Miracle-dz/UniFAR-FTUs huggingface dataset:
Global gene expression profiling in early-stage polycystic kidney disease in the Han:SPRD Cy rat identifies a role for RXR signaling.

Han:SPRD Cy is a spontaneous rat model of polycystic kidney disease (PKD) caused by a missense mutation in Pkdr1. Cystogenesis in this model is not clearly understood. In the current study, we performed global gene expression profiling in early-stage PKD cyst development in Cy/Cy kidneys and normal (+/+) kidneys at 3 and 7 days of postnatal age. Expression profiles were determined by microarray analysis, followed by validation with real-time RT-PCR. Genes were selected with over 1.5-fold expression changes compared with age-matched +/+ kidneys for canonical pathway analysis. We found nine pathways in common between 3- and 7-day Cy/Cy kidneys. Three significantly changed pathways were designated "Vitamin D Receptor (VDR)/Retinoid X Receptor (RXR) Activation," "LPS/IL-1-Mediated Inhibition of RXR Function," and "Liver X Receptor (LXR)/RXR Activation. " These results suggest that RXR-mediated signaling is significantly altered in developing kidneys with mutated Pkdr1. In gene ontology analysis, the functions of these RXR-related genes were found to be involved in regulating cell proliferation and organ morphogenesis. With real-time RT-PCR analysis, the upregulation of Ptx2, Alox15b, OSP, and PCNA, major markers of cell proliferation associated with the RXR pathway, were confirmed in 3- and 7-day Cy/Cy kidneys compared with 3-day +/+ kidneys. The increased RXR protein was observed in both the nucleus and cytoplasm of cystic epithelial cells in early-stage Cy/Cy kidneys, and the RXR-positive cells were strongly positive for PCNA staining. Taken together, cell proliferation and organ morphogenesis signals transduced by RXR-mediated pathways may have important roles for cystogenesis in early-stage PKD in this Pkdr1-mutated Cy rat.
Sexual Impotence Caused by Vascular Disease: Diagnosis with Duplex Sonography

We used duplex Doppler sonography to assess the hemodynamic function of the penis in patients with impotence to determine if there is arterial disease or if the veins are incompetent. The penis was scanned in the flaccid state, then again after erection was induced by intracorporal injection of papaverine. The diameter of each cavernosal artery was measured before and after injection and, by using Doppler sonography, the maximal systolic velocity in each cavernosal artery was measured. The Doppler gate was placed over the dorsal vein to detect any flow in that vein signifying venous leakage. The Doppler gate then was placed over the cavernosal veins in an attempt to detect cavernosal venous incompetence. Forty-five men with impotence were included in the study. In 39 patients, the cause of impotence was confirmed by other studies. The diameter of the cavernosal arteries and the increase in diameter of these arteries after induction of an erection were similar in all diagnostic groups. The peak systolic velocity, however, was decreased in patients with arterial insufficiency as compared with the velocity in normal subjects. In normal subjects, the mean peak velocity was 47 +/- 9 cm/sec; in patients with mild to moderate arterial insufficiency it was 35 +/- 16 cm/sec; in patients with severe arterial insufficiency it was 7 +/- 8 cm/sec. The difference in peak velocities between the right and left cavernosal arteries after papaverine injection (asymmetric arterial response) was significantly larger in patients with mild to moderate arterial insufficiency than in other diagnostic groups. Four patients with venous incompetence had detectable flow in the dorsal vein, but no flow could be detected with Doppler sonography in the cavernosal veins in any patients, including those who were proved to have significant cavernosal venous leaks. Our findings suggest that Doppler measurement of maximal systolic velocity in the cavernosal arteries after papaverine injection is an accurate indicator of arterial function. Asymmetric flow in the cavernosal arteries also suggests some degree of arterial insufficiency. Diameters of the cavernosal arteries and their increase after injection are not predictive of arterial patency. Doppler sonography cannot show cavernosal venous leakage, but in some cases it can show dorsal venous incompetence.
Failure of thrombolysis: experience with a policy of early angiography and rescue angioplasty for electrocardiographic evidence of failed thrombolysis

