Miracle-dz/UniFAR-FTUs huggingface dataset:
The performance of a multiversion access method

The Time-Split B-tree is an integrated index structure for a versioned timestamped database. It gradually migrates data from a current database to an historical database, records migrating when nodes split. Records valid at the split time are placed in both an historical node and a current node. This implies some redundancy. Using both analysis and simulation, we characterise the amount of redundancy, the space utilization, and the record addition (insert or update) performance for a spectrum of different rates of insertion versus update. Three splitting policies are studied which alter the conditions under which either time splits or key space splits are performed.
VO2 response profiles in severe intensity exercise.

AIM VO2peak can be achieved over the range of intensities that define the severe intensity domain. The purpose of this study was to help characterize the VO2 response during constant-load exercise in this domain. METHODS Twelve participants performed cycle ergometer tests at 267+/-52 W, 238+/-45 W, and 216+/-37 W, which were individually selected to elicit VO2peak and to cause fatigue in 3 min, 5 min, and 7 min, respectively. RESULTS Times to fatigue were 201+/-16 s, 301+/-20 s, and 448+/-51 s, respectively. VO2 responded faster at higher work rates, with VO2peak reached after 154+/-25 s, 193+/-35 s, and 206+/-24 s, respectively. Extrapolation of the times to reach VO2peak revealed that 300 W was the highest power, and 151 s was the shortest time, for which VO2peak could be elicited. TheVO2 response was described using a three-component model. Exercise intensity did not affect the speed of the primary response, with time constants of 22+/-3 s, 23+/-4 s, and 23+/-4 s, respectively. However, the size of the primary phase was greater at higher intensities, with amplitudes of 1,798+/-200 mlxmin-1, 1,739+/-267 mlxmin-1, and 1,677+/-254 mlxmin-1, respectively. The amplitude of the slow component was correspondingly smaller at higher intensities. Extrapolation of the slow component amplitudes revealed that 299 W was the highest intensity, and 152(-1)53 s was the shortest time, for which a slow component would be engendered. CONCLUSION VO2peak is attained faster at higher intensities because the amplitude of the primary response is greater, not because the response is faster. There is a slow component to the VO2 response at all intensities within the severe domain, but not at higher intensities, in the extreme domain, where fatigue occurs before VO2peak can be elicited.
Rank Ordered Autoencoders

A new method for the unsupervised learning of sparse representations using autoencoders is proposed and implemented by ordering the output of the hidden units by their activation value and progressively reconstructing the input in this order. This can be done efficiently in parallel with the use of cumulative sums and sorting only slightly increasing the computational costs. Minimizing the difference of this progressive reconstruction with respect to the input can be seen as minimizing the number of active output units required for the reconstruction of the input. The model thus learns to reconstruct optimally using the least number of active output units. This leads to high sparsity without the need for extra hyperparameters, the amount of sparsity is instead implicitly learned by minimizing this progressive reconstruction error. Results of the trained model are given for patches of the CIFAR10 dataset, showing rapid convergence of features and extremely sparse output activations while maintaining a minimal reconstruction error and showing extreme robustness to overfitting. Additionally the reconstruction as function of number of active units is presented which shows the autoencoder learns a rank order code over the input where the highest ranked units correspond to the highest decrease in reconstruction error.
Current British veterinary attitudes to perioperative analgesia for dogs

In March 1996, a questionnaire was sent to 2000 veterinary surgeons, primarily involved in small animal practice, to assess their attitudes to perioperative analgesic therapy in dogs, cats and other small mammals. This paper is concerned only with the data relating to dogs. The veterinary surgeons considered that pain was a consequence of all the surgical procedures specified, but there were differences in their treatment of pain. Some veterinarians considered that a degree of pain was necessary postoperatively to prevent excessive activity. In general, women and more recent graduates assigned higher pain scores to the procedures and were more likely to treat the pain with analgesics. A significant number of veterinarians consider the use of opiates or non-steroidal anti-inflammatory drugs before surgical procedures, but relatively few appear to use combinations of different classes of analgesics either before or after operations.
Security Analysis of Cordova Applications in Google Play

Mobile Cross-Platform Tools (CPTs) provide an alternative to native application development that allows mobile app developers to drastically reduce the development time and cost when targeting multiple platforms. They allow sharing a significant part of the application codebase between the implementations for the targeted platforms (e.g. Android, iOS, Windows Phone). Although CPTs provide significant benefits for developers, there can introduce several disadvantages. The CPT software layers and translation steps can impact the security of the produced applications. One of the most well-known and often-used CPTs is Cordova, formerly known as PhoneGap. Cordova has, over the years, taken several steps to reduce the attack surface and introduced several mechanisms that allow developers to increase the security of Cordova applications. This paper gives a statistical overview of the adoption of Cordova security best practices and mechanisms in Cordova applications downloaded from the Google Play Store. For the analysis, over a thousand Cordova application were downloaded. The research shows that the poor adoption of these mechanisms leads to a significant number of insecure Cordova applications.
The Central Fragment of Reelin, Generated by Proteolytic Processing In Vivo, Is Critical to Its Function during Cortical Plate Development

