gebhart/patrepeval huggingface dataset:
MD-2 as the target of curcumin in the inhibition of response to LPS (2007)

Curcumin is the main constituent of the spice turmeric, used in diet and in traditional medicine, particularly across the Indian subcontinent. Anti-inflammatory activity and inhibition of LPS signaling are some of its many activities. We show that curcumin binds at submicromolar affinity to the myeloid differentiation protein 2 (MD-2), which is the LPS-binding component of the endotoxin surface receptor complex MD-2/TLR4. Fluorescence emission of curcumin increases with an absorbance maximum shift toward the blue upon the addition of MD-2, indicating the transfer of curcumin into the hydrophobic environment. Curcumin does not form a covalent bond to the free thiol group of MD-2, and C133F mutant retains the binding and inhibition by curcumin. The binding site for curcumin overlaps with the binding site for LPS. This results in the inhibition of MyD88-dependent and -independent signaling pathways of LPS signaling through TLR4, indicating that MD-2 is one of the important targets of curcumin in its suppression of the innate immune response to bacterial infection. This finding, in addition to the correlation between the dietary use of curcumin and low incidence of gastric cancer in India, may have important implications for treatment and epidemiology of chronic inflammatory diseases caused by bacterial infection.
Inhaled marijuana smoke disrupts mitochondrial energetics in pulmonary epithelial cells in vivo (2006)

Habitual marijuana smoking is associated with inflammation and atypia of airway epithelium accompanied by symptoms of chronic bronchitis. We hypothesized that Delta(9)-tetrahydrocannabinol (THC), the primary psychoactive component of marijuana, might contribute to these findings by impairing cellular energetics and mitochondrial function. To test this hypothesis, we examined particulate smoke extracts from marijuana cigarettes, tobacco cigarettes, and placebo marijuana (0% THC) cigarettes for their effects on the mitochondrial function of A549 cells in vitro. Only extracts prepared from marijuana cigarettes altered mitochondrial staining by the potentiometric probe JC-1. With the use of a cross-flow, nose-only inhalation system, rats were then exposed for 20 min to whole marijuana smoke and examined for its effects on airway epithelial cells. Inhalation of marijuana smoke produced lung tissue concentrations of THC that were 8-10 times higher than those measured in blood (75 +/- 38 ng/g wet wt tissue vs. 9.2 +/- 2.0 ng/ml), suggesting high local exposure. Intratracheal infusion of JC-1 immediately following marijuana smoke exposure revealed a diffuse decrease in lung cell JC-1 red fluorescence compared with tissue from unexposed or placebo smoke-exposed rats. Exposure to marijuana smoke in vivo also decreased JC-1 red fluorescence (54% decrease, P < 0.01) and ATP levels (75% decrease, P < 0.01) in single-cell preparations of tracheal epithelial cells. These results suggest that inhalation of marijuana smoke has deleterious effects on airway epithelial cell energetics that may contribute to the adverse pulmonary consequences of marijuana smoking.
Motor and sensory responses after percutaneous tibial nerve stimulation in multiple sclerosis patients with lower urinary tract symptoms treated in daily practice (2014)

A sensory response, either alone or in combination with a motor response, is more frequent and seems to be better associated with a successful outcome of PTNS than motor response alone.
Update on the Appropriate Staging Evaluation for Newly Diagnosed Prostate Cancer (1997)

The components that comprise the most accurate decision support tools for clinical staging represent an appropriate staging evaluation for the newly diagnosed prostate cancer patient in 1997. Limited use of radiographic imaging and seminal vesicle biopsy may be indicated in select patients to detect bone metastases, and plan pelvic lymphadenectomy and surgical therapy.
[Nonalcoholic steatohepatitis]. (2005)

