gebhart/patrepeval huggingface dataset:
Apoptosis in cancer: from pathogenesis to treatment (2011)

Apoptosis is an ordered and orchestrated cellular process that occurs in physiological and pathological conditions. It is also one of the most studied topics among cell biologists. An understanding of the underlying mechanism of apoptosis is important as it plays a pivotal role in the pathogenesis of many diseases. In some, the problem is due to too much apoptosis, such as in the case of degenerative diseases while in others, too little apoptosis is the culprit. Cancer is one of the scenarios where too little apoptosis occurs, resulting in malignant cells that will not die. The mechanism of apoptosis is complex and involves many pathways. Defects can occur at any point along these pathways, leading to malignant transformation of the affected cells, tumour metastasis and resistance to anticancer drugs. Despite being the cause of problem, apoptosis plays an important role in the treatment of cancer as it is a popular target of many treatment strategies. The abundance of literature suggests that targeting apoptosis in cancer is feasible. However, many troubling questions arise with the use of new drugs or treatment strategies that are designed to enhance apoptosis and critical tests must be passed before they can be used safely in human subjects.
Fish Oil Prevents Insulin Resistance Induced by High-Fat Feeding in Rats (1987)

Non-insulin-dependent diabetes mellitus is an increasingly prevalent disease in Western and developing societies. A major metabolic abnormality of non-insulin-dependent diabetes is impaired insulin action (insulin resistance). Diets high in fat from vegetable and nonaquatic animal sources (rich in linoleic acid, an omega-6 fatty acid, and saturated fats) lead to insulin resistance. In rats fed high-fat diets, replacement of only 6 percent of the linoleic omega-6 fatty acids from safflower oil with long-chain polyunsaturated omega-3 fatty acids from fish oil prevented the development of insulin resistance. The effect was most pronounced in the liver and skeletal muscle, which have important roles in glucose supply and demand. The results may be important for therapy or prevention of non-insulin-dependent diabetes mellitus.
Evidence for a Role of Salicylic Acid in the Oxidative Damage Generated by NaCl and Osmotic Stress in Arabidopsis Seedlings (2001)

Previous studies have shown that salicylic acid (SA) is an essential component of the plant resistance to pathogens. We now show that SA plays a role in the plant response to adverse environmental conditions, such as salt and osmotic stresses. We have studied the responses of wild-type Arabidopsis and an SA-deficient transgenic line expressing a salicylate hydroxylase (NahG) gene to different abiotic stress conditions. Wild-type plants germinated under moderate light conditions in media supplemented with 100 mM NaCl or 270 mM mannitol showed extensive necrosis in the shoot. In contrast, NahG plants germinated under the same conditions remained green and developed true leaves. The lack of necrosis observed in NahG seedlings under the same conditions suggests that SA potentiates the generation of reactive oxygen species in photosynthetic tissues during salt and osmotic stresses. This hypothesis is supported by the following observations. First, the herbicide methyl viologen, a generator of superoxide radical during photosynthesis, produced a necrotic phenotype only in wild-type plants. Second, the presence of reactive oxygen-scavenging compounds in the germination media reversed the wild-type necrotic phenotype seen under salt and osmotic stress. Third, a greater increase in the oxidized state of the glutathione pool under NaCl stress was observed in wild-type seedlings compared with NahG seedlings. Fourth, greater oxidative damage occurred in wild-type seedlings compared with NahG seedlings under NaCl stress as measured by lipid peroxidation. Our data support a model for SA potentiating the stress response of the germinating Arabidopsis seedling.
Blood Concentration of Coenzyme Q10 Increases in Rats When Esterified Forms Are Administered (1999)

