Miracle-dz/UniFAR-FTUs huggingface dataset:
Sequence Analysis of Insecticide Action and Detoxification-Related Genes in the Insect Pest Natural Enemy Pardosa pseudoannulata

The pond wolf spider Pardosa pseudoannulata, an important natural predatory enemy of rice planthoppers, is found widely distributed in paddy fields. However, data on the genes involved in insecticide action, detoxification, and response are very limited for P. pseudoannulata, which inhibits the development and appropriate use of selective insecticides to control insect pests on rice. We used transcriptome construction from adult spider cephalothoraxes to analyze and manually identify genes enconding metabolic enzymes and target receptors related to insecticide action and detoxification, including 90 cytochrome P450s, 14 glutathione S-transferases (GSTs), 17 acetylcholinesterases (AChEs), 17 nicotinic acetylcholine receptors (nAChRs), and 17 gamma-aminobutyric acid (GABA) receptors, as well as 12 glutamate-gated chloride channel (GluCl) unigenes. Sequence alignment and phylogenetic analysis revealed the different subclassifications of P450s and GSTs, some important sequence diversities in nAChRs and GABA receptors, polymorphism in AChEs, and high similarities in GluCls. For P450s in P. pseudoannulata, the number of unigenes belonging to the CYP2 clade was much higher than that in CYP3 and CYP4 clades. The results differed from insects in which most P450 genes were in CYP3 and CYP4 clades. For GSTs, most unigenes belonged to the delta and sigma classes, and no epsilon GST class gene was found, which differed from the findings for insects and acarina. Our results will be useful for studies on insecticide action, selectivity, and detoxification in the spider and other related animals, and the sequence differences in target genes between the spider and insects will provide important information for the design of selective insecticides.
Selected pregnancy and delivery outcomes after exposure to antidepressant medication: a systematic review and meta-analysis.

IMPORTANCE Untreated depression during pregnancy has been associated with increased morbidity and mortality for both mother and child and, as such, optimal treatment strategies are required for this population. CONTEXT There are conflicting data regarding potential risks of prenatal antidepressant treatment. OBJECTIVE To determine whether prenatal antidepressant exposure is associated with risk for selected adverse pregnancy or delivery outcomes. DATA SOURCES MEDLINE, EMBASE, Cumulative Index to Nursing and Allied Health Literature, PsycINFO, and the Cochrane Library were searched from their start dates to June 30, 2010. STUDY SELECTION English-language studies reporting outcomes associated with pharmacologic treatment during pregnancy were included. We reviewed 3074 abstracts, retrieved 735 articles, and included 23 studies in this meta-analysis. DATA EXTRACTION Study design, antidepressant exposure, adjustment for confounders, and study quality were extracted by 2 independent reviewers. RESULTS There was no significant association between antidepressant medication exposure and spontaneous abortion (odds ratio [OR], 1.47; 95% CI, 0.99 to 2.17; P = .055). Gestational age and preterm delivery were statistically significantly associated with antidepressant exposure (mean difference [MD] [weeks], -0.45; 95% CI, -0.64 to -0.25; P < .001; and OR, 1.55; 95% CI, 1.38 to 1.74; P < .001, respectively), regardless of whether the comparison group consisted of all unexposed mothers or only depressed mothers without antidepressant exposure. Antidepressant exposure during pregnancy was significantly associated with lower birth weight (MD [grams], -74; 95% CI, -117 to -31; P = .001); when this comparison group was limited to depressed mothers without antidepressant exposure, there was no longer a significant association. Antidepressant exposure was significantly associated with lower Apgar scores at 1 and 5 minutes, regardless of whether the comparison group was all mothers or only those who were depressed during pregnancy but not exposed to antidepressants. CONCLUSIONS AND RELEVANCE Although statistically significant associations between antidepressant exposure and pregnancy and delivery outcomes were identified, group differences were small and scores in the exposed group were typically within the normal ranges, indicating the importance of considering clinical significance. Treatment decisions must weigh the effect of untreated maternal depression against the potential adverse effects of antidepressant exposure.
Congestion Games with Distance-Based Strict Uncertainty