Nonalcoholic steatohepatitis (NASH) is a condition characterized by excessive deposition of fat in the liver (steatosis), inflammation and hepatocellular necrosis. While steatosis alone is generally a benign and stable condition, NASH can have a dire prognosis in a minority of patients, mainly because of fibrosis occurrence and progression to cirrhosis. Life-threatening complications such as liver failure and hepatocellular carcinoma have been described in NASH-induced cirrhosis. Insulin resistance is almost universally found in patients with NASH and the main risk factors for this condition are overweight and diabetes. Improvement in insulin sensitivity, whether achieved by diet, exercise and/or pharmacological interventions, results in a dramatic reduction of liver fat and inflammation and fibrosis as well. Therefore NASH should be viewed as the hepatic phenotypic manifestation of insulin resistance and a bona fide component of the metabolic syndrome. Liver injury should be assessed in diabetic and/or obese patients and the mechanisms by which insulin resistance promotes liver damage needs to be elucidated. The encouraging results of the use of PPARgamma agonists and, in particular, rosiglitazone, in human or experimental models of NASH, justifies future large-scale, randomized controlled trials.
Wave-U-Net: A Multi-Scale Neural Network for End-to-End Audio Source Separation (2018)

Models for audio source separation usually operate on the magnitude spectrum, which ignores phase information and makes separation performance dependant on hyper-parameters for the spectral front-end. Therefore, we investigate end-to-end source separation in the time-domain, which allows modelling phase information and avoids fixed spectral transformations. Due to high sampling rates for audio, employing a long temporal input context on the sample level is difficult, but required for high quality separation results because of long-range temporal correlations. In this context, we propose the Wave-U-Net, an adaptation of the U-Net to the one-dimensional time domain, which repeatedly resamples feature maps to compute and combine features at different time scales. We introduce further architectural improvements, including an output layer that enforces source additivity, an upsampling technique and a context-aware prediction framework to reduce output artifacts. Experiments for singing voice separation indicate that our architecture yields a performance comparable to a state-of-the-art spectrogram-based U-Net architecture, given the same data. Finally, we reveal a problem with outliers in the currently used SDR evaluation metrics and suggest reporting rank-based statistics to alleviate this problem.
Group awareness in distributed software development (2004)

Open-source software development projects are almost always collaborative and distributed. Despite the difficulties imposed by distance, these projects have managed to produce large, complex, and successful systems. However, there is still little known about how open-source teams manage their collaboration. In this paper we look at one aspect of this issue: how distributed developers maintain group awareness. We interviewed developers, read project communication, and looked at project artifacts from three successful open source projects. We found that distributed developers do need to maintain awareness of one another, and that they maintain both a general awareness of the entire team and more detailed knowledge of people that they plan to work with. Although there are several sources of information, this awareness is maintained primarily through text-based communication (mailing lists and chat systems). These textual channels have several characteristics that help to support the maintenance of awareness, as long as developers are committed to reading the lists and to making their project communication public.
Bit-sliced median filter design based on majority gate (1992)

There are arithmetic problems for the hardware realisation of bit-level median filtering algorithms. A design of a majority gate which is composed of output-wired inverters is proposed. The area and time complexities are better than the digital and analogue designs now available. This circuit is applied to a median filter design which is based on majority selection, the computation problems are thus avoided. It is a bit-sliced architecture with constant cycle time. Window shapes can be arbitrarily changed through mask-and-set modules. A median filtering system for twodimensional image processing is presented. A binary majority gate is also an essential element in decision-making circuitry which is applied in fault-tolerant computing systems, artificial neural networks or related applications.
A Novel Isothiourea Derivative Selectively Inhibits the Reverse Mode of Na+/Ca2+ Exchange in Cells Expressing NCX1 (1996)

