Miracle-dz/UniFAR-FTUs huggingface dataset:
Genomic footprints of adaptation in a cooperatively breeding tropical bird across a vegetation gradient

Identifying the genetic basis of phenotypic variation and its relationship with the environment is key to understanding how local adaptations evolve. Such patterns are especially interesting among populations distributed across habitat gradients, where genetic structure can be driven by isolation by distance (IBD) and/or isolation by environment (IBE). Here, we used variation in ~1,600 high‐quality SNPs derived from paired‐end sequencing of double‐digest restriction site‐associated DNA (ddRAD‐Seq) to test hypotheses related to IBD and IBE in the Yucatan jay (Cyanocorax yucatanicus), a tropical bird endemic to the Yucatán Peninsula. This peninsula is characterized by a precipitation and vegetation gradient—from dry to evergreen tropical forests—that is associated with morphological variation in this species. We found a moderate level of nucleotide diversity (π = .008) and little evidence for genetic differentiation among vegetation types. Analyses of neutral and putatively adaptive SNPs (identified by complementary genome‐scan approaches) indicate that IBD is the most reliable explanation to account for frequency distribution of the former, while IBE has to be invoked to explain those of the later. These results suggest that selective factors acting along a vegetation gradient can promote local adaptation in the presence of gene flow in a vagile, nonmigratory and geographically restricted species. The putative candidate SNPs identified here are located within or linked to a variety of genes that represent ideal targets for future genomic surveys.
Aging, Retirement and High-Skill Work Performance: The Case of State Supreme Court Judges

This paper provides evidence on how high-skill work performance changes in response to biological aging, and in response to mandatory retirement policies. Our data set is constructed from the work product of all state supreme court judges for the years 1947 through 1994. Older judges have the same work output as younger judges but write lower-quality opinions. Older judges use a different writing style, with shorter words but longer sentences. Conditional on current age, judges who retire later in life write write higher-quality opinions than judges who retire earlier in life. Mandatory retirement policies have a demotivating effect on judge work output, but not on work quality.
Polyunsaturated fatty acids and rheumatoid arthritis

Rheumatoid arthritis is characterized by infiltration of T lymphocytes, macrophages and plasma cells into the synovium, and the initiation of a chronic inflammatory state that involves overproduction of proinflammatory cytokines and a dysregulated T-helper-1-type response. Eicosanoids synthesized from arachidonic acid and cytokines cause progressive destruction of cartilage and bone. The n-6 polyunsaturated fatty acid γ-linolenic acid is the precursor of di-homo-γ-linolenic acid. The latter and the n-3 polyunsaturated fatty acid eicosapentaenoic acid, which is found in fish oil, are able to decrease the production of arachidonic acid-derived eicosanoids and to decrease the production of proinflammatory cytokines and reactive oxygen species, and the reactivity of lymphocytes. A number of double-blind, placebo-controlled trials of γ-linolenic acid and fish oil in rheumatoid arthritis have shown significant improvements in a variety of clinical outcomes. These fatty acids should be included as part of the normal therapeutic approach to rheumatoid arthritis. However, it is unclear what the optimal dosage of the fatty acids is, or whether there would be extra benefit from using them in combination.
Distensibility of the ascending aorta in coronary artery disease and changes after nifedipine administration.

To study the effect of nifedipine on aortic distensibility in patients with coronary artery disease, ascending aorta distensibility was measured before and 10 min after 10 mg of nifedipine was given sublingually in 13 patients with coronary artery disease and 12 control subjects. Aortic distensibility was calculated as a function of changes in the aortic diameter and pulse pressure. Aortic diameters were measured by echocardiography and aortic pressures were measured directly by catheterization of the ascending aorta. At baseline, aortic distensibility was lower in patients with coronary artery disease compared with control (0.922 +/- 0.367 vs 2.456 +/- 0.588 10(-6). cm2.dyn-1, respectively, p < 0.001). After nifedipine administration, aortic distensibility increased significantly both in normal subjects (by 0.812 +/- 0.316 10(-6). cm2.dyn-1-36.5 +/- 19 percent; p < 0.001) and in patients with coronary artery disease (by 0.296 +/- 0.203 10(-6). cm2.dyn-1-36.6 +/- 28.2 percent; p < 0.001). These results indicate that nifedipine administration increases aortic distensibility in both normal subjects and patients with coronary artery disease.
The Platelet-derived Growth Factor Controls c-myc Expression through a JNK- and AP-1-dependent Signaling Pathway*

