gebhart/patrepeval huggingface dataset:
Local Cytokines in Endometrial Tissue: The Role of Interleukin‐8 in the Pathogenesis of Endometriosis (2002)

Endometriosis, defined by the presence of viable endometrial tissue outside the uterine cavity, is among the most common gynecologic disorders affecting women of reproductive age. Endometriosis is associated with an inflammatory peritoneal environment, where multiple cytokines and growth factors are found at elevated levels. Interleukin-8 (IL-8) is a cytokine that induces chemotaxis of neutrophils and is a potent angiogenic agent. In addition, IL-8 was recently found to stimulate proliferation of various cells. We have observed that IL-8 is elevated in the peritoneal fluid of women with endometriosis and the levels correlate with the severity of the disease. We hypothesized that IL-8 may play a role in the growth and maintenance of ectopic endometrial tissue not only by chemoattracting and stimulating leukocytes to secrete growth factors and cytokines, but also by directly affecting endometrial cell proliferation. We found that IL-8 mRNA and protein levels in the endometrium were significantly higher during early proliferative and late secretory phases than during the mid-cycle. IL-8 receptors A and B are also expressed in the endometrium mostly localized in the stroma. Interestingly, IL-8 receptor expression is higher in the eutopic endometrium of women with endometriosis compared to the endometrium of women without endometriosis. Endometrial cells in culture proliferate significantly when treated with IL-8, which is inhibited by anti-IL-8 neutralizing antibody. More convincingly, IL-8 antisense oligonucleotide treatment decreases IL-8 production by endometrial cells as well as cell proliferation when compared to non-sense oligonucleotide treatment. The addition of IL-8 reverses the inhibitory effect of IL-8 antisense oligonucleotides on cell proliferation. These findings suggest that IL-8 may act as an autocrine growth factor in the endometrium. We have also studied the effect of endometrial cell adhesion on IL-8 expression and observed that IL-8 stimulates the adhesion of endometrial cells to fibronectin. Treatment of the cells with anti-IL-8 neutralizing antibody inhibited partially the cell adhesion. Thus, IL-8 may also be relevant for stimulating the attachment of endometrial implants in the pathogenesis of endometriosis. In addition, adherence of endometrial cells induced further IL-8 expression by an integrin-dependent mechanism. In summary, IL-8 may act as an autocrine growth factor in the endometrium and may also play a role in the pathogenesis of endometriosis by promoting the vicious circle of endometrial cell attachment, cell growth, and further secretion of this cytokine.
Synthesis and Complex Chemistry of Novel Di‐ and Trihydroxyoligosilanes (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
Microdosimetric Studies on the Orsay Proton Synchrocyclotron at 73 and 200 MeV (1997)

A planar microdosemeter has been developed for making measurements on charged particle radiotherapy beams. Initially used for making measurements on the 62 MeV proton therapy beam at Clatterbridge, the detector has now been used on both the 73 MeV and 200 MeV proton beams at Orsay. Measurements on this facility were complicated by the fact that it is a synchrocyclotron, with 440 Hz modulation of the primary MHz-pulsed beam. As a result, extreme care had to be exercised to prevent recording multiple events. Analysis of the microdosimetric spectra shows that for both the 73 and 200 MeV beams there is a significant increase in the dose averaged mean lineal energy, yD, towards the end of the proton range. This will be associated with a rise in RBE. The implications of this increase are discussed.
Interleukin-17 Acts Independently of TNF-α under Arthritic Conditions (2006)