We put forward a new model of congestion games where agents have uncertainty over the routes used by other agents. We take a non-probabilistic approach, assuming that each agent knows that the number of agents using an edge is within a certain range. Given this uncertainty, we model agents who either minimize their worst-case cost (WCC) or their worst-case regret (WCR), and study implications on equilibrium existence, convergence through adaptive play, and efficiency. Under the WCC behavior the game reduces to a modified congestion game, and welfare improves when agents have moderate uncertainty. Under WCR behavior the game is not, in general, a congestion game, but we show convergence and efficiency bounds for a simple class of games.
Compression after impact behavior of titanium honeycomb sandwich structures

Titanium honeycomb sandwich structures are gradually used in several newly developed aircrafts in China. During the manufacturing process and aircraft service life, low-velocity impacts from foreign objects (typically stones, tools and hails, etc.), would quite likely happen and could not be completely avoided. In order to evaluate the influence of low-velocity impact damage on titanium honeycomb sandwich structures, unidirectional in-plane compression tests on both intact and impact damaged sandwich panels were conducted to obtain their failure modes and compressive failure strength. Test results showed that the low-velocity impact damage could cause the change in failure modes and a 9% to 15% decrease in the compressive failure strength. Different impact energy levels showed a limited influence on the compressive failure strength. Numerical analysis was conducted to study the compression after impact behavior of titanium sandwich panels. Parametric finite element models that contained all the geometric and the structural details of honeycomb core cells, as well as the indentation and the crushed core region, were developed in the analysis. The numerical results successfully exhibited the failure process of the intact and impact damaged titanium sandwich panels subjected to unidirectional in-plane compression, similar to what observed in the tests. The predicted compressive failure strength also agreed very well with the test data.
On canonical bases and internality criteria

A criterion is given for a strong type in a finite rank stable theory T to be (almost) internal to a given nonmodular minimal type. The motivation comes from results of Campana [5] which give criteria for a compact complex analytic space to be “algebraic” (namely Moishezon). The canonical base property for a stable theory states that the type of the canonical base of a stationary type over a realisation is almost internal to the minimal types of the theory. It is conjectured that every finite rank stable theory has the canonical base property. It is shown here, that in a theory with the canonical base property, if p is a stationary type for which there exists a family of types qb, each internal to a non-locally modular minimal type r, and such that any pair of independent realisations of p are “connected” by the qb’s, then p is almost internal to r.
Cerebral Vasculitis: A Practical Approach

INTRODUCTION The range and breadth of diseases of the nervous system caused by immunological or inflammatory disturbances is enormous (Table 1). ‘Primary’ or idiopathic neuroimmune disorders may affect any part of the neuraxis and they are, of course, very familiar to neurologists. ‘Secondary’ disorders, where the neurological disturbance reflects involvement of the nervous system in a systemic inflammatory disease, are often no less common than idiopathic neuroimmune disorders, but most neurologists are rather less familiar and possibly less comfortable in dealing with them. Here we confine ourselves to the vasculitic disorders, and concentrate only on cerebral disease. The vasculitides are a heterogeneous group of diseases characterised by blood vessel inflammation, with different but frequently overlapping clinical and pathological manifestations (Watts et al. 1997). The classical histopathological change is modified in characteristic ways in specific syndromes (see below), but essentially consists of an inflammatory infiltrate within the vessel wall associated with
Dealing with noise in defect prediction

Many software defect prediction models have been built using historical defect data obtained by mining software repositories (MSR). Recent studies have discovered that data so collected contain noises because current defect collection practices are based on optional bug fix keywords or bug report links in change logs. Automatically collected defect data based on the change logs could include noises. This paper proposes approaches to deal with the noise in defect data. First, we measure the impact of noise on defect prediction models and provide guidelines for acceptable noise level. We measure noise resistant ability of two well-known defect prediction algorithms and find that in general, for large defect datasets, adding FP (false positive) or FN (false negative) noises alone does not lead to substantial performance differences. However, the prediction performance decreases significantly when the dataset contains 20%-35% of both FP and FN noises. Second, we propose a noise detection and elimination algorithm to address this problem. Our empirical study shows that our algorithm can identify noisy instances with reasonable accuracy. In addition, after eliminating the noises using our algorithm, defect prediction accuracy is improved.
Monoclonal immunoglobulin deposition disease associated with membranous features.