Reelin is a large extracellular protein that controls cortical development. It binds to lipoprotein receptors very-low-density lipoprotein receptor and apolipoprotein-E receptor type 2, thereby inducing phosphorylation of the adapter Dab1. In vivo, Reelin is cleaved into three fragments, but their respective function is unknown. Here we show the following: (1) the central fragment is necessary and sufficient for receptor binding in vitro and for Dab1 phosphorylation in neuronal cultures; (2) Reelin does not bind the protocadherin cadherin-related neuronal receptor (CNR1) as reported previously; (3) Reelin and its central fragment are equally able to rescue the reeler phenotype in a slice culture assay; and (4) anti-receptor antibodies can induce Dab1 phosphorylation but do not correct the reeler phenotype in slices. These observations show that the function of Reelin is critically dependent on the central fragment generated by processing but primarily independent of interactions with CNR1 and on the N-terminal region. They also indicate that events acting in parallel to Dab1 phosphorylation might be required for full activity.
SPA: A Probabilistic Algorithm for Spliced Alignment

Recent large-scale cDNA sequencing efforts show that elaborate patterns of splice variation are responsible for much of the proteome diversity in higher eukaryotes. To obtain an accurate account of the repertoire of splice variants, and to gain insight into the mechanisms of alternative splicing, it is essential that cDNAs are very accurately mapped to their respective genomes. Currently available algorithms for cDNA-to-genome alignment do not reach the necessary level of accuracy because they use ad hoc scoring models that cannot correctly trade off the likelihoods of various sequencing errors against the probabilities of different gene structures. Here we develop a Bayesian probabilistic approach to cDNA-to-genome alignment. Gene structures are assigned prior probabilities based on the lengths of their introns and exons, and based on the sequences at their splice boundaries. A likelihood model for sequencing errors takes into account the rates at which misincorporation, as well as insertions and deletions of different lengths, occurs during sequencing. The parameters of both the prior and likelihood model can be automatically estimated from a set of cDNAs, thus enabling our method to adapt itself to different organisms and experimental procedures. We implemented our method in a fast cDNA-to-genome alignment program, SPA, and applied it to the FANTOM3 dataset of over 100,000 full-length mouse cDNAs and a dataset of over 20,000 full-length human cDNAs. Comparison with the results of four other mapping programs shows that SPA produces alignments of significantly higher quality. In particular, the quality of the SPA alignments near splice boundaries and SPA's mapping of the 5′ and 3′ ends of the cDNAs are highly improved, allowing for more accurate identification of transcript starts and ends, and accurate identification of subtle splice variations. Finally, our splice boundary analysis on the human dataset suggests the existence of a novel non-canonical splice site that we also find in the mouse dataset. The SPA software package is available at http://www.biozentrum. unibas.ch/personal/nimwegen/cgi-bin/spa.cgi.
Mega roles of microRNAs in regulation of skeletal muscle health and disease

Skeletal muscle is a dynamic tissue with remarkable plasticity. Skeletal muscle growth and regeneration are highly organized processes thus it is not surprising that a high degree of complexity exists in the regulation of these processes. Recent discovery of non-coding microRNAs (miRNAs) has prompted extensive research in understanding the roles of these molecules in skeletal muscle. Research so far shows that miRNAs play a very significant role at every aspect of muscle biology. Besides muscle growth, development, and regeneration miRNAs are also involved in the pathology of muscle diseases and metabolism. In this review, recent advancements in miRNA function during myogenesis, exercise, atrophy, aging, and dystrophy are discussed.
Biological invasions, climate change and genomics

The rate of biological invasions is expected to increase as the effects of climate change on biological communities become widespread. Climate change enhances habitat disturbance which facilitates the establishment of invasive species, which in turn provides opportunities for hybridization and introgression. These effects influence local biodiversity that can be tracked through genetic and genomic approaches. Metabarcoding and metagenomic approaches provide a way of monitoring some types of communities under climate change for the appearance of invasives. Introgression and hybridization can be followed by the analysis of entire genomes so that rapidly changing areas of the genome are identified and instances of genetic pollution monitored. Genomic markers enable accurate tracking of invasive species’ geographic origin well beyond what was previously possible. New genomic tools are promoting fresh insights into classic questions about invading organisms under climate change, such as the role of genetic variation, local adaptation and climate pre‐adaptation in successful invasions. These tools are providing managers with often more effective means to identify potential threats, improve surveillance and assess impacts on communities. We provide a framework for the application of genomic techniques within a management context and also indicate some important limitations in what can be achieved.
Improving network performance by reducing network contention in source-based COWS with a low path-computation overhead