The proinflammatory T cell cytokine IL-17 is a potent inducer of other cytokines such as IL-1 and TNF-alpha. The contribution of TNF in IL-17-induced joint inflammation is unclear. In this work we demonstrate using TNF-alpha-deficient mice that TNF-alpha is required in IL-17-induced joint pathology under naive conditions in vivo. However, overexpression of IL-17 aggravated K/BxN serum transfer arthritis to a similar degree in TNF-alpha-deficient mice and their wild-type counterparts, indicating that the TNF dependency of IL-17-induced pathology is lost under arthritic conditions. Also, during the course of the streptococcal cell wall-induced arthritis model, IL-17 was able to enhance inflammation and cartilage damage in the absence of TNF. Additional blocking of IL-1 during IL-17-enhanced streptococcal cell wall-induced arthritis did not reduce joint pathology in TNF-deficient mice, indicating that IL-1 is not responsible for this loss of TNF dependency. These data provide further understanding of the cytokine interplay during inflammation and demonstrate that, despite a strong TNF dependency under naive conditions, IL-17 acts independently of TNF under arthritic conditions.
T-cell alpha beta + and gamma delta + deficient mice display abnormal but distinct phenotypes toward a natural, widespread infection of the intestinal epithelium. (1996)

Vertebrate immune systems contain T cells bearing either alpha beta or gamma delta T-cell antigen receptors (TCRs). alpha beta T cells perform all well-characterized T-cell effector functions, while the biological functions of gamma delta + cells remain unclear. Of particular interest is the role of gamma delta + cells during epithelial infections, since gamma delta + cells are commonly abundant within epithelia. Eimeria spp. are intracellular protozoa that infect epithelia of most vertebrates, causing coccidiosis. This study shows that in response to Eimeria vermiformis, mice lacking alpha beta T cells display defects in protective immunity, while mice lacking gamma delta + cells display exaggerated intestinal damage, apparently due to a failure to regulate the consequences of the alpha beta T cell response. An immuno-downregulatory role during infection, and during autoimmune disease, may be a general one for gamma delta + cells.
Organic Electroluminescent Materials and Devices (1997)

Electronic processes in organic electroluminescence mono- and heterolayer polymeric light emitting diodes based on poly(p-phenylene vinylene) and oxadiazole polymers making polymer light emitting diodes with polythiophenes thin film electroluminescent diodes based on poly(vinyl carbazole) electroluminescence and photoluminescence in fullerene white-light emitting devices single-layer organic electroluminescent devices. (Part contents).
Comparative Transcriptional Profiling of Two Contrasting Rice Genotypes under Salinity Stress during the Vegetative Growth Stage (2005)

Abstract Rice (Oryza sativa), a salt-sensitive species, has considerable genetic variation for salt tolerance within the cultivated gene pool. Two indica rice genotypes, FL478, a recombinant inbred line derived from a population developed for salinity tolerance studies, and IR29, the sensitive parent of the population, were selected for this study. We used the Affymetrix rice genome array containing 55,515 probe sets to explore the transcriptome of the salt-tolerant and salt-sensitive genotypes under control and salinity-stressed conditions during vegetative growth. Response of the sensitive genotype IR29 is characterized by induction of a relatively large number of probe sets compared to tolerant FL478. Salinity stress induced a number of genes involved in the flavonoid biosynthesis pathway in IR29 but not in FL478. Cell wall-related genes were responsive in both genotypes, suggesting cell wall restructuring is a general adaptive mechanism during salinity stress, although the two genotypes also had some differences. Additionally, the expression of genes mapping to the Saltol region of chromosome 1 were examined in both genotypes. Single-feature polymorphism analysis of expression data revealed that IR29 was the source of the Saltol region in FL478, contrary to expectation. This study provides a genome-wide transcriptional analysis of two well-characterized, genetically related rice genotypes differing in salinity tolerance during a gradually imposed salinity stress under greenhouse conditions.
Comparative genomics enabled the isolation of the R3a late blight resistance gene in potato (2005)

Comparative genomics provides a tool to utilize the exponentially increasing sequence information from model plants to clone agronomically important genes from less studied crop species. Plant disease resistance (R) loci frequently lack synteny between related species of cereals and crucifers but appear to be positionally well conserved in the Solanaceae. In this report, we adopted a local RGA approach using genomic information from the model Solanaceous plant tomato to isolate R3a, a potato gene that confers race-specific resistance to the late blight pathogen Phytophthora infestans. R3a is a member of the R3 complex locus on chromosome 11. Comparative analyses of the R3 complex locus with the corresponding I2 complex locus in tomato suggest that this is an ancient locus involved in plant innate immunity against oomycete and fungal pathogens. However, the R3 complex locus has evolved after divergence from tomato and the locus has experienced a significant expansion in potato without disruption of the flanking colinearity. This expansion has resulted in an increase in the number of R genes and in functional diversification, which has probably been driven by the co-evolutionary history between P. infestans and its host potato. Constitutive expression was observed for the R3a gene, as well as some of its paralogues whose functions remain unknown.
Magnitude, precision, and realism of depth perception in stereoscopic vision (2017)