BACKGROUND Very few cases of non-organized and non-Randall-type monoclonal immunoglobulin deposition disease (MIDD) associated with membranous features have been reported. Information on clinicopathological features and prognosis in this entity is limited. METHODS We reviewed 5443 renal biopsies processed at our department, and identified three patients with MIDD associated with membranous features. We evaluated clinicopathological features and outcomes in these patients. RESULTS All patients had proteinuria, and one patient developed nephrotic syndrome. Renal insufficiency was not observed. Cryoglobulin or monoclonal protein in serum and urine was not detected. A renal biopsy showed thickening of the glomerular capillary walls and spike formation. Tubulointerstitial and vascular alterations were mild or absent. Immunofluorescence studies revealed granular IgG3-kappa deposits in two patients and IgG1-kappa deposits in one patient, along the glomerular capillary walls. Immunofluorescence studies using antibodies specific for gamma-heavy chain Fab containing C(H)1 domain, C(H)2 domain and C(H)3 domain did not show any apparent deletion. On confocal microscopy, glomerular colocalization of light and heavy chains was observed. Electron microscopy showed predominant subepithelial granular deposits without distinct ultrastructural organization. All patients were treated with steroids, and good effects were observed. A follow-up renal biopsy performed in one patient showed histological improvements. No patient developed myeloma or other haematological malignancy during the course of follow-up (mean 44 months). CONCLUSIONS MIDD associated with membranous features is an extremely rare but distinctive entity. Our study suggests glomerular deposition of a nondeleted whole immunoglobulin molecule. Patients with this entity appear to respond well to steroid therapy.
Syntactic mixing across generations in an environment of community-wide bilingualism

A quantitative analysis of a trans-generational, conversational corpus of Chintang (Tibeto-Burman) speakers with community-wide bilingualism in Nepali (Indo-European) reveals that children show more code-switching into Nepali than older speakers. This confirms earlier proposals in the literature that code-switching in bilingual children decreases when they gain proficiency in their dominant language, especially in vocabulary. Contradicting expectations from other studies, our corpus data also reveal that for adults, multi-word insertions of Nepali into Chintang are just as likely to undergo full syntactic integration as single-word insertions. Speakers of younger generations show less syntactic integration. We propose that this reflects a change between generations, from strongly asymmetrical, Chintang-dominated bilingualism in older generations to more balanced bilingualism where Chintang and Nepali operate as clearly separate systems in younger generations. This change is likely to have been triggered by the increase of Nepali presence over the past few decades.
Robust and Adaptive Passification Based Consensus Control of Dynamical Networks

An output synchronization problem for networks of dynamical agents is examined based on passification method and recent results in graph theory. Static delayed output feedback controllers of two types are investigated and an adaptive control is proposed. Sufficient conditions for synchronization under incomplete measurements and incomplete control are established. Example of the adaptive synchronization in a network of seven double integrators is presented.
State rate setting: an analysis of some unresolved issues.

Prologue: The state rate-setting model remains a subject of endless fascination to the health policy world. For its advocates, generally people who believe in a strong, centralized role for government in health care, state rate setting is a solution to the cost spiral, providing support to large, urban teaching hospitals that care for many poor people, and equalizing reimbursement between different third-party payers. Detractors of the model have eschewed it because of concern that centralized decisionmaking is incompatible with the local and individual nature of medical care, because regulation stifles innovation, and because price competition suffers under rate-setting structures, Michael Morrisey is a senior economist at the American Hospital Associations Hospital Research and Educational Trust, Frank Sloan is a professor of economics at Vanderbilt University and director of the Health Policy Center there, Samuel Mitchell is director of research at the Federation of American Hospitals, The authors sugg.
What Factors are Associated with Electronic Cigarette, Shisha-Tobacco and Conventional Cigarette Use? Findings from a Cross-Sectional Survey of Australian Adolescents?