Coenzyme Q levels decrease during aging in most tissues and in the target organs of a number of diseases. The uptake of this lipid into the blood and other tissues was investigated in 6-wk-old male Sprague-Dawley rats after 3 wk of dietary supplementation. In addition to the natural form of coenzyme Q(10), acetylated and succinylated forms were also administered. Coenzyme Q(10) was taken up into the blood, but uptake was significantly greater in rats given the succinylated ( approximately 40%), and particularly, the acetylated forms ( approximately 70%). All three forms increased significantly the total coenzyme Q concentration in both the liver ( approximately 100%) and spleen ( approximately 130%). Coenzyme Q(10) and its esterified forms were not taken up into kidney, heart, muscle or brain. Intraportal and intraperitoneal administration of succinylated coenzyme Q(10) gave results similar to those obtained in the dietary experiments. Uptake of the dietary coenzyme Q(10) into the liver and spleen did not down-regulate the endogenous synthesis, i.e., the amounts of isolated coenzyme Q(9) did not change in these tissues. Thus, esterification of coenzyme Q increases the uptake of dietary lipid into the blood; however, the derivatization does not contribute to the elevation of coenzyme Q levels in various organs.
Proteoglycan distribution in lesions of atherosclerosis depends on lesion severity, structural characteristics, and the proximity of platelet-derived growth factor and transforming growth factor-beta. (1998)

The accumulation of proteoglycans (PGs) in atherosclerosis contributes to disease progression and stenosis and may partly depend on local regulation by growth factors such as platelet-derived growth factor (PDGF) and transforming growth factor (TGF)-beta. In this study, the distribution of the major extracellular PGs is compared with that of PDGF and TGF-beta isoforms in developing lesions of atherosclerosis from hypercholesterolemic nonhuman primates. Strong immunostaining for decorin, biglycan, versican, and hyaluronan is observed in both intermediate and advanced lesions. Perlecan staining is weak in intermediate lesions but strong in advanced lesions in areas bordering the plaque core. Immunostaining for PDGF-B and TGF-beta1 is particularly prominent in macrophages in intermediate and advanced lesions. In contrast, TGF-beta2 and TGF-beta3 and PDGF-A are present in both macrophages and smooth muscle cells. Overall, PG deposits parallel areas of intense growth factor immunostaining, with trends in relative localization that suggest interrelationships among certain PGs and growth factors. Notably, decorin and TGF-beta1 are distributed similarly, predominantly in the macrophage-rich core, whereas biglycan is prominent in the smooth muscle cell matrix adjoining TGF-beta1-positive macrophages. Versican and hyaluronan are enriched in the extracellular matrix adjacent to both PDGF- and TGF-beta1-positive cells. These data demonstrate that PG accumulation varies with lesion severity, structural characteristics, and the proximity of PDGF and TGF-beta.
Cytotoxic Effects of Streptolysin O and Streptolysin S Enhance the Virulence of Poorly Encapsulated Group A Streptococci (2002)

Although the toxicity of streptolysin O (SLO) and streptolysin S (SLS) in purified group A streptococci (GAS) has been established, the effect of these molecules in natural infection is not well understood. To identify whether biologically relevant concentrations of SLO and SLS were cytotoxic to epithelial and phagocytic cells that the bacteria would typically encounter during human infection and to characterize the influence of cell injury on bacterial pathogenesis, we derived GAS strains deficient in SLO or SLS in the background of an invasive GAS M3 isolate and determined their virulence in in vitro and in vivo models of human disease. Whereas bacterial production of SLO resulted in lysis of both human keratinocytes and polymorphonuclear leukocytes, GAS expression of SLS was associated only with keratinocyte injury. Expression of SLO but not SLS impaired polymorphonuclear leukocyte killing of GAS in vitro, but this effect could only be demonstrated in the background of acapsular organisms. In mouse invasive soft-tissue infection, neither SLO or SLS expression significantly influenced mouse survival. By contrast, in a mouse model of bacterial sepsis after intraperitoneal inoculation of GAS, SLO expression enhanced the virulence of both encapsulated and acapsular GAS, whereas SLS expression increased the virulence only of acapsular GAS. We conclude that the cytotoxic effects of SLO protect GAS from phagocytic killing and enhance bacterial virulence, particularly of strains that may be relatively deficient in hyaluronic acid capsule. Compared to SLO, SLS in this strain background has a more modest influence on GAS pathogenicity and the effect does not appear to involve bacterial resistance to phagocytosis.
ChemInform Abstract: 1‐Methoxy‐agroclavine from Penicillium sp. WC75209, a Novel Inhibitor of the Lck Tyrosine Kinase. (1998)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Wireless Readout of Passive LC Sensors (2009)

