Miracle-dz/UniFAR-FTUs huggingface dataset:
Separase Phosphosite Mutation Leads to Genome Instability and Primordial Germ Cell Depletion during Oogenesis

To ensure equal chromosome segregation and the stability of the genome during cell division, Separase is strictly regulated primarily by Securin binding and inhibitory phosphorylation. By generating a mouse model that contained a mutation to the inhibitory phosphosite of Separase, we demonstrated that mice of both sexes are infertile. We showed that Separase deregulation leads to chromosome mis-segregation, genome instability, and eventually apoptosis of primordial germ cells (PGCs) during embryonic oogenesis. Although the PGCs of mutant male mice were completely depleted, a population of PGCs from mutant females survived Separase deregulation. The surviving PGCs completed oogenesis but produced deficient initial follicles. These results indicate a sexual dimorphism effect on PGCs from Separase deregulation, which may be correlated with a gender-specific discrepancy of Securin. Our results reveal that Separase phospho-regulation is critical for genome stability in oogenesis. Furthermore, we provided the first evidence of a pre-zygotic mitotic chromosome segregation error resulting from Separase deregulation, whose sex-specific differences may be a reason for the sexual dimorphism of aneuploidy in gametogenesis.
Are 'unbiased' forecasts really unbiased? Another look at the Fed forecasts

This paper reconciles contradictory findings obtained from forecast evaluations: the existence of systematic errors and the failure to reject rationality in the presence of such errors. Systematic errors in one economic state may offset the opposite types of errors in the other state such that the null of rationality is not rejected. A modified test applied to the Fed forecasts shows that the forecasts were ex post biased.
Quantifying inbreeding avoidance through extra-pair reproduction

Extra‐pair reproduction is widely hypothesized to allow females to avoid inbreeding with related socially paired males. Consequently, numerous field studies have tested the key predictions that extra‐pair offspring are less inbred than females’ alternative within‐pair offspring, and that the probability of extra‐pair reproduction increases with a female's relatedness to her socially paired male. However, such studies rarely measure inbreeding or relatedness sufficiently precisely to detect subtle effects, or consider biases stemming from failure to observe inbred offspring that die during early development. Analyses of multigenerational song sparrow (Melospiza melodia) pedigree data showed that most females had opportunity to increase or decrease the coefficient of inbreeding of their offspring through extra‐pair reproduction with neighboring males. In practice, observed extra‐pair offspring had lower inbreeding coefficients than females’ within‐pair offspring on average, while the probability of extra‐pair reproduction increased substantially with the coefficient of kinship between a female and her socially paired male. However, simulations showed that such effects could simply reflect bias stemming from inbreeding depression in early offspring survival. The null hypothesis that extra‐pair reproduction is random with respect to kinship therefore cannot be definitively rejected in song sparrows, and existing general evidence that females avoid inbreeding through extra‐pair reproduction requires reevaluation given such biases.
Young women and limits to the normalisation of condom use: a qualitative study

Abstract Encouraging condom use among young women is a major focus of HIV/STI prevention efforts but the degree to which they see themselves as being at risk limits their use of the method. In this paper, we examine the extent to which condom use has become normalised among young women. In-depth interviews were conducted with 20 year old women from eastern Scotland (N=20). Purposive sampling was used to select a heterogeneous group with different levels of sexual experience and from different social backgrounds. All of the interviewees had used (male) condoms but only three reported consistent use. The rest had changed to other methods, most often the pill, though they typically went back to using condoms occasionally. Condoms were talked about as the most readily available contraceptive method, and were most often the first contraceptive method used. The young women had ingrained expectations of use, but for most, these norms centred only on their new or casual partners, with whom not using condoms was thought to be irresponsible. Many reported negative experiences with condoms, and condom dislike and failure were common, lessening trust in the method. Although the sexually transmitted infection (STI) prevention provided by condoms was important, this was seen as additional, and secondary, to pregnancy prevention. As the perceived risks of STIs lessened in relationships with boyfriends, so did condom use. The promotion of condoms for STI prevention alone fails to consider the wider influences of partners and young women's negative experiences of the method. Focusing on the development of condom negotiation skills alone will not address these issues. Interventions to counter dislike, method failure, and the limits of the normalisation of condom use should be included in STI prevention efforts.
Robust client-based Wi-Fi topology discovery