No.7943 (2-[2-[4-(4-nitrobenzyloxy)phenyl]ethyl]isothiourea methanesulfonate), a selective inhibitor of the Na+/Ca2+ exchanger (NCX1), has been newly synthesized. It dose-dependently inhibited Na+i-dependent 45Ca2+ uptake and Na+i-dependent [Ca2+]i increase in cardiomyocytes, smooth muscle cells, and NCX1-transfected fibroblasts (IC50 = 1.2-2.4 microM). Inhibition was observed without prior incubation with the agent and was completely reversed by washing cells with buffer for 1 min. Interestingly, No.7943 was much less potent in inhibiting Na+o-dependent 45Ca2+ efflux and Na+o-induced [Ca2+]i decline (IC50 = >30 microM), indicating that it selectively blocks the reverse mode of Na+/Ca2+ exchange in intact cells. In cardiac sarcolemmal preparations consisting mostly of inside-out vesicles, the agent inhibited Na+i-dependent 45Ca2+ uptake and Na+o-dependent 45Ca2+ efflux with similar, but slightly lower, potencies (IC50 = 5.4-13 microM). Inhibition was noncompetitive with respect to Ca2+ and Na+ in both cells and sarcolemmal vesicles. These results suggest that No.7943 primarily acts on external exchanger site(s) other than the transport sites in intact cells, although it is able to inhibit the exchanger from both sides of the plasma membrane. No.7943 at up to 10 microM does not affect many other ion transporters nor several cardiac action potential parameters. This agent at these concentrations also did not influence either diastolic [Ca2+]i or spontaneous beating in cardiomyocytes. Furthermore, No.7943 markedly inhibited Ca2+ overloading into cardiomyocytes under the Ca2+ paradox conditions. Thus, No.7943 is not only useful as a tool with which to study the transport mechanism and physiological role of the Na+/Ca2+ exchanger but also has therapeutic potential as a selective blocker of excessive Ca2+ influx mediated via the Na+/Ca2+ exchanger under pathological conditions.
An MS-DOS File System for UNIX (1993)

We have written DosFs, a new file system for UNIX that uses MS-DOS data structures for permanent storage. DosFs can be used anywhere a traditional UNIX file system can be used, and it can mount disks written by MS-DOS as regular UNIX partitions. DosFs can be used as the root partition, and exported by an NFS server. Our motivation for this work was efficient disk space utilization; DosFs provides from 30% to 80% better disk utilization than the 4.3 BSD Fast File System (FFS). In addition, we found that the disk block allocation algorithm used by DosFs lets us exploit large contiguous disk operations, providing a five-fold improvement over FFS for uncached operations. To the best of our knowledge, this is the first file system implementation that allows the user to specify the logical block size at mount time. A user can mount the same fileystem with a larger block size when file accesses tend to be sequential and a smaller one when they tend to be scattered. The MS-DOS structures were designed for a single-user system and do not support access control. We solved this problem with simple extensions that are backward-compatible with MS-DOS.
Escherichia coliserogroup O2 and O28ac O-antigen gene cluster sequences and detection of pathogenicE. coliO2 and O28ac by PCR (2010)

The O-antigen gene clusters of Escherichia coli serogroups O2 and O28ac were sequenced, and PCR assays were developed to identify strains belonging to these 2 serogroups. Sixteen and 8 open reading frames were mapped to these loci in E. coli O2:H4 U 9-41 and E. coli O28ac:H25 96-3286, respectively. The wzx (O-antigen flippase) and wzy (O-antigen polymerase) genes in the E. coli O2 and O28ac O-antigen gene clusters were selected as targets for PCR assays for their identification. PCR assays targeting the wzx and wzy genes were specific for these serogroups, with one exception. Escherichia coli serogroup O42 strains gave positive results with wzx and wzy PCR assays targeting E. coli O28ac, and antiserum raised against O42 cross-reacted with serogroup O28ac strains. The O-antigen gene cluster of a strain of E. coli serogroup O42 was sequenced, and there were only 3 nt differences between the O-antigen gene clusters of the O28ac and O42 strains. Multiplex PCR assays targeting the O2 wzx gene, the stx1, stx2, hly, eae, and saa genes, and the O28ac wzx, ial, ipaC, and ipaH genes were developed for detecting Shiga toxin-producing E. coli O2 strains and enteroinvasive E. coli O28ac strains, respectively. The O2 and O28ac wzx and wzy genes can be used as diagnostic markers in PCR assays for rapid identification of these serogroups as an alternative to serotyping, and the multiplex PCR assays targeting serogroup-specific genes in combination with virulence genes can be used to identify and to detect pathogenic serogroup O2 and O28ac strains.
Increased Wnt signaling triggers oncogenic conversion of human breast epithelial cells by a Notch-dependent mechanism (2006)