Our perception of depth is substantially enhanced by the fact that we have binocular vision. This provides us with more precise and accurate estimates of depth and an improved qualitative appreciation of the three-dimensional (3D) shapes and positions of objects. We assessed the link between these quantitative and qualitative aspects of 3D vision. Specifically, we wished to determine whether the realism of apparent depth from binocular cues is associated with the magnitude or precision of perceived depth and the degree of binocular fusion. We presented participants with stereograms containing randomly positioned circles and measured how the magnitude, realism, and precision of depth perception varied with the size of the disparities presented. We found that as the size of the disparity increased, the magnitude of perceived depth increased, while the precision with which observers could make depth discrimination judgments decreased. Beyond an initial increase, depth realism decreased with increasing disparity magnitude. This decrease occurred well below the disparity limit required to ensure comfortable viewing.
A Review of Antibody Therapeutics and Antibody-Related Technologies for Oncology (2006)

Scallon, Bernard J.; Snyder, Linda A.; Mark Anderson, G.; Chen, Qiming; Yan, Li; Weiner, Louis M.; Nakada, Marian T. Author Information
Quality improvement methods for hexahedral element meshes adaptively generated using grid‐based algorithm (2011)

SUMMARY The quality of finite element meshes is one of the key factors that affects the accuracy and reliability of numerical simulation results of many science and engineering problems. In order to solve the problem wherein the surface elements of the mesh generated by the grid‐based method have poor quality, this paper studied mesh quality improvement methods, including node position smoothing and topological optimization. A curvature‐based Laplacian scheme was used for smoothing of nodes on the C‐edges , which combined the normal component with the tangential component of the Laplacian operator at the curved boundary. A projection‐based Laplacian algorithm for smoothing the remaining boundary nodes was established. The deviation of the newly smoothed node from the practical surface of the solid model was solved. A node‐ and area‐weighted combination method was proposed for smoothing of interior nodes. Five element‐inserting modes, three element‐collapsing modes and three mixed modes for topological optimization were newly established. The rules for harmonious application and conformity problem of each mode, especially the mixed mode, were provided. Finally, several examples were given to demonstrate the practicability and validity of the mesh quality improvement methods presented in this paper. Copyright © 2011 John Wiley &amp; Sons, Ltd.
Cooperative Intelligent Software Agents (1995)

The availability of network-based information sources and services, along with the wide use of of World Wide Web, presents a great opportunity for enhanced problem solving support that incorporates information gathering into the problem solving framework. The concept of an intelligent information agent has been explored for information accessing and filtering tasks (e.g., filtering of newsgroup information). To provide support for more complex tasks that involve information gathering along with decision making capabilities, an agent must communicate and cooperate with other agents. One of the main issues is how to structure a multi-agent architecture that will allow access, filtering and fusing of information from many sources and services, integrated with flexible decision support. In this paper we present such an architecture. It has two layers: The top layer consists of task-specific software agents which help users perform tasks by formulating problem solving plans and carry...
Complexation and Sequestration of BMP-2 from an ECM Mimetic Hyaluronan Gel for Improved Bone Formation (2013)