This paper reports simple yet precise equations for automated wireless measurement of the resonance frequency, <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$Q$</tex></formula> -factor, and coupling coefficient of inductively coupled passive resonant <emphasis emphasistype="italic" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">LC</emphasis> circuits. This allows remote sensing of all physical and chemical quantities that can be measured with capacitance transducers. Formerly reported front-end circuit concepts for wireless sensor readout, i.e., phase dip measurement and the dip meter, are subsequently discussed. It is shown that, due to fundamental system limitations, the formerly reported circuit concepts are not applicable if the distance between the sensor and the readout electronic circuit becomes too small, resulting in large coupling coefficients. Therefore, we present an improved concept for an analog front-end circuit of the readout system that overcomes these limitations and hence allows wireless sensor readout under a wider range of operating distances.
Comparison of four techniques for the fixation of a collagen scaffold in the human cadaveric knee (2006)

SA of tested scaffold did not provide sufficient fixation. The FS fixation was easy to perform and assured satisfactory scaffold stability. BS and PC provided excellent scaffold stability, but the techniques were difficult and caused additional injuries. Regardless of the fixation technique used, the tested collagen scaffold may not be exposed to loading in the initial postoperative period.
The Cytotoxicity of Duocarmycin Analogues is Mediated through Alkylation of DNA, not Aldehyde Dehydrogenase 1: A Comment (2013)

The answer lies in the DNA: Recent claims that the alkylation of a particular protein contributes to the cytotoxicity of the duocarmycins could not be substantiated. The evidence, like the fluorescent signal derived from a clickable analogue, points instead to a reaction occurring in the nucleus.
Amelioration of oxidative stress by antioxidants and resveratrol in PC12 cells (1997)

The goal of this study was to investigate the effect of resveratrol, an active ingredient found in grapes and other plant products, in ameliorating oxidative stress. Oxidative stress was induced by addition of Fe2+ and t-butyl hydroperoxide to the cultured PC12 cell medium. Resveratrol, vitamins C and/or E, were added to the cell culture medium during oxidative stress. The combination of resveratrol and vitamins C and/or E was more effective in protecting the cell than was any of these three antioxidants alone.
A scalable and highly available web server (2002)

We describe a prototype scalable and highly available web server, built on an IBM SP-2 system, and analyze its scalability. The system architecture consists of a set of logical front-end or network nodes and a set of back-end or data nodes connected by a switch, and a load balancing component. A combination of TCP routing and Domain Name Server (DNS) techniques are used to balance the load across the Front-end nodes that run the Web (httpd) daemons. The scalability achieved is quantified and compared with that of the known DNS technique. The load on the back-end nodes is balanced by striping the data objects across the back-end nodes and disks. High availability is provided by detecting node or daemon failures and reconfiguring the system appropriately. The scalable and highly available web server is combined with parallel databases, and other back-end servers, to provide integrated scalable and highly available solutions.
The isolation and properties of a second glycoprotein (LGP-II) from the articular lubricating fraction from bovine synovial fluid (1979)

A high-molecular-weight glycoprotein (LGP-I) was shown [Swann, Sotman, Dixon &amp; Brooks (1977) Biochem. J. 161, 473–485] to be the major constituent in the articular lubricating fraction from bovine synovial fluid. In addition to the LGP-I component, a second glycoprotein (LGP-II) was also present. After fractionation of bovine synovial fluid by sequential sedimentation in CsCl density gradients, the LGP-I and LGP-II components were separated by gel-permeation chromatography. The LGP-II component was then purified by chromatography on DEAE Bio-Gel A and Bio-Gel P-150. The molecular weight of the LGP-II component was 48,800 calculated from sedimentation-equilibrium measurements. Amino acids represented 53% (w/w) and carbohydrate constituents 36% (w/w) of the molecule. Glutamic acid and lysine (144 and 100 residues/1000 residues) were the major amino acids. Glucosamine, mannose, galactose and N-acetylneuraminic acid [representing 8.0, 6.6, 9.5 and 11.9% (w/w) respectively] were the only carbohydrate constituents detected. Immunodiffusion analysis showed that LGP-II component did not form a detectable precipitin line with antiserum to bovine serum. It appears likely, therefore, that this glycoprotein is synthesized by the joint tissues and is not derived from serum.
Role of Human Pulp Fibroblasts in Angiogenesis (2006)