Pro-inflammatory cytokines, environmental stresses, as well as receptor tyrosine kinases regulate the activity of JNK. In turn, JNK phosphorylates Jun members of the AP-1 family of transcription factors, thereby controlling processes as different as cell growth, differentiation, and apoptosis. Still, very few targets of the JNK-Jun pathway have been identified. Here we show that JNK is required for the induction of c-myc expression by PDGF. Furthermore, we identify a phylogenetically conserved AP-1-responsive element in the promoter of the c-myc proto-oncogene that recruits in vivo the c-Jun and JunD AP-1 family members and controls the PDGF-dependent transactivation of the c-myc promoter. These findings suggest the existence of a novel biochemical route linking tyrosine kinase receptors, such as those for PDGF, and c-myc expression through JNK activation of AP-1 transcription factors. They also provide a novel potential mechanism by which both JNK and Jun proteins may exert either their proliferative or apoptotic potential by stimulating the expression of the c-myc proto-oncogene.
The mechanism of electroforming of metal oxide memristive switches

Metal and semiconductor oxides are ubiquitous electronic materials. Normally insulating, oxides can change behavior under high electric fields—through ‘electroforming’ or ‘breakdown’—critically affecting CMOS (complementary metal–oxide–semiconductor) logic, DRAM (dynamic random access memory) and flash memory, and tunnel barrier oxides. An initial irreversible electroforming process has been invariably required for obtaining metal oxide resistance switches, which may open urgently needed new avenues for advanced computer memory and logic circuits including ultra-dense non-volatile random access memory (NVRAM) and adaptive neuromorphic logic circuits. This electrical switching arises from the coupled motion of electrons and ions within the oxide material, as one of the first recognized examples of a memristor (memory–resistor) device, the fourth fundamental passive circuit element originally predicted in 1971 by Chua. A lack of device repeatability has limited technological implementation of oxide switches, however. Here we explain the nature of the oxide electroforming as an electro-reduction and vacancy creation process caused by high electric fields and enhanced by electrical Joule heating with direct experimental evidence. Oxygen vacancies are created and drift towards the cathode, forming localized conducting channels in the oxide. Simultaneously, O2− ions drift towards the anode where they evolve O2 gas, causing physical deformation of the junction. The problematic gas eruption and physical deformation are mitigated by shrinking to the nanoscale and controlling the electroforming voltage polarity. Better yet, electroforming problems can be largely eliminated by engineering the device structure to remove ‘bulk’ oxide effects in favor of interface-controlled electronic switching.
Clinical and Neuropathological Correlates of Apolipoprotein E Genotype in Dementia with Lewy Bodies

Dementia with Lewy bodies (DLB) represents the second commonest cause of dementia in the elderly following Alzheimer’s disease (AD). Whilst the presence of Lewy bodies is essential, DLB shares with AD the presence of senile plaques (SP), but neurofibrillary tangles (NFT) are not a necessary feature. The apolipoprotein E (APO E) Ε4 allele is the most consistently associated genetic risk factor for AD and has also been shown to associate with DLB. We have therefore analysed the APO E Ε4 allele in a large series of DLB cases coming to autopsy to: (1) determine if the Ε4 allele describes a similar risk in DLB development as in AD and (2) determine how APO E Ε4 allele status correlates with clinical and neuropathological findings in DLB, and in AD, as an indication of the role of APO E in underlying disease biology. Both DLB and AD share an increased Ε4 allele frequency, though in DLB the Ε2 allele frequency is not reduced and there is a relative lack of Ε4 homozygotes. In contrast to previous studies, no association of the Ε4 allele with age at onset or duration of disease was found in either disorders. In DLB cases, overall a significantly shorter duration of illness was observed when compared with AD cases, though no significant effect of the Ε4 allele on disease onset or duration was seen. The survival rate was reduced by the presence of the Ε4 allele in DLB, as with AD. No effect on SP or NFT counts was seen with the Ε4 allele, though DLB cases showed a lower SP burden in addition to the expected lower NFT counts. This study demonstrates that DLB shares the APO Ε4 allele with AD as a common risk factor, but that there are differences in the way the Ε4 allele affects the phenotypic expression of disease.
The bethesda system for reporting thyroid cytopathology: a five-year retrospective review of one center experience.