Bone morphogenetic protein-2 (BMP-2) is considered a promising adjuvant for the treatment of skeletal non-union and spinal fusion. However, BMP-2 delivery in a conventional collagen scaffold necessitates a high dose to achieve an efficacious outcome. To lower its effective dose, we precomplexed BMP-2 with the glycosaminoglycans (GAGs) dermatan sulfate (DS) or heparin (HP), prior to loading it into a hyaluronic acid (HA) hydrogel. In vitro release studies showed that BMP-2 precomplexed with DS or HP had a prolonged delivery compared to without GAG. BMP-2-DS complexes achieved a slightly faster release in the first 24 h than HP; however, both delivered BMP-2 for an equal duration. Analysis of the kinetic interaction between BMP-2 and DS or HP showed that HP had approximately 10 times higher affinity for BMP-2 than DS, yet it equally stabilized the protein, as determined by alkaline phosphatase activity. Ectopic bone formation assays at subcutaneous sites in rats demonstrated that HA hydrogel-delivered BMP-2 precomplexed with GAG induced twice the volume of bone compared with BMP-2 delivered uncomplexed to GAG.
Use of Biodegradable Plates and Screws in a Rabbit Model (1992)

During the last decade, rigid internal fixation with miniplates and screws has gained widespread acceptance in the correction of both congenital and acquired craniomaxillofacial deformities. Recent studies have proposed that the currently employed metallic plates and screws may require removal because of potential facial growth restriction in growing children. Others have reported bone resorption under the plate due to stress shielding, infection, extrusion, and palpability in regions where there is minimal tissue coverage. Because these implants are radiopaque, they generate significant that interfere with radiological studies and with radiation therapy in patients undergoing treatment for malignancies. There is no question that the use of a biodegradable plating system would eliminate each of these potential or real problems, because stability is necessary only for a reasonably short period until the fracture segments have become united. We report the initial phase of a long-term study examining various materials that will be available for fabrication of a biodegradable plate and screw system. We evaluated a commercially developed biodegradable plate and screw system to treat zygomatic arch fractures in a rabbit model. Fractures were surgically created at the midpoint of each zygomatic arch. The experimental animals were then divided into three equal groups. Fractures in the first group were permitted to heal without any form of stabilization. In the second group, segments were secured with standard titanium plates and screws. Biodegradable plates and screws were employed for stabilization in the experimental group. Animals were then killed, and radiographs were obtained at 2, 4, 6, and 8 weeks.(ABSTRACT TRUNCATED AT 250 WORDS)
A New Learning Algorithm for Blind Signal Separation (1995)

A new on-line learning algorithm which minimizes a statistical dependency among outputs is derived for blind separation of mixed signals. The dependency is measured by the average mutual information (MI) of the outputs. The source signals and the mixing matrix are unknown except for the number of the sources. The Gram-Charlier expansion instead of the Edgeworth expansion is used in evaluating the MI. The natural gradient approach is used to minimize the MI. A novel activation function is proposed for the on-line learning algorithm which has an equivariant property and is easily implemented on a neural network like model. The validity of the new learning algorithm is verified by computer simulations. 3 Lab. for Information Representation, FRP, RIKEN, Wako-shi, Saitama, JAPAN 1 INTRODUCTION The problem of blind signal separation arises in many areas such as speech recognition, data communication, sensor signal processing, and medical science. Several neural network algorithms [3, 5, ...
CD4+ T Cells Regulate Surgical and Postinfectious Adhesion Formation (2002)

The development of adhesions in the peritoneal and pelvic cavities, which commonly form after surgery or infection, cause significant morbidity and mortality. However, the pathogenesis of adhesion formation is still poorly understood. Because T cells are important in orchestrating fibrinogenic tissue disorders, we hypothesized that they play a critical role in the pathogenesis of peritoneal adhesion formation. Using a cecal abrasion surgical model in rodents, T cell depletion and adoptive transfer experiments demonstrated that this host response is dependent on CD4+ alphabeta T cells. These cells were also critical to adhesion formation associated with experimental intraabdominal sepsis. T cell transfer studies with mice deficient in signal transducer and activator of transcription (Stat)4 and Stat6 revealed that adhesion formation was dependent on a T helper 1 response. Activated T cells homed to the peritoneal cavity 6 hours after cecal abrasion surgery and predominated at this site during adhesiogenesis. Increased levels of the T cell-derived proinflammatory cytokine interleukin (IL)-17 and of neutrophil chemoattractant CXC chemokines macrophage inflammatory protein-2/CXCL8 and cytokine-induced neutrophil chemoattractant/CXCL1 were associated with adhesion formation. The production of these chemokines was dependent on T cells. Furthermore, the administration of neutralizing antibodies specific for IL-17 or the receptor that binds these CXC chemokines, CXC chemokine receptor 2, significantly reduced the degree of adhesion formation. These results demonstrate for the first time that the immunopathogenesis of adhesion formation is under the control of T cells and that T cell-derived cytokines and chemokines play important roles in the development of this deleterious host response.
Thromboxane synthetase inhibitors and antihypertensive agents. 1. N-[(1H-imidazol-1-yl)alkyl]aryl amides and N-[(1H-1,2,4-triazol-1-yl)alkyl]aryl amides (1986)