The low cost and ease of installation of Wi-Fi equipment operating in unlicensed spectrum have made dense Wi-Fi deployments a reality in most modern urban areas. With the lack of many non-overlapping frequencies to operate on, interference among neighbor Wi-Fi cells can cause significant performance degradation. Here we study the problem of topology discovery in such dense deployments, which is necessary in order to combat interference. To this end, we apply a client-driven scheme, where client devices sense the spectrum and report overlapping cells. However, reporting entities cannot always be assumed trustworthy. We therefore study cases where reporters attack the discovery process by submitting fake information and propose simple countermeasures to tackle some attacker strategies. We show analytically and via simulations that, in realistic urban scenarios, our mechanisms are effective, even in the presence of a large number of attackers.
Factors associated with retention in Option B+ in Malawi: a case control study

Introduction: There are limited data on factors associated with retention in Option B+. We sought to explore the characteristics of women retained in Option B+ in Malawi, with a focus on the role of HIV disclosure, awareness of partner HIV status, and knowledge around the importance of Option B+ for maternal–child health.
The Katzman Automatic Imaging Telescope Gamma‐Ray Burst Alert System, and Observations of GRB 020813

We present the technical details of the gamma‐ray burst (GRB) alert system of the Katzman Automatic Imaging Telescope (KAIT) at Lick Observatory and the successful observations of the GRB 020813 optical afterglow with this system. KAIT responds to GRB alerts robotically, interrupts its prearranged program, and takes a sequence of images for each GRB alert. A grid‐imaging procedure is used to increase the efficiency of the early‐time observations. Different sequences of images have been developed for different types of GRB alerts. With relatively fast telescope slew and CCD readout speed, KAIT can typically complete the first observation within 60 s after receiving a GRB alert, reaching a limiting magnitude of ∼19. Our reduction of the GRB 020813 data taken with KAIT shows that unfiltered magnitudes can be reliably transformed to a standard passband with a precision of ∼5%, given that the color of the object is known. The GRB 020813 optical afterglow has an exceptionally slow early‐time power‐law decay index, although other light‐curve parameters and the optical spectral index are fairly typical of GRBs.
Proteomic profiling of lysine acetylation in Pseudomonas aeruginosa reveals the diversity of acetylated proteins

Protein lysine acetylation is a reversible and highly regulated post‐translational modification with the well demonstrated physiological relevance in eukaryotes. Recently, its important role in the regulation of metabolic processes in bacteria was highlighted. Here, we reported the lysine acetylproteome of Pseudomonas aeruginosa using a proteomic approach. We identified 430 unique peptides corresponding to 320 acetylated proteins. In addition to the proteins involved in various metabolic pathways, several enzymes contributing to the lipopolysaccharides biosynthesis were characterized as acetylated. This data set illustrated the abundance and the diversity of acetylated lysine proteins in P. aeruginosa and opens opportunities to explore the role of the acetylation in the bacterial physiology.
Matroid Inequalities from Electrical Network Theory

In 1981, Stanley applied the Aleksandrov–Fenchel Inequalities to prove a logarithmic concavity theorem for regular matroids. Using ideas from electrical network theory we prove a generalization of this for the wider class of matroids with the "half–plane property". Then we explore a nest of inequalities for weighted basis–generating polynomials that are related to these ideas. As a first result from this investigation we find that every matroid of rank three or corank three satisfies a condition only slightly weaker than the conclusion of Stanley's theorem.
Frequency discrimination as a function of frequency, measured in several ways.