After pulp amputation, complete pulp healing requires not only reparative dentin production but also fibroblast proliferation, nerve fiber growth, and neoangiogenesis. This study was designed to investigate the role of pulp fibroblasts in angiogenesis. Human pulp fibroblasts from third molars co-cultured with human umbilical vein endothelial cells induced the organization of endothelial cells and the formation of tubular structures corresponding to capillaries in vivo. The direct contact between both cells was not necessary to induce angiogenesis, and the observed effect was due to soluble factors. This was confirmed with neutralizing antibodies against FGF-2 and VEGF, which decreased the angiogenic effects of these soluble factors. Immunohistochemistry showed that both FGF-2 and VEGF were expressed in human dental pulp fibroblasts, and this expression increased after injury. These results suggest that the pulp fibroblasts secrete angiogenic factors, which are necessary for complete pulp healing, particularly at the pulp injury site.
ChemInform Abstract: Stereo‐ and Regiochemistries of the Oxidations of 2‐Methoxy‐5‐tert.‐butyl‐1,3,2‐dioxaphosphorinanes and the Cyclic Methyl 3′,5′‐Phosphite of Thymidine by H2O/I2 and O2/AIBN to P‐Chiral Phosphates. 17O NMR Assignment of Phosphorus Configuration to the Diastereomeric Thymidine Cyclic Methyl 3′,5′‐Monophosphates. (1989)

Abstract The O2/AIBN oxidation of the simple system (I) and the thymidine‐based phosphite (III) is highly regio‐ and stereospecific, proceeding with retention of configuration at phosphorus and in yields equivalent to those obtained with the classical I2/H2O method.
Use of 8-methoxypsoralen and ultraviolet-A pretreated platelet concentrates to prevent alloimmunization against class I major histocompatibility antigens (1991)

The use of 8-methoxypsoralen (8-MOP) and UV-A irradiation to inactivate contaminating donor leukocytes in platelet concentrates and to prevent primary alloimmunization against donor class I major histocompatibility (MHC) antigens in mice was investigated. CBA/CaH-T6J mice with the H2k haplotype and BALB/cByJ mice with the H2d haplotype were used as donors and recipients, respectively. The mixed leukocyte reaction between these two strains of mice showed that treatment of spleen cells with 500 ng/mL 8-MOP and 5J/cm2 UV-A inhibited 99% of responder and 92% of stimulator function. There was no measurable loss of platelet aggregating activity after the treatment. After two weekly transfusions of platelets without any treatment, 93% of control mice (n = 15) developed anti-H2k antibody. In contrast, only 33% of mice (n = 15) receiving platelets treated with 8-MOP and UV-A became alloimmunized. After six weekly platelet transfusions, all mice became alloimmunized. Nevertheless, the mean titers of anti-H2k antibody in sera of the treated groups were significantly lower than the control groups. One hour posttransfusion recoveries of 51Cr-labeled donor platelets were also higher in mice transfused with the treated platelets. Thus, the pretreatment of platelet concentrates with 8-MOP and UV-A irradiation effectively reduced the alloantigenicity of class I MHC molecules. The implication of this finding in relation to the mechanism by which donor leukocytes allosensitize recipients is discussed.
An introduction to organosulfur chemistry (1996)

Structure and Bonding in Sulfur and Organosulfur Compounds. Synthesis of Organosulfur Compounds. Structure-Chemical Relationships in Organosulfur Compounds. Thiols, Sulfides and Sulfenic Acids. Sulfoxides and Sulfones. Sulfonium and Oxosulfonium Salts, Sulfur Ylides and Sulfenyl Carbanions. Sulfinic Acids, Sulfonic Acids and Derivatives Sulfenes. Thiocarbonyl Compounds. Miscellaneous Organosulfur Compounds. The Utility of Organosulfur Compounds in Organic Synthesis. Uses of Organosulfur Compounds. Index.
Action of cytochalasin D on cells of established lines. III. Zeiosis and movements at the cell surface. (1975)