ABSTRACT Background: Adolescents' use of electronic cigarettes and shisha-tobacco increased in several countries during the 2000s, including in the United States, United Kingdom and Canada. Few studies have examined the factors associated with exclusive e-cigarette or shisha-tobacco use and whether adolescents using these substances exclusively differ from those using traditional cigarettes. Objectives: To examine the socio-demographic and behavioural correlates of exclusive e-cigarette and exclusive shisha-tobacco use to those found for users of tobacco cigarettes and multiple nicotine products in Australian adolescents. Methods: Cross-sectional survey of smoking behaviours of a random sample of 4,576 students in the Australian state of Victoria aged 12–17 conducted between June 2014 and December 2014. Results: Overall, 14% of students had used an e-cigarette with 3% using e-cigarettes exclusively. 13% had used shisha-tobacco, with 2% using shisha-tobacco exclusively. Most students (65%) using e-cigarette and shisha-tobacco (67%) had also used tobacco cigarettes. After adjusting for demographic factors, students using e-cigarettes only were more likely to have never used cannabis or drink alcohol in the past year compared to tobacco cigarette users. Compared to tobacco cigarette users, students using only shisha-tobacco were younger, less likely to use cannabis or alcohol or have friends or parents who smoke. Conclusions: Most Australian adolescents who use alternative nicotine and tobacco-related products do so in conjunction with tobacco cigarettes. Students using e-cigarettes or shisha-tobacco exclusively were less likely to use other substances. Australian longitudinal studies are needed to determine whether this group of students are on a pathway to traditional tobacco use.
Repression of BCL-6 is required for the formation of human memory B cells in vitro

Memory B cells provide rapid protection to previously encountered antigens; however, how these cells develop from germinal center B cells is not well understood. A previously described in vitro culture system using human tonsillar germinal center B cells was used to study the transcriptional changes that occur during differentiation of human memory B cells. Kinetic studies monitoring the expression levels of several known late B cell transcription factors revealed that BCL-6 is not expressed in memory B cells generated in vitro, and gene expression profiling studies confirmed that BCL-6 is not expressed in these memory B cells. Furthermore, ectopic expression of BCL-6 in human B cell cultures resulted in formation of fewer memory B cells. In addition, the expression profile of in vitro memory B cells showed a unique pattern that includes expression of genes encoding multiple costimulatory molecules and cytokine receptors, antiapoptotic proteins, T cell chemokines, and transcription factors. These studies establish new molecular criteria for defining the memory B cell stage in human B cells.
Right Ventrolateral Prefrontal Cortex Mediates Individual Differences in Conflict-driven Cognitive Control

Conflict adaptation—a conflict-triggered improvement in the resolution of conflicting stimulus or response representations—has become a widely used probe of cognitive control processes in both healthy and clinical populations. Previous fMRI studies have localized activation foci associated with conflict resolution to dorsolateral PFC (dlPFC). The traditional group analysis approach employed in these studies highlights regions that are, on average, activated during conflict resolution, but does not necessarily reveal areas mediating individual differences in conflict resolution, because between-subject variance is treated as noise. Here, we employed a complementary approach to elucidate the neural bases of variability in the proficiency of conflict-driven cognitive control. We analyzed two independent fMRI data sets of face–word Stroop tasks by using individual variability in the behavioral expression of conflict adaptation as the metric against which brain activation was regressed while controlling for individual differences in mean RT and Stroop interference. Across the two experiments, a replicable neural substrate of individual variation in conflict adaptation was found in ventrolateral PFC (vlPFC), specifically, in the right inferior frontal gyrus, pars orbitalis (BA 47). Unbiased regression estimates showed that variability in activity in this region accounted for ∼40% of the variance in behavioral expression of conflict adaptation across subjects, thus documenting a heretofore unsuspected key role for vlPFC in mediating conflict-driven adjustments in cognitive control. We speculate that vlPFC plays a primary role in conflict control that is supplemented by dlPFC recruitment under conditions of suboptimal performance.
Circulating C1q complement/TNF-related protein (CTRP) 1, CTRP9, CTRP12 and CTRP13 concentrations in Type 2 diabetes mellitus: In vivo regulation by glucose