Frequency discrimination was measured for a wide range of center frequencies (0.25-8 kHz) using three different tasks. In the first (difference limens for frequency, DLFs) subjects were required to indicate which of two successive tone pulses was higher in frequency. In the second (difference limens for change, DLCs), two successive pairs of tone pulses were presented; one pair had the same frequency and the other pair differed in frequency. Subjects were required to indicate which pair differed in frequency. In the third (frequency-modulation difference limens, FMDLs), subjects were required to indicate which of two successive tone pulses was frequency modulated. Modulation rates were 2, 5, or 10 Hz. For frequencies up to 2 kHz, DLFs and DLCs were small (less than 0.6% of the center frequency) and were similar to one another. For frequencies of 4 kHz and above, both DLFs and DLCs increased markedly, but the increase was greater for DLFs. Thus the worsening of performance at high frequencies is greater when subjects are required to indicate the direction of a frequency change than when they just have to detect any change. FMDLs, when expressed relative to the carrier frequency, varied much less with frequency than DLFs or DLCs. At 2 kHz and below, FMDLs were larger than DLFs or DLCs. Above 4 kHz, FMDLs were smaller than DLFs or DLCs. At 2 kHz and below, FMDLs usually worsened with increasing modulation frequency. Above 4 kHz, FMDLs improved with increasing modulation frequency. (ABSTRACT TRUNCATED AT 250 WORDS)
Effects of Shear Deformation and Restrained Warping on the Displacements of Composite Beams

This paper compares the results of different beam theories with finite element calculations and determines simple rules which designers may apply to insure simplified theories give acceptable results. Specifically, we analyze the effect of shear deformation and restrained warping. For thin-walled beams with layups that may be symmetrical or unsymmetrical, orthotropic or unorthotropic, simple expressions are developed to determine the effect of shear deformation. We also demonstrate that the effect of restrained warping in balanced, anisotropic open-section beams may be determined using the warping stiffness derived for orthotropic beams.
Murine Myocardial Transcriptome Analysis Reveals a Critical Role of COPS8 in the Gene Expression of Cullin-RING Ligase Substrate Receptors and Redox and Vesicle Trafficking Pathways

Background: The COP9 signalosome (CSN) consisting of 8 unique protein subunits (COPS1 through COPS8) serves as the cullin deneddylase, regulating the catalytic dynamics of cullin RING ligases (CRLs), the largest family of ubiquitin ligases Background: The COP9 signalosome (CSN) consisting of 8 unique protein subunits (COPS1 through COPS8) serves as the cullin deneddylase, regulating the catalytic dynamics of cullin RING ligases (CRLs), the largest family of ubiquitin ligases. Supported primarily by the decrease of substrate receptor (SR) proteins of CRLs in cells deficient of a CSN subunit, CSN-mediated cullin deneddylation is believed to prevent autoubiquitination and self-destruction of the SR in active CRLs. However, it is unclear whether the decrease in SRs is solely due to protein destabilization. Moreover, our prior studies have demonstrated that cardiac specific knockout of Cops8 (Cops8-CKO) impairs autophagosome maturation and causes massive necrosis in cardiomyocytes but the underlying mechanism remains poorly understood. Given that Cops8 is nucleus-enriched and a prior report showed its binding to the promoter of several genes and association of its ablation with decreased mRNA levels of these genes, we sought to determine the dynamic changes of myocardial transcriptome in mice with perinatal Cops8-CKO and to explore their functional implications. Methods and Results: Myocardial transcriptomes of Cops8flox/flox, Cops8flox/+::Myh6-Cre, and Cops8flox/flox::Myh6-Cre littermate mice at postnatal 2 and 3 weeks were analyzed. The data were imported into an in-house analysis pipeline using Bioconductor for quantile normalization and statistical analysis. Differentially expressed genes (DEGs) between groups at each time point or between time points within the group were revealed by t-test. Genes with p < 0.05 after Benjamini and Hochberg false discovery rate correction for multiple hypothesis testing were considered as significant DEGs. We found that (1) the Ingenuity Pathway Analysis (IPA) revealed significant enrichment of DEGs in multiple pathways, especially those responding to oxidative stress, in homozygous Cops8-CKO hearts at both 2 and 3 weeks, corroborating the occurrence of massive cardiomyocyte necrosis at 3 weeks; (2) the decreases in multiple CRL SR proteins were associated with decreased transcript levels; and (3) enrichment of DEGs in the chromatin remodeling pathway and the microtubule motility and vesicle trafficking pathways. Conclusions: Our data are consistent with the notion that Cops8/CSN plays a role in the transcriptional regulation of CRL SRs and in the redox and vesicle trafficking pathways.
Surveillance for Vancomycin-Resistant Enterococci: Type, Rates, Costs, and Implications