OBJECTIVE To assess the outcome of a policy of emergency coronary angiography with or without rescue angioplasty in patients with acute myocardial infarction and ECG evidence of failed reperfusion after thrombolysis. DESIGN A cohort study. SETTING Regional cardiothoracic unit. PATIENTS 197 patients with acute myocardial infarction fulfilling a simple ECG criterion of failed reperfusion. INTERVENTIONS Emergency coronary angiography proceeding to rescue angioplasty for inadequate antegrade flow. MAIN OUTCOME MEASURES Hospital mortality for all 197 patients; incidence of successful and failed rescue angioplasty; need for additional revascularisation in those receiving rescue angioplasty compared with those not treated in this way. RESULTS 197 patients had emergency angiography for ECG evidence of failed reperfusion; 156 patients received immediate rescue angioplasty. Overall hospital mortality for those undergoing rescue angioplasty was 11.5%. Rescue angioplasty achieved TIMI 2 (11) or TIMI 3 (124) in 135 patients, who had a hospital mortality of 5.9%. Failure to achieve at least TIMI 2 flow following rescue angioplasty occurred in 21 patients, with a hospital mortality of 48%. In the 41 patients in whom immediate rescue angioplasty was not performed, reinfarction or requirement for revascularisation occurred in 37%. Reinfarction occurred in three patients (1.9%) who had immediate rescue angioplasty. Hospital mortality for the whole cohort was 10.7%. CONCLUSIONS A policy of emergency coronary angiography proceeding to rescue angioplasty where appropriate reduces mortality in a high risk group to a level less than expected for patients with acute myocardial infarction and ECG evidence of failed reperfusion. Unsuccessful rescue angioplasty is associated with a high mortality.
The paradox of premature mortality in schizophrenia: new research questions

The life expectancy of patients with schizophrenia is reduced by between 15 and 25 years. Those patients dying of natural causes die of the same diseases as in the general population. In 2009 the World Health Organization (WHO) identified underlying global risk factors for mortality in the general population. However, there is little evidence in the literature assessing their validity in those with schizophrenia. The WHO report on global health risks (2009) identifies hypertension, smoking, raised glucose, physical inactivity, overweight and obesity, and high cholesterol as the six leading global mortality risk factors. Currently, there are minimal data on the contribution to mortality that these risk factors make in schizophrenia, and their optimum management. Both short and long-term studies are needed to address these gaps. New research has raised important questions about risk balance with regards to ideal body mass, with some studies showing that being overweight is associated with lower all-cause mortality and lower suicide rates. Cardiorespiratory fitness is being recognized as a more powerful predictor of mortality than smoking, hypertension or diabetes in men. However, there are virtually no published data on assessment of fitness levels in schizophrenia. New studies have raised concerns about the quality of physical care for patients with schizophrenia, which is another important avenue of future research. A greater biological understanding of the relationship between these disorders and schizophrenia would inform clinical practice. Low birth weight has been associated with increased risk for schizophrenia, and it will be important to explore this risk factor for both physical and mental health outcomes.
Using a paging system in the rehabilitation of encephalitic patients

Memory and executive problems following encephalitis are common yet there are few published papers on the successful rehabilitation of such patients. We recently demonstrated (Wilson, Emslie, Quirk, & Evans, 2001; Wilson, Emslie, Quirk, Evans, & Watson, 2005) that a paging system could reduce the everyday memory and planning problems for people with non-progressive brain injury. Among the 143 patients who participated in the 2001 study were four people who had survived encephalitis. Their results are reported here. During a 2-week baseline, the successful task achievement of our four clients ranged from 2–81%. They then received a pager for 7 weeks and task achievement was documented in weeks 6 and 7. All were significantly more successful with the pager than they had been at baseline with success rates ranging from 45–96%. Five weeks after returning their pagers they were monitored once more. One of the encephalitic patients failed to achieve any of his target tasks, returning to baseline level, the other three dropped back a little but were still significantly more successful than at baseline. It is concluded that the paging system can reduce everyday memory and planning problems of patients with encephalitis.
Early Diffusion-Weighted MRI and 1H-Magnetic Resonance Spectroscopy in Asphyxiated Full-Term Neonates