The title compounds were prepared to investigate their potential as thromboxane synthetase inhibitors as well as antihypertensive agents. Imidazoles VIII and triazoles X were prepared to examine the effects of aromatic substitution, chain length, and heterocycle substitution upon biological activity. Imidazoles VIII and triazoles X were thromboxane synthetase inhibitors that did not inhibit prostacyclin formation. The most interesting thromboxane synthetase inhibitors prepared were 4-chloro-, 4-(trifluoromethyl)-, and 4-bromobenzamide derivatives of (1H-imidazol-1-yl)alkylamines with C5-C8 alkyl chains separating the heterocycle from the amide moiety, while the most active antihypertensive agents were 3- or 4-chloro-, -bromo, or -(trifluoromethyl)benzamides with C3 alkyl chains. The best thromboxane synthetase inhibitors in this study were up to 10 times more potent than the standard, dazoxiben (UK 37,248).
Exploring the Neural Algorithm of Artistic Style (2016)

We explore the method of style transfer presented in the article "A Neural Algorithm of Artistic Style" by Leon A. Gatys, Alexander S. Ecker and Matthias Bethge (arXiv:1508.06576). We first demonstrate the power of the suggested style space on a few examples. We then vary different hyper-parameters and program properties that were not discussed in the original paper, among which are the recognition network used, starting point of the gradient descent and different ways to partition style and content layers. We also give a brief comparison of some of the existing algorithm implementations and deep learning frameworks used. To study the style space further we attempt to generate synthetic images by maximizing a single entry in one of the Gram matrices $\mathcal{G}_l$ and some interesting results are observed. Next, we try to mimic the sparsity and intensity distribution of Gram matrices obtained from a real painting and generate more complex textures. Finally, we propose two new style representations built on top of network's features and discuss how one could be used to achieve local and potentially content-aware style transfer.
Structural and Physiological Exploration of Salmonella Typhi YfdX Uncovers Its Dual Function in Bacterial Antibiotic Stress and Virulence (2019)

YfdX is a prokaryotic protein encoded by several pathogenic bacteria including Salmonella enterica serovar Typhi, which causes one of the most fatal infectious diseases, typhoid fever. YfdX is a product of the yfdXWUVE operon and is known to be under the control of EvgA, a regulator protein controlling the expression of several proteins involved in response to environmental stress, in Escherichia coli. Nevertheless, unlike other proteins encoded by the same operon, the structural and physiological aspects of YfdX have been poorly characterized. Here, we identified a previously unknown pH-dependent stoichiometric conversion of S. Typhi YfdX between dimeric and tetrameric states; this conversion was further analyzed via determining its structure by X-ray crystallography at high resolution and by small-angle X-ray scattering in a solution state and via structure-based mutant studies. Biologically, YfdX was proven to be critically involved in Salmonella susceptibility to two β-lactam antibiotics, penicillin G and carbenicillin, as bacterial growth significantly impaired by its deficiency upon treatment with each of the two antibiotics was recovered by chromosomal complementation. Furthermore, by using Galleria mellonella larvae as an in vivo model of Salmonella infection, we demonstrated that Salmonella virulence was remarkably enhanced by YfdX deficiency, which was complemented by a transient expression of the wild-type or dimeric mutant but not by that of the monomeric mutant. The present study work provides direct evidence regarding the participation of YfdX in Salmonella antibiotic susceptibility and in the modulation of bacterial virulence, providing a new insight into this pathogen’s strategies for survival and growth.