Objective. To evaluate 2 active surveillance strategies for detection of enteric vancomycin-resistant enterococci (VRE) in an intensive care unit (ICU). Design. Thirty-month prospective observational study. Setting. ICU at a university-affiliated referral center. Patients. All patients with an ICU stay of 24 hours or more were eligible for the study. Intervention. Clinical active surveillance (CAS), involving culture of a rectal swab specimen for detection of VRE, was performed on admission, weekly while the patient was in the ICU, and at discharge. Laboratory-based active surveillance (LAS), involving culture of a stool specimen for detection of VRE, was performed on stool samples submitted for Clostridium difficile toxin detection. Results. Enteric colonization with VRE was detected in 309 (17%) of 1,872 patients. The CAS method initially detected 280 (91%) of the 309 patients colonized with VRE, compared with 25 patients (8%) detected by LAS; colonization in 4 patients (1%) was initially detected by analysis of other clinical specimens. Most patients with colonization (76%) would have gone undetected by LAS alone, whereas use of the CAS method exclusively would have missed only 3 patients (1%) who were colonized. CAS cost $1,913 per month, or $57,395 for the 30-month study period. Cost savings of CAS from preventing cases of VRE colonization and bacteremia were estimated to range from $56,258 to $303,334 per month. Conclusions. A patient-based CAS strategy for detection of enteric colonization with VRE was superior to LAS. In this high-risk setting, CAS appeared to be the most efficient and cost-effective surveillance method. The modest costs of CAS were offset by the averted costs associated with the prevention of VRE colonization and bacteremia.
Words in the bilingual brain: an fNIRS brain imaging investigation of lexical processing in sign-speech bimodal bilinguals

Early bilingual exposure, especially exposure to two languages in different modalities such as speech and sign, can profoundly affect an individual's language, culture, and cognition. Here we explore the hypothesis that bimodal dual language exposure can also affect the brain's organization for language. These changes occur across brain regions universally important for language and parietal regions especially critical for sign language (Newman et al., 2002). We investigated three groups of participants (N = 29) that completed a word repetition task in American Sign Language (ASL) during fNIRS brain imaging. Those groups were (1) hearing ASL-English bimodal bilinguals (n = 5), (2) deaf ASL signers (n = 7), and (3) English monolinguals naïve to sign language (n = 17). The key finding of the present study is that bimodal bilinguals showed reduced activation in left parietal regions relative to deaf ASL signers when asked to use only ASL. In contrast, this group of bimodal signers showed greater activation in left temporo-parietal regions relative to English monolinguals when asked to switch between their two languages (Kovelman et al., 2009). Converging evidence now suggest that bimodal bilingual experience changes the brain bases of language, including the left temporo-parietal regions known to be critical for sign language processing (Emmorey et al., 2007). The results provide insight into the resilience and constraints of neural plasticity for language and bilingualism.
Ovarian Cancer Stem Cells Are Enriched in Side Population and Aldehyde Dehydrogenase Bright Overlapping Population