Wnt and Notch signaling have long been established as strongly oncogenic in the mouse mammary gland. Aberrant expression of several Wnts and other components of this pathway in human breast carcinomas has been reported, but evidence for a causative role in the human disease has been missing. Here we report that increased Wnt signaling, as achieved by ectopic expression of Wnt-1, triggers the DNA damage response (DDR) and an ensuing cascade of events resulting in tumorigenic conversion of primary human mammary epithelial cells. Wnt-1-transformed cells have high telomerase activity and compromised p53 and Rb function, grow as spheres in suspension, and in mice form tumors that closely resemble medullary carcinomas of the breast. Notch signaling is up-regulated through a mechanism involving increased expression of the Notch ligands Dll1, Dll3, and Dll4 and is required for expression of the tumorigenic phenotype. Increased Notch signaling in primary human mammary epithelial cells is sufficient to reproduce some aspects of Wnt-induced transformation. The relevance of these findings for human breast cancer is supported by the fact that expression of Wnt-1 and Wnt-4 and of established Wnt target genes, such as Axin-2 and Lef-1, as well as the Notch ligands, such as Dll3 and Dll4, is up-regulated in human breast carcinomas.
A Novel Route Guidance Algorithm with Maximum Coverage and Minimum Handover for Vehicular Networks (2008)

In this paper, we propose a novel route guidance algorithm that provides better wireless network availability. Using a GPS device, geographical information is considered to select a short geographical path while ensuring the maximum covered distance and the minimum handovers number. An efficient algorithm is derived to tackle the problem in polynomial time. Our solution is optimal and well suited to all possible scenarios including low and high hotspots density. By comparing our algorithm with some common practices, we minimize significantly the handovers number and decrease the wireless uncovered distance, with a negligible overhead in the traversed distance.
Protein Oligomerization in the Endoplasmic Reticulum (1989)

Cet article synthetise les connaissances sur le repliement et l'oligomerisation des proteines du reticulum endoplasmique: proteines membranaires, glycoproteines, proteines de liaison
A Fast Voxel Traversal Algorithm for Ray Tracing (1987)

A fast and simple voxel traversal algorithm through a 3D space partition is introduced. Going from one voxel to its neighbour requires only two floating point comparisons and one floating point addition. Also, multiple ray intersections with objects that are in more than one voxel are eliminated.
Synthesis of Two Novel Cyclic Biphenyl Ether Analogs of an Inhibitor of HCV NS3 Protease (1999)

The synthesis of two cyclic ether analogs of a tetrapeptide inhibitor of the hepatitis C virus NS3 protease has been carried out using intramolecular nucleophilic aromatic substitution (SNAr) reactions of ruthenium π-aryl complexes of pre-assembled tripeptides.
Adjuvants and Antibody Production: Dispelling the Myths Associated with Freund's Complete and Other Adjuvants (2005)

Adjuvants have been used for more than 70 yr to enhance the immune response of the host animal to an antigen. Among the mechanisms that adjuvants use to enhance the immune response are the "depot" effect, antigen presentation, antigen targeting, immune activation/modulation, and cytotoxic lymphocyte induction. The immunostimulatory properties of adjuvants result in inflammation, tissue destruction, and the potential for resulting pain and distress in the host animal. The inflammatory lesions produced by adjuvants such as Freund's complete adjuvant (FCA) have led some to conclude that pain and distress are present, even in cases where the scientific evidence fails to support this conclusion. Recommendations and regulations in the literature, based on available scientific evidence, provide guidance on total adjuvant volumes, volumes per site, routes of injection, booster injections, and adjuvants used for antibody production. Among the numerous adjuvants that are used for experimental antibody production reviewed in this article, many claim to be less inflammatory, tissue destructive, and painful than FCA while producing equal or superior antibody responses. Although no adjuvant surpasses FCA for experimental antibody production against a wide range of antigenic molecules, many produce excellent antibody responses with less inflammation and tissue destruction. Balancing the requisite degree of immuno-stimulation and the extent of inflammation, necrosis, and potential pain and distress requires consideration of the nature of the antigen, the host immune responsiveness, the adjuvant's mechanisms of action, and the desired end-product. In cases where the antigen is a weak immunogen or has a very limited availability, the type and role of adjuvant becomes a critical component in producing an acceptable immune response and humoral antibody response.
Surgery vs Orthosis vs Watchful Waiting for Hallux Valgus (2001)

Surgical osteotomy is an effective treatment for painful hallux valgus. Orthoses provide short-term symptomatic relief.
Localization of erythropoietin synthesizing cells in murine kidneys by in situ hybridization (1988)