The projection of knobby protuberances at the cell surface (zeiosis) is a general cellular response to cytochalasin D (CD), resulting from herniation of endoplasm through undefended places of the cortex during cell contractions and displacement of microfilaments induced by CD. Zeiosis is prevented by agents that interfere with the contractile response to CD, such as inhibitors of energy metabolism or cyclic AMP. The developed protrusions, which remain relatively stable in the presence of CD, contain chiefly mono- or subribosomes, and occasionally other organelles normally resident in endoplasm; compact microfilament felt occupies their bases and extends into their proximal stalks. Protein synthesis in the knobs is less than half of that in the polyribosome-containing endoplasm residual in the main body of the cell. Knobs first protrude singly near the margin of the contracting cells and rapidly cluster into small groups in the periphery even at lower temperature. The clusters then migrate centripetally and coalesce into a large aggregate near the apex of the immobilized and retracted cell: this movement is energy- and temperature-dependent. Aggregation is more prominent and stable in cell lines of epithelial derivation than in fibroblastic or other lines in which nuclear extrusion occurs more readily. The latter is regarded as a special manifestation of zeiosis. Macromarkers, such as latex spherules, migrate like the zeiotic knobs on the cell surfaces in the presence of CD. The aggregated knobs, although persistent for days in the presence of CD, are rapidly recessed after withdrawal of the agent as ruffling is resumed and the cells spread. These movements are discussed in terms of current concepts of mobility of the cell membrane.
Kinetics of Cryptosporidium parvum sporozoite neutralization by monoclonal antibodies, immune bovine serum, and immune bovine colostrum (1990)

Monoclonal antibodies, immune bovine serum, and immune bovine colostral whey neutralized infectivity of Cryptosporidium parvum sporozoites for mice in a time-dependent manner. Immune colostral whey neutralized sporozoites more rapidly and completely than immune serum, monoclonal antibody (MAb) 18.44, or a combination of MAb 18.44 and MAb 17.41. Mice were partially protected against oral challenge with C. parvum oocytes when treated with immune colostral whey, MAb 17.41, or a combination of MAb 17.41 and MAb 18.44.
Model-based interpretation of time-ordered medical data (1989)

Time-ordered data often contain implications that physicians infer only by recognizing subtle temporal patterns. This dissertation is concerned with representing and using medical knowledge about temporal relationships so that decision-support programs can deduce abstract clinical concepts that appear as temporal patterns in time-ordered clinical observations.
Computational models of time that are based on a single representational method are limited by the expressive power of the chosen method. I propose that combining multiple temporal formalisms facilitates the creation of robust temporal models. The use of multiple modeling techniques permits each method to represent those temporal relationships that are best expressed within a particular formalism.
This dissertation proposes a methodology for interpreting time-ordered clinical data using a combination of numeric and symbolic techniques. The methodology proposes three transformations: (1) model-based transformation of time-ordered observations into underlying concepts, (2) interval-based transformation of dynamic model predictions into domain-specific temporal abstractions, and (3) state-based transformation of temporal abstractions into clinically meaningful discourse fragments. The temporal model used to convert observations into underlying system (patient) concepts encodes physiological process knowledge. The temporal model used to convert model-based predictions into temporal abstractions encodes domain-specific event knowledge. These two temporal models differ in the temporal structure they assume and in the temporal concepts they encode. Without multiple temporal models, this diversity of temporal knowledge could not be represented.
Effective medical decision making demands that physicians recognize and exploit the complex temporal changes that permeate the medical record. In this dissertation, I examine the temporal features of time-ordered clinical data in the context of summarizing a patient's medical record. I have demonstrated the three-transformation methodology in a computer program, call TOPAZ, that summarizes the clinical course of individual patients who are receiving experimental cancer chemotherapy.