In previous papers, we have proposed the in-transit buffer mechanism (ITB) to improve network performance in COWs with irregular topology and source routing. This mechanism allows the use of minimal paths among all hosts, breaking cyclic dependences between channels by storing and later re-injecting packets at some intermediate hosts. However it also has two additional features that can improve even more network performance. First, the ITB mechanism reduces network contention because some messages are ejected from the network freeing network links. Second the ITB mechanism allows the use of any path between each source-destination pair improving traffic balance. In this paper we present a new routing algorithm that takes advantage of ITB by exploiting both issues: traffic balance and network contention reduction. The evaluation results show that network throughput can be considerably improved. On average, network throughput increases with respect to up*/down* by factors of 2.51 and 3.77 in 32 and 64-switch networks, respectively.
The Vascular Biology of Heart and Lung Preservation for Transplantation

In spite of optimal organ preservation techniques, the heart and the lungs remain extremely vulnerable to the ischemia and reperfusion which accompany the transplantation procedure. Following a period of prolonged preservation, the altered phenotype of the graft vasculature results in vasoconstriction, neutrophil sequestration, edema, and thrombosis in the reperfused graft. These parameters of vascular dysfunction translate into primary graft failure and recipient demise. Using endothelial cells exposed to hypoxia and reoxygenation as a simple paradigm for the vascular milieu during organ preservation/transplantation, we have found that second messenger pathways (cAMP and NO/cGMP) are suppressed, neutrophil-endothelial interactions are enhanced, and prothrombotic mechanisms are activated. Using heterotopic rat heart and orthotopic rat lung transplant models, we have shown that supplemention of second messenger pathways or interference with neutrophil-endothelial interactions can significantly enhance preservation. Understanding mechanisms of vascular dysfunction within the graft should help define clinically relevant therapeutic targets to enhance heart or lung preservation for transplantation.
Angiogenic Factors and the Risk of Adverse Outcomes in Women With Suspected Preeclampsia

Background— An imbalance in circulating angiogenic factors plays a central role in the pathogenesis of preeclampsia. Methods and Results— We prospectively studied 616 women who were evaluated for suspected preeclampsia. We measured plasma levels of antiangiogenic soluble fms-like tyrosine kinase 1 (sFlt1) and proangiogenic placental growth factor (PlGF) at presentation and examined for an association between the sFlt1/PlGF ratio and subsequent adverse maternal and perinatal outcomes within 2 weeks. The median sFlt1/PlGF ratio at presentation was elevated in participants who experienced any adverse outcome compared with those who did not (47.0 [25th–75th percentile, 15.5–112.2] versus 10.8 [25th–75th percentile, 4.1–28.6]; P<0.0001). Among those presenting at <34 weeks (n=167), the results were more striking (226.6 [25th–75th percentile, 50.4–547.3] versus 4.5 [25th–75th percentile, 2.0–13.5]; P<0.0001), and the risk was markedly elevated when the highest sFlt1/PlGF ratio tertile was compared with the lowest (odds ratio, 47.8; 95% confidence interval, 14.6–156.6). Among participants presenting at <34 weeks, the addition of sFlt1/PlGF ratio to hypertension and proteinuria significantly improved the prediction for subsequent adverse outcomes (area under the curve, 0.93 for hypertension, proteinuria, and sFlt1/PlGF versus 0.84 for hypertension and proteinuria alone; P=0.001). Delivery occurred within 2 weeks of presentation in 86.0% of women with an sFlt1/PlGF ratio ≥85 compared with 15.8% of women with an sFlt1/PlGF ratio <85 (hazard ratio, 15.2; 95% confidence interval, 8.0–28.7). Conclusions— In women with suspected preeclampsia presenting at <34 weeks, circulating sFlt1/PlGF ratio predicts adverse outcomes occurring within 2 weeks. The accuracy of this test is substantially better than that of current approaches and may be useful in risk stratification and management. Additional studies are warranted to validate these findings.
Non-typhoidal salmonella: an unusual cause of spontaneous bacterial peritonitis in decompensated cirrhosis

Salmonella typhimurium, a non-typhoidal salmonella, is an unusual cause of spontaneous bacterial peritonitis (SBP). It is usually reported in asymptomatic patients with normal or high ascitic fluid protein levels with underlying immunosuppression, as high opsonic activity in the ascitic fluid of these patients protects them from the usual organisms causing spontaneous bacterial peritonitis, unless they are exposed to a particularly virulent organism like salmonella. We report a case of culture-proven non-typhoidal salmonella in a patient with decompensated cirrhosis, with low protein and without any underlying immunosuppression, and no other source to explain its origin.
Bridge to transplant or recovery in cardiogenic shock in a developing country