Aim: To assess the predictive value of early MRI and proton MR spectroscopy (1H-MRS), 11 full-term neonates with severe perinatal asphyxia were studied within 48 h after birth. Methods: T1- and T2-weighted MRI, diffusion-weighted MRI (DW-MRI), apparent diffusion coefficient of water (ADC) of the basal ganglia and parietal white matter, as well as 1H-MRS of the basal ganglia were performed in a 1.5-Tesla magnetic field. Neurodevelopment was assessed in the survivors for at least 24 months. Results: Nine of the 11 neonates had a poor outcome (7 died, 2 developed cerebral palsy). All examinations were normal in the 2 neonates with a good outcome. T1- and T2-weighted MRI were abnormal in 7, DWI was abnormal in 7, ADC was abnormal in 5, and elevated lactate/N-acetylaspartate ratios using 1H-MRS were seen in 7 of the 9 neonates with a poor outcome. None of these 9 had completely normal MRI or 1H-MRS findings. Conclusions: Using a combination of T1- and T2-weighted MRI, DW-MRI, ADC measurements and 1H-MRS within 48 h after severe perinatal asphyxia, no abnormalities were seen with any of these techniques in both neonates with a good outcome.
A probable novel splicing isoform of human vascular endothelial growth factor.

OBJECTIVE To characterize a new alternative splicing isoform of human vascular endothelial growth factor (VEGF) gene. METHODS The total RNA was extracted from the lung tissue of a legally aborted 4-month-old fetus and amplified by RT-PCR. The amplified product was cloned into the plasmid pMD18-T and plasmid pcDNA3.1- for sequence analysis. RESULTS Electrophoresis of the RT-PCR products displayed one short band for VEGF(121) (487 bp) and a long band. The latter was characterized to contain two fragments: one was normal VEGF(165) (619 bp), and the other (639 bp) had an identical nucleotide sequence to VEGF(165) with a 20 bp fragment inserted between exons 3 and 4. Sequence analysis showed that this 20-bp nucleotide was inserted from the 3' end of the third intron containing a splicing signal, thus causing shift mutation in the reading frame of VEGF gene and early appearance of the stop codon UAG in the middle of exon 4. CONCLUSION A new alternative splicing isoform of VEGF probably exists in the lung tissue of a legally aborted human fetus, and its biological significance remains to be further investigated.
The Local Universe as Seen in the Far-Infrared and Far-Ultraviolet: A Global Point of View of the Local Recent Star Formation

We select far-infrared (FIR: 60 μm) and far-ultraviolet (FUV: 530 Å) samples of nearby galaxies in order to discuss the biases encountered by monochromatic surveys (FIR or FUV). Very different volumes are sampled by each selection, and much care is taken to apply volume corrections to all the analyses. The distributions of the bolometric luminosity of young stars are compared for both samples: they are found to be consistent with each other for galaxies of intermediate luminosities, but some differences are found for high (>5 × 1010 L☉) luminosities. The shallowness of the IRAS survey prevents us from securing a comparison at low luminosities (<2 × 109 L☉). The ratio of the total infrared (TIR) luminosity to the FUV luminosity is found to increase with the bolometric luminosity in a similar way for both samples up to 5 × 1010 L☉. Brighter galaxies are found to have a different behavior according to their selection: the LTIR/LFUV ratio of the FUV-selected galaxies brighter than 5 × 1010 L☉ reaches a plateau, whereas LTIR/LFUV continues to increase with the luminosity of bright galaxies selected in FIR. The volume-averaged specific star formation rate (SFR per unit galaxy stellar mass, SSFR) is found to decrease toward massive galaxies within each selection. The mean values of the SSFR are found to be larger than those measured for optical and NIR-selected samples over the whole mass range for the FIR selection, and for masses larger than 1010 M☉ for the FUV selection. Luminous and massive galaxies selected in FIR appear as active as galaxies with similar characteristics detected at z ∼ 0.7.
Screening and prevention in Swiss primary care: a systematic review