UNLABELLED Fine-needle aspiration (FNA) of the thyroid gland is a widely accepted and accurate method for triaging patients with thyroid nodules. Thyroid FNA suffers from a reporting confusion due to multiplicity of category terminologies. To address this, The Bethesda System for Reporting Thyroid Cytopathology (TBSRTC) was recently introduced for unifying the terminology and morphologic criteria along with the corresponding risk of malignancy. OBJECTIVE The aim of this study was to report the diagnostic utility of TBSRTC at our institution and report the malignancy risk for FNA of thyroid lesions among Saudi patients using this system at KAUH (King Abdulaziz University Hospital), Jeddah, Saudi Arabia. MATERIALS AND METHODS A retrospective study identifying 250 thyroid FNAs performed among Saudi patients between Jan 2005-Dec 2010 was undertaken. Cytology specimen data was collected through a computerized search of our cytopathology archives. RESULTS Among the 250 thyroid FNAs, 84 were followed by surgical resection. The overall surgical yield of malignancy was 23.8%. The malignancy rate for the 6 categories was as follows: non diagnostic: 20%, benign: 3.1%, atypia of undetermined significance: 50%, suspicious for follicular neoplasm: 20%, suspicious for malignancy: 80%, malignant: 100%. CONCLUSION Retrospective classification of FNAs of thyroid lesions among Saudi patients using TBSRTC at KAAUH, Jeddah, Saudi Arabia, validates the diagnostic reproducibility of this system and yields similar results for risk of malignancy as reported by others. However the associated rates found for non diagnostic (20%) raise the possibility of malignancy risk in this category and validate the past observations that sample inadequacy is a common cause of false negative thyroid FNAs.
Challenges and prospects of sustainable groundwater management in an agricultural plain along the Silk Road Economic Belt, north-west China

Abstract As a major challenge in building a new and sustainable Silk Road Economic Belt, threats induced by poor groundwater management have raised stress on the groundwater resources in the Yinchuan Plain, north-west China. In the present article, an overview of groundwater development in the plain, along with the associated negative effects, is provided. A fragmented management framework is found responsible for the poor groundwater management. Efficient and effective groundwater management will require proper attention of the local authorities to the inherent interaction among various water systems. Only with enhanced cooperation, an integrated monitoring network, strengthened scientific support and active public participation can the sustainability of groundwater management of the plain be achieved.
Origin and organization of brainstem catecholamine innervation in the rat

The catecholamine (CA) innervation of the rat brainstem was studied by biochemical analysis of discrete nuclei or areas and by glyoxylic acid‐formaldehyde freeze dry fluorescence histochemistry. CA assays demonstrate that the highest norepinephrine (NE) content in brainstem is present in the trigeminal motor nucleu, nucleus tractus solitarius, dorsal motor nucleus of the vagus and nucleus raphe dorsalis. Bilateral locus coeruleus (LC) lesions do not significantly alter NE content in these nuclei but do decrease NE content in the superior and inferior colliculi, medial geniculate body, interpeduncular nucleus, pontine nuclei and the main sensory trigeminal nucleus (60–75%). Dopamine (DA) and epinephrine (E) are found in significant concentration in only a few of the nuclei examined.
A novel shot segmentation algorithm based on grid-mapping dynamic windows in compressed videos

Shot segmentation is normally the groundwork for video retrieval, and which is one of the most important steps for content-based video retrieval. Although existing research on shot segmentation is more active, it still remains many challenges. In the paper, based on the principle of video compression, a novel shot segmentation algorithm called grid-mapping dynamic window (GMDW) is proposed by using changing windows, which is on the basis of DC coefficients in I-Frames. And the GMDW and the approach based on histogram of DC image are integrated into an operator called united difference degree in which it comes true that more accurate difference between two adjacent I-Frames is measured. Finally, more accurate shot boundaries or wrong shot boundaries are detected by the analysis of Macro-block in P or B frame between two adjacent I-Frames on a detected segment position. The experiments show that the Algorithm efficiently has improved the performance of shot detection, and to a certain extent, the complexity of the detection on gradual shot cuts is reduced.
Process-aware side channel monitoring for embedded control system security

Cyber-physical systems (CPS) are interconnections of heterogeneous hardware and software components (e.g., sensors, actuators, physical systems/processes, computational nodes and controllers, and communication subsystems). Increasing network connectivity of CPS computational nodes facilitates maintenance and on-demand reprogrammability and reduces operator workload. However, such increasing connectivity also raises the potential for cyber-attacks that attempt unauthorized modifications of run-time parameters or control logic in the computational nodes to hamper process stability or performance. In this paper, we analyze the effectiveness of real-time monitoring using digital and analog side channels. While analog side channels might not typically provide sufficient granularity to observe each iteration of a periodic loop in the code in the CPS device, the temporal averaging inherent to side channel sensory modalities enables observation of persistent changes to the contents of a computational loop through their resulting effect on the level of activity of the device. Changes to code can be detected by observing readings from side channel sensors over a period of time. Experimental studies are performed on an ARM-based single board computer.
Mispricing in the Odd Lots Market in Brazil

We study the case of mispricing in the odd lots equity market in Brazil. Contrary to expectation, odd lot investors are paying higher prices than round lot investors. The pricing difference between markets is affected by market returns, volatility and spreads. Our main hypothesis is that; once the assets traded in the odd lot market are more illiquid than their counterparts, the mispricing is driven by liquidity factors. Additionally, we show that the mispricing yields an arbitrage opportunity that is not being traded away in the Brazilian market. Therefore, we propose regulators to review the market design for odd lots in Brazil. We argue that reducing the minimal trading unit in the round lots market would benefit investors.
High thoracic epidural anesthesia for off-pump coronary artery bypass surgery.