Background Durable mechanical support devices are prohibitively expensive in our health system and may be unsuitable for critically ill patients. CentriMag is an alternative bridge to transplantation or recovery. Methods We retrospectively reviewed 28 patients (23 males) aged 13–60 years who received CentriMag support. The etiology was ischemic in 13 (46%), dilated cardiomyopathy in 8 (29%), and others in 7 (25%). All patients were in Interagency Registry for Mechanically Assisted Circulatory Support class I, and 27 (96%) had multiorgan failure; 2 (7%) were post-cardiotomy and 12 (43%) had a previous cardiac arrest (mean arrest time 21 ± 17 min). Results Thirty-day post-implant survival was 79% (22 patients). Twenty (71%) patients were successfully bridged to transplantation or recovery. The mean support time was 40 days; 12 (43%) patients had >4-weeks’ support (longest was 292 days). Eight (29%) patients died on support. Complications included bleeding in 10 (36%) cases, immediate stroke in 4 (14%), and dialysis in 8 (29%). There was no stroke during subsequent support. Eighteen (64%) patients underwent transplantation, and 17 of them were discharged. Two (7%) patients recovered and were discharged. Two-year survival was 62% ± 10%. Mean follow-up was 21 months (total follow-up 579 months). Two (7%) patients died during follow-up. All survivors were in New York Heart Association class I. Conclusions CentriMag is useful for medium-term support for cardiogenic shock in a developing country. Support for >4 weeks is feasible. The stroke rate is low during support. The major drawback is prolonged intensive care unit stay.
The challenge of hearing amplification in pediatric patients

La habilidad en nuestra especialidad para realizar una debida amplificación en los niños ha sido siempre un reto, que implica el conocimiento y la preparación para adquirir habilidades, la elaboración de un diagnóstico médico completo, la infraestructura para utilizar los métodos actualizados en el cálculo de la amplificación, la disposición, intuición y paciencia que implica la observación de un niño sordo y su familia. Actualmente contamos con muchos apoyos, pero la observación clínica del comportamiento en una o varias sesiones de un niño no debe perderse; las pruebas neurofisiológicas son ahora cada vez mejores y nos orientan, pero no son definitivas ni absolutas.
2011 update on pancreas transplantation: comprehensive trend analysis of 25,000 cases followed up over the course of twenty-four years at the International Pancreas Transplant Registry (IPTR).

AIM This study aimed to analyze the outcome of pancreas and pancreas-kidney transplantations based on the comprehensive follow-up data reported to the International Pancreas Transplant Registry (IPTR). METHODS As of December 2010, more than 35,000 pancreas transplantations have been reported to the IPTR: more than 24,000 transplantations in the US and more than 12,000 outside the US. Cases with follow-up information until March 2011 were included in the analysis. RESULTS Pancreas transplantations in diabetic patients were divided into 3 categories: those performed simultaneously with a kidney (SPK) (75%), those given after a previous kidney transplantation (PAK) (18%), and pancreas transplantation alone (PTA) (7%). The total number of pancreas transplantations steadily increased until 2004 but has since declined. The largest decrease was seen in PAK, which decreased by 50% from 2004 through 2010. Comparatively, the number of SPK decreased by 7% during this time. Era analysis of US transplantations between 1987 and 2010 showed changes in recipient and donor characteristics. Recipient age at transplantation increased significantly as well as transplantations in type 2 diabetes patients. The trend over time was towards tighter donor criteria. There was a concentration on younger donors, preferable trauma victims, with short preservation time. Surgical techniques for the drainage of the pancreatic duct changed over time, too. Now enteric drainage is the predominantly used technique in combination with systemic drainage of the venous effluent of the pancreas graft. Immunosuppressive protocols developed towards antibody induction therapy with tacrolimus and MMF as maintenance therapy. The rate of transplantations with steroid avoidance increased over time in all 3 categories. These changes have led to improved patient and graft survival. Patient survival now reaches over 95% at one year post-transplant and over 83% after 5 years. The best graft survival was found in SPK with 86% pancreas and 93% kidney graft function at one year. PAK pancreas graft function reached 80%, and PTA pancreas graft function reached 78% at one year. In all 3 categories, early technical graft loss rates decreased significantly to 8-9%. Likewise, the 1-year immunological graft loss rate also decreased: in SPK, the immunological 1-year graft loss rate was 1.8%, in PAK 3.7%, and in PTA 6.0%. CONCLUSIONS Patient survival and graft function improved significantly over the course of 24 years of pancreas transplantation in all 3 categories. With further reduction in surgical complications and improvements in immunosuppressive protocols, pancreas transplantation offers excellent outcomes for patients with labile diabetes.