Objectives The C1q complement/TNF-related protein (CTRP) superfamily, which includes the adipokine adiponectin, has been shown in animal models to have positive metabolic and cardiovascular effects. We sought to investigate circulating CTRP1, CTRP9, CTRP12 and CTRP13 concentrations in persons with type 2 diabetes mellitus (T2DM), with age and BMI matched controls, and to examine the effects of a 2 hour 75g oral glucose tolerance test (OGTT) on serum CTRP1, CTRP9, CTRP12 and CTRP13 levels in persons with T2DM. Design Cross-sectional study [newly diagnosed T2DM (n = 124) and control (n = 139) participants]. Serum CTRP1, CTRP9, CTRP12 and CTRP13 were measured by ELISA. Results Systolic and diastolic blood pressure, total cholesterol (TCH), Low-density lipoprotein (LDL)-cholesterol, triglycerides, TCH/High-density lipoprotein (HDL) ratio, triglycerides/HDL ratio, glucose, insulin, homeostatic model assessment–insulin resistance (HOMA-IR), C-reactive protein and endothelial lipase were significantly higher, whereas leptin and adiponectin were significantly lower in T2DM participants. Serum CTRP1 were significantly higher and CTRP12 significantly lower in T2DM participants. Age, diastolic blood pressure, glucose and CTRP12 were predictive of serum CTRP1; leptin was predictive of serum CTRP9; glucose and CTRP1 were predictive of serum CTRP12; endothelial lipase was predictive of serum CTRP13. Finally, serum CTRP1 were significantly higher and CTRP12 significantly lower in T2DM participants after a 2 hour 75g OGTT. Conclusions Our data supports CTRP1 and CTRP12 as potential novel biomarkers for the prediction and early diagnosis of T2DM. Furthermore, pharmacological agents that target CTRP1 and CTRP12 could represent a new strategy in the treatment of T2DM.
Identification of Spliced Gammaherpesvirus 68 LANA and v-Cyclin Transcripts and Analysis of Their Expression In Vivo during Latent Infection

ABSTRACT Regulation of orf73 (LANA) gene expression is critical to the establishment and maintenance of latency following infection by members of the gamma-2 herpesvirus (rhadinovirus) family. Previous studies of murine gammaherpesvirus 68 (γHV68) have demonstrated that loss of LANA function results in a complete failure to establish virus latency in the spleens of laboratory mice. Here we report the characterization of alternatively spliced LANA and v-cyclin (orf72) transcripts encoded by γHV68. Similar to other rhadinoviruses, alternative splicing, coupled with alternative 3′ processing, of a ca. 16-kb transcriptional unit can lead to expression of either LANA or v-cyclin during γHV68 infection. Spliced LANA and v-cyclin transcripts were initially identified from an analysis of the γHV68 latently infected B-cell lymphoma cell line S11E, but were also detected during lytic infection of NIH 3T12 fibroblasts. 5′ Random amplification of cDNA ends (RACE) analyses identified two distinct promoters, p1 and p2, that drive expression of spliced LANA transcripts. Analysis of p1 and p2, using transiently transfected reporter constructs, mapped the minimal sequences required for promoter activity and demonstrated that both promoters are active in the absence of any viral antigens. Analysis of spliced LANA and v-cyclin transcripts in spleens recovered from latently infected mice at days 16 and 42 postinfection revealed that spliced v-cyclin transcripts can only be detected sporadically, suggesting that these may be associated with cells reactivating from latency. In contrast, spliced LANA transcripts were detected in ca. 1 in 4,000 splenocytes harvested at day 16 postinfection. Notably, based on the frequency of viral genome-positive splenocytes at day 16 postinfection (ca. 1 in 200), only 5 to 10% of viral genome-positive splenocytes express LANA. The failure of the majority of infected splenocytes at day 16 postinfection to express LANA may contribute to the contraction in the frequency of latently infected splenocytes as chronic infection is established, due to failure to maintain the viral episome in proliferating B cells.