Background and objectives Prevention is a challenging area of primary care. In Switzerland, little is known about attitudes to and performance of screening and prevention services in general practice. To implement prevention services in primary care it is important to know about not only potential facilitators but also barriers. Primary care encompasses the activities of general practitioners, including those with particular interest and/or specializations (eg, pediatrics, gynecology). The aim of this study was to review all studies with a focus on prevention services which have been conducted in Switzerland and to reveal barriers and facilitators for physicians to participate in any preventive measures. Methods The Cochrane Library, PubMed, EMBASE and BIOSIS were searched from January 1990 through December 2010. Studies focussing on preventive activities in primary care settings were selected and reviewed. The methodological quality of the identified studies was classified according to the guidelines in the Consolidated Standards of Reporting Trials (CONSORT) statement. Results We identified 49 studies including 45 descriptive studies and four randomised controlled trials (RCTs). Twelve studies addressed the prevention of epidemics, eleven out of them vaccinations. Further studies focused on lifestyle changes, physical activity counselling, smoking cessation, cardiovascular prevention and cancer screening. Perceived lack of knowledge/training and lack of time were the most commonly stated barriers. Motivation, feasibility and efficiency were the most frequently reported supporting factors for preventive activities. The methodological quality was weak, only one out of four RCTs met the applied quality criteria. Conclusion Most studies focussing on screening and prevention activities in primary care addressed vaccination, lifestyle modification or cardiovascular disease prevention. Identified barriers and facilitators indicate a need for primary-care-adapted education and training which are easy to handle, time-saving and reflect the specific needs of general practitioners. If new prevention programs are to be implemented in general practices, RCTs of high methodological quality are needed to assess their impact.
Plant cell division is specifically affected by nitrotyrosine

Virtually all eukaryotic α-tubulins harbour a C-terminal tyrosine that can be reversibly removed and religated, catalysed by a specific tubulin–tyrosine carboxypeptidase (TTC) and a specific tubulin–tyrosine ligase (TTL), respectively. The biological function of this post-translational modification has remained enigmatic. 3-nitro-L-tyrosine (nitrotyrosine, NO2Tyr), can be incorporated into detyrosinated α-tubulin instead of tyrosine, producing irreversibly nitrotyrosinated α-tubulin. To gain insight into the possible function of detyrosination, the effect of NO2Tyr has been assessed in two plant model organisms (rice and tobacco). NO2Tyr causes a specific, sensitive, and dose-dependent inhibition of cell division that becomes detectable from 1 h after treatment and which is not observed with non-nitrosylated tyrosine. These effects are most pronounced in cycling tobacco BY-2 cells, where the inhibition of cell division is accompanied by a stimulation of cell length, and a misorientation of cross walls. NO2Tyr reduces the abundance of the detyrosinated form of α-tubulin whereas the tyrosinated α-tubulin is not affected. These findings are discussed with respect to a model where NO2Tyr is accepted as substrate by TTL and subsequently blocks TTC activity. The irreversibly tyrosinated α-tubulin impairs microtubular functions that are relevant to cell division in general, and cell wall deposition in particular.
Impaired Baroreflex Gain During Pregnancy in Conscious Rats: Role of Brain Insulin

Pregnancy impairs baroreflex gain, but the mechanism is incompletely understood. To test the hypothesis that reductions in brain insulin contribute, we determined whether pregnant rats exhibit lower cerebrospinal fluid (CSF) insulin concentrations and whether intracerebroventricular infusion of insulin normalizes gain of baroreflex control of heart rate in conscious pregnant rats. CSF insulin was lower in pregnant (68±21 pg/mL) compared to virgin (169±25 pg/mL) rats (P<0.05). Pregnancy reduced baroreflex gain (pregnant 2.4±0.2 bpm/mm Hg, virgin 4.6±0.3 bpm/mm Hg; P<0.0001) and the maximum heart rate elicited by hypotension (pregnant 455±15 bpm, virgin 507±12 bpm; P=0.01). Infusion of insulin (100 &mgr;U/min) intracerebroventricularly increased baroreflex gain in pregnant (2.4±0.4 to 3.9±0.5 bpm/mm Hg; P<0.01) but not virgin (4.6±0.4 to 4.2±0.4 bpm/mm Hg; NS) rats. Maximum heart rate was not altered by intracerebroventricular insulin in either group. Interestingly, while in pregnant rats the baroreflex was unchanged by intracerebroventricular infusion of the artificial CSF vehicle, in virgin rats, vehicle infusion lowered baroreflex gain (4.7±0.3 to 3.9±0.3 bpm/mm Hg; P<0.05) and the maximum baroreflex heart rate (495±19 to 444±21 bpm; P<0.05). These data support the hypothesis that brain insulin is required to support optimal baroreflex function and that a decrease in brain insulin contributes to the fall in baroreflex gain during pregnancy.
Loop Chaining: A Programming Abstraction for Balancing Locality and Parallelism

