentive schemes.