In situ hybridization was used to localize the cells that produce erythropoietin (EP) in anemic murine kidneys. Kidneys from anemic and nonanemic mice were fixed and processed for paraffin embedding. Sections were hybridized with a 35S-labeled RNA probe complementary to mRNA coding for EP. An uncommon, but specific type of cell was intensely labeled in the cortices of anemic kidneys. The labeled cells were clearly nonglomerular and nontubular. Their location outside of the tubular basement membrane was consistent with that of a subset of interstitial cells or capillary endothelial cells.
Modified-Release Calcifediol Effectively Controls Secondary Hyperparathyroidism Associated with Vitamin D Insufficiency in Chronic Kidney Disease (2014)

Oral MR calcifediol appears safe and highly effective in treating SHPT associated with vitamin D insufficiency in CKD.
Recency-based TLB preloading (2000)

Caching and other latency tolerating techniques have been quite successful in maintaining high memory system performance for general purpose processors. However, TLB misses have become a serious bottleneck as working sets are growing beyond the capacity of TLBs.
Transmural Ultrasound-based Visualization of Patterns of Action Potential Wave Propagation in Cardiac Tissue (2010)

The pattern of action potential propagation during various tachyarrhythmias is strongly suspected to be composed of multiple re-entrant waves, but has never been imaged in detail deep within myocardial tissue. An understanding of the nature and dynamics of these waves is important in the development of appropriate electrical or pharmacological treatments for these pathological conditions. We propose a new imaging modality that uses ultrasound to visualize the patterns of propagation of these waves through the mechanical deformations they induce. The new method would have the distinct advantage of being able to visualize these waves deep within cardiac tissue. In this article, we describe one step that would be necessary in this imaging process-the conversion of these deformations into the action potential induced active stresses that produced them. We demonstrate that, because the active stress induced by an action potential is, to a good approximation, only nonzero along the local fiber direction, the problem in our case is actually overdetermined, allowing us to obtain a complete solution. Use of two- rather than three-dimensional displacement data, noise in these displacements, and/or errors in the measurements of the fiber orientations all produce substantial but acceptable errors in the solution. We conclude that the reconstruction of action potential-induced active stress from the deformation it causes appears possible, and that, therefore, the path is open to the development of the new imaging modality.
TWO-PHASE FLOW MODELS: THE CLOSURE ISSUE (1987)

The closure issue in two-phase flow modelling is discussed from various complementary points of view. It is shown that closure of engineering two-phase flow models implies several kinds of closure laws. Some of these laws are of the same nature as the closure laws of single phase flow models. They include equations of state, correlation functions, field viscous and conduction laws and transfer laws. The other closure laws are specific to multiphase flow models. They account for the interface structure and the interface dynamics, and could be called topological laws. They play an essential part in the model behaviour. Except for the equations of state, none of the engineering closure laws is constitutive in the standard sense. The implication of the choice of closure laws are recalled and the closure methods are briefly discussed. The most important topological laws are the void fraction and the interfacial area topological laws. The void fraction topological law, whose essential role is often overlooked, is discussed in some detail.
Intracranial Hemorrhage During Extracorporeal Membrane Oxygenation in Neonates (1986)

Intracranial hemorrhage is a complication of extracorporeal membrane oxygenation for the treatment of neonatal respiratory failure. A retrospective review of 35 neonates treated with extracorporeal membrane oxygenation was performed; ten had intracranial hemorrhage. Infants with intracranial hemorrhage had lower birth weights and were gestationally younger than infants with intracranial hemorrhage. Eight of eight neonates of less than 35 weeks' gestational age sustained intracranial hemorrhage. Six died immediately after extracorporeal membrane oxygenation was stopped. Two lived less than 1 year. Two of 27 neonates older than 34 weeks' gestational age sustained intracranial hemorrhage. One child is normal, the other died at 18 months of age. Based on the results of this study, the risk of intracranial hemorrhage appears low in neonates of greater than 34 weeks' gestational age who undergo extracorporeal membrane oxygenation treatment for severe respiratory failure. The use of extracorporeal membrane oxygenation, as it is presently performed, is contraindicated in neonates of less than 35 weeks' gestational age because of the risk of intracranial hemorrhage.