Cancer stem-like cells (CSCs)/cancer-initiaiting cells (CICs) are defined as a small population of cancer cells that have self-renewal capacity, differentiation potential and high tumor-initiating ability. CSCs/CICs of ovarian cancer have been isolated by side population (SP) analysis, ALDEFLUOR assay and using cell surface markers. However, these approaches are not definitive markers for CSCs/CICs, and it is necessary to refine recent methods for identifying more highly purified CSCs/CICs. In this study, we analyzed SP cells and aldehyde dehydrogenese bright (ALDHBr) cells from ovarian cancer cells. Both SP cells and ALDHBr cells exhibited higher tumor-initiating ability and higher expression level of a stem cell marker, sex determining region Y-box 2 (SOX2), than those of main population (MP) cells and ALDHLow cells, respectively. We analyzed an SP and ALDHBr overlapping population (SP/ALDHBr), and the SP/ALDHBr population exhibited higher tumor-initiating ability than that of SP cells or ALDHBr cells, enabling initiation of tumor with as few as 102 cells. Furthermore, SP/ADLHBr population showed higher sphere-forming ability, cisplatin resistance, adipocyte differentiation ability and expression of SOX2 than those of SP/ALDHLow, MP/ALDHBr and MP/ALDHLow cells. Gene knockdown of SOX2 suppressed the tumor-initiation of ovarian cancer cells. An SP/ALDHBr population was detected in several gynecological cancer cells with ratios of 0.1% for HEC—1 endometrioid adenocarcinoma cells to 1% for MCAS ovary mucinous adenocarcinoma cells. Taken together, use of the SP and ALDHBr overlapping population is a promising approach to isolate highly purified CSCs/CICs and SOX2 might be a novel functional marker for ovarian CSCs/CICs.
Crack profiles and corner point singularities

Crack profiles in the vicinity of a crack tip were investigated both theoretically by using standard displacement field equations, and by experiments using foam plastic models. Particular attention was paid to crack profiles in the vicinity of a corner point where a crack front intersects a free surface. Crack profiles for single-mode and mixed-mode cracks, calculated from standard displacement field equations, are incorrect in the vicinity of a corner point. The use of foam plastic models permits the visualization of crack profiles in the vicinity of a corner point. Strictly speaking, stress intensity factors have no meaning in the vicinity of a corner point, but for practical purposes it is possible to calculate representative values. Failure to take into account warping of an initially plane-free surface, at a corner point, has led to some confusion in the finite element calculation of representative K III values.
Does modification of the Innsbruck and the Glasgow Coma Scales improve their ability to predict functional outcome?

BACKGROUND The accurate prediction of functional outcome requires the development of multivariate models. To enhance their contribution to such models, the predictive power of each component must be optimized. OBJECTIVES To improve the predictive power of coma scales as the first step in building more sophisticated multivariate models to predict specific levels of functional outcome. DESIGN Prospective descriptive study. SETTING Neurology and neurosurgery intensive care unit (NNICU) in a tertiary care academic center. PATIENTS Eighty-four patients with acute traumatic brain injury, intracerebral hemorrhage, subarachnoid hemorrhage, or ischemic stroke. INTERVENTIONS None. MAIN OUTCOME MEASURES The Glasgow Coma Scale (GCS) and Innsbruck Coma Scale (ICS) were administered within 24 hours of admission to the NNICU and then at 48-hour intervals until discharge of the patient from the NNICU. The assessments were performed by 3 occupational therapy graduate students working under the supervision of the medical director of the NNICU. The functional outcome at 3 months after discharge from the hospital was assessed by telephone by the same nurse using the following categories: (1) dead, (2) receiving nursing home or custodial care, (3) home with help, or (4) independent. Cronbach's alpha estimates of reliability for each scale were computed using all scores obtained during the study. The analyses indicated that the verbal response item of the GCS and the oral automatisms item of the ICS were less reliable in this patient population. The scales were modified by deleting those items, and predictive validity for the original and modified scales was computed using a discriminant function of the admission scores. RESULTS Before modification, both scales were best at predicting independence (GCS and ICS, 71% correct) and mortality (GCS, 60% correct; ICS, 56% correct). The modifications produced a modest improvement in the ability of both scales to better predict levels of outcome (modified GCS: home with help, 33% correct, independent, 71% correct; modified ICS: home with help, 0% correct, independent, 74% correct). CONCLUSIONS By deleting items with low reliability from the ICS and the GCS we achieved improved reliability and predictive validity. The improvement in predictive power, however, was inadequate to accurately predict functional outcome. Combining clinical scales with other demographic, physiological, functional, and radiographic data will be needed to achieve useful predictions of functional outcome.