OBJECTIVE To assess the feasibility of high thoracic epidural anesthesia combined with sevoflurane for off-pump coronary artery bypass surgery and to evaluate the postoperative pain control, side effects, and perioperative hemodynamics. DESIGN Retrospective review of prospectively collected data. SETTING A university teaching hospital. PARTICIPANTS One hundred six consecutive patients receiving thoracic epidural combined with sevoflurane. INTERVENTION From November 1999, the patients undergoing off-pump coronary artery bypass grafting were offered the epidural-inhalation anesthetic approach. MEASUREMENTS AND MAIN RESULTS Insertion of the epidural catheter was successful in all but 2 patients; 1 bloody tap occurred and the dura was never punctured, although 1 patient presented with postoperative paraplegia. An emergency spinal cord nuclear magnetic resonance excluded signs of medullary compression caused by epidural or spinal hematoma. Visual analog scale scores for pain during the first 24-hour period were < 2 in all patients. Mean time to extubation was 4.6 +/- 2.9 hours. The average intensive care unit stay was 1.5 +/- 0.8 days. Incidences of perioperative myocardial infarction, myocardial ischemia, and atrial fibrillation were 2.8%, 7.5%, and 10.6%, respectively. Two patients died: 1 from multiorgan failure and the other from myocardial infarction. Heart rate, mean arterial pressure, cardiac index, and systemic vascular resistance were not affected by thoracic epidural alone. Mean arterial pressure and cardiac index decreased (p < 0.05) when general anesthesia was induced and remained stable thereafter. Neither heart rate nor systemic vascular resistance changed from baseline during operation. CONCLUSIONS Thoracic epidural as an adjunct to general anesthesia is a feasible technique in off-pump coronary artery bypass surgery. It induces intense postoperative analgesia and does not compromise central hemodynamics.
Midday naps and the risk of coronary artery disease: results of the Heinz Nixdorf Recall Study.

STUDY OBJECTIVES Several studies have assessed the association between midday nap and cardiovascular outcomes and reported heterogenous results. Concern exists that confounding might have distorted these results and contributed to discrepancies among them. This study prospectively examines the association between midday nap habits and the occurrence of coronary artery disease in a non-Mediterranean population. PARTICIPANTS The baseline examination of 4,123 participants aged 45-75 years. MEASUREMENTS Measurements included interviews, physical examinations, laboratory tests, and electron beam computed tomography. We studied the influence of midday nap habits on risk of coronary artery disease. We adjusted for several potential confounders including measures of subclinical atherosclerosis-such as coronary calcium score and ankle brachial index-at baseline. Cardiac events during a median follow-up of 8.1 years were defined as nonfatal myocardial infarction and sudden cardiac death. RESULTS Overall, 135 of 4,123 subjects (3.3%) either suffered from acute myocardial infarction (81 subjects) or died due to a sudden cardiac death (54 subjects) during follow-up. After adjustment for several confounders including measures of subclinical atherosclerosis, regular long (> 60 min) midday nap was associated with an increased hazard ratio of cardiac events (hazard ratio 2.12, 95% confidence interval 1.11-4.05). CONCLUSIONS As our detailed confounder analyses showed, confounding is not the sole explanation for this finding. Future research on midday naps should focus on biological mechanisms that may be responsible for increasing the risk of coronary artery disease among subjects taking regular long midday naps.
Recent Trends in Black-White Disparities in Cancer Mortality

Despite decreases in overall cancer death rates across all racial and ethnic groups since the early 1990s, racial disparities in cancer mortality persist. We examined temporal trends in Black-White disparities in cancer mortality from all sites combined, smoking-related cancers (lung and a group including oral cavity, pharynx, larynx, esophagus, pancreas, bladder, and kidney), and sites affected, or potentially affected by screening and treatment (breast, prostate, colon/rectum). Death rates, rate differences, and rate ratios comparing Blacks to Whites from 1975 through 2004 were based on mortality data from the National Center for Health Statistics. The Black-White disparity in overall cancer death rates narrowed from the early 1990s through 2004, especially in men. This reduction was driven predominantly by more rapid decreases in mortality from tobacco-related cancers in Black men than White men. In contrast, racial disparities in mortality from cancers potentially affected by screening and treatment increased over most of the interval since 1975. Coordinated efforts to improve early detection and treatment for all segments of the population are essential to eliminate racial disparities in cancer mortality. (Cancer Epidemiol Biomarkers Prev 2008;17(11):2908–12)