There is a significant, established code base in the scientific computing community. Some of these codes have been parallelized already but are now encountering scalability issues due to poor data locality, inefficient data distributions, or load imbalance. In this work, we introduce a new abstraction called loop chaining in which a sequence of parallel and/or reduction loops that explicitly share data are grouped together into a chain. Once specified, a chain of loops can be viewed as a set of iterations under a partial ordering. This partial ordering is dictated by data dependencies that, as part of the abstraction, are exposed, thereby avoiding inter-procedural program analysis. Thus a loop chain is a partially ordered set of iterations that makes scheduling and determining data distributions across loops possible for a compiler and/or run-time system. The flexibility of being able to schedule across loops enables better management of the data locality and parallelism tradeoff. In this paper, we define the loop chaining concept and present three case studies using loop chains in scientific codes: the sparse matrix Jacobi benchmark, a domain-specific library, OP2, used in full applications with unstructured grids, and a domain-specific library, Chombo, used in full applications with structured grids. Preliminary results for the Jacobi benchmark show that a loop chain enabled optimization, full sparse tiling, results in a speedup of as much as 2.68x over a parallelized, blocked implementation on a multicore system with 40 cores.
Finite element analysis of underwater capacitor micromachined ultrasonic transducers

A simple electromechanical equivalent circuit model is used to predict the behavior of capacitive micromachined ultrasonic transducers (cMUT). The equivalent circuit model of the cMUT lacks important features such as coupling to the substrate and the ability to predict crosstalk between elements of an array of transducers. To overcome these deficiencies, a finite element model of the cMUT is constructed using the commercial code ANSYS(R). Calculation results of the complex load impedance seen by single capacitor cells are presented, then followed by a calculation of the plane wave real load impedance seen by a parallel combination of many cells that are used to make a transducer. Crosstalk between 1-D array elements is found to be due to two main sources: coupling through a Stoneley wave propagating at the transducer-water interface and coupling through Lamb waves propagating in the substrate. To reduce the crosstalk level, the effect of structural variations of the substrate are investigated, which includes a change of its thickness and etched trenches or polymer walls between array elements.
Contrast dependence of the oscillatory motion threshold across the visual field.

Observer sensitivity to oscillatory step displacements of sine-wave gratings was investigated at various loci in the visual field (0-30 degrees) as a function of contrast. Detection thresholds at 10 Hz and high grating contrasts were approximately 11-15 arcsec in the fovea and 37-47 arcsec at 30 degrees eccentricity. At any given contrast, threshold displacement increases linearly with eccentricity. The data provide evidence against an interpretation based on cortical magnification, because the slope and the scale-free x intercept of the eccentricity function vary strongly with contrast. While foveal thresholds for high-contrast gratings are in the range of the hyperacuities, the oscillatory motion threshold falls off an order of magnitude more slowly than the traditional hyperacuities. Rather than conceiving of the oscillatory motion threshold as a spatial acuity limited by cortical magnification, we suggest an alternative approach that is based on a form of contrast discrimination. Oscillatory motion can be decomposed into the sum of a modulating counterphase grating and a static masking grating, both of which are in spatial quadrature (i.e., 90 degrees out of phase). At low grating contrast, oscillatory motion can be detected when the counterphase component exceeds a constant contrast value. Above a critical contrast value of the static component Cscrit, threshold rises as a power function of contrast with a slope near 1.0. The critical contrast value Cscrit increases linearly with eccentricity, indicating that oscillating gratings observed with the peripheral visual field are less easily masked compared with foveally fixated gratings.