gebhart/patrepeval huggingface dataset:
Man, apes, and Old World monkeys differ from other mammals in the expression of alpha-galactosyl epitopes on nucleated cells. (1988)

The study of the expression of alpha-galactosyl epitopes on various mammalian cells is of particular interest, since as much as 1% of circulating IgG antibodies in humans interact with this carbohydrate residue. This natural antibody, designated "anti-Gal," was previously found to bind to terminal Gal alpha 1----3Gal beta 1----4GlcNAc-R on biochemically defined glycolipids (Galili, U., Macher, B. A., Buehler, J., and Shohet, S. B. (1985) J. Exp. Med. 162, 573-582; Galili, U., Buehler, J., Shohet, S. B., and Macher, B. A. (1987) J. Exp. Med. 165, 693-704). The expression of anti-Gal binding epitopes on nucleated cells from various mammalian species was studied by immunostaining with this antibody. The binding of anti-Gal to various cells was correlated with the binding of the lectin Bandeiraea (Griffonia) simplicifolia IB4 (BS lectin). The BS lectin also interacts with alpha-galactosyl residues and particularly with high affinity with Gal alpha 1----3Gal beta 1----4GlcNAc residues. We observed a striking evolutionary pattern in the expression of these epitopes on mammalian nucleated cells. Fibroblasts, epithelial cells, endothelial cells, smooth muscle cells, and lymphoid cells of nonprimate mammals, prosimians, and New World monkeys readily bound both anti-Gal and BS lectin. However, no such binding was detectable on cells of Old World monkeys, apes, and humans. Measurment of the binding of radiolabeled BS lectin to the various nucleated cells suggests that cells binding anti-Gal express 10(6) to 3.5 x 10(7) alpha-galactosyl epitopes, most of which, based on the anti-Gal specificity, seem to have the structure of Gal alpha 1----3Gal beta 1----4GlcNAc-R. The absence of these epitopes from human cells results from diminished activity of the enzyme alpha 1----3 galactosyltransferase, which catalyzes the following reaction. Gal beta 1----4GlcNAc-R + UDP-Gal(alpha 1----3-galactosyltransferase)----Gal alpha 1----3Gal beta 1----4GlcNAc-R + UDP This enzyme, which participates in the glycosylation of cell membrane glycoconjugates in nonprimate mammals, prosimians, and New World monkeys, appears to have been suppressed in Old World primates as a result of evolutionary events which occurred 20-30 million years ago. It is argued that an anomalous activity of this enzyme in man may result in initiation of autoimmune diseases because of the de novo expression of Gal alpha 1----3Gal beta 1----4GlcNAc-R epitopes recognized by anti-Gal.
Computational Study of the Passive Control of the Oblique-Shock-Interaction Flows (2007)

Computational study on the passive control of the oblique shock-wave/turbulent boundary-layer interaction utilizing slotted plates over a cavity has been carried out. The numerical boundary layer profile upstream of the interaction follows the compressible turbulent boundary-layer theory reasonably well, and the other results also show good agreements with the experimental observations, such as the wall surface pressures and Schlieren flow visualizations. Further, the effects of various slot configuration including number, location and angle of the slots on the characteristics of the interactions, such as the variation of the total pressures, the boundary-layer characteristics downstream of the interaction and the recirculating mass flux through the slots, are also tested and compared.
Effects of Tumor Promoters and Cocarcinogens on Growth and Differentiation of Cultured Human Esophageal Epithelial Cells (1987)

The acute effects of 12-O-tetradecanoylphorbol-13-acetate [(TPA) CAS: 56937-68-9], T-2 toxin (CAS: 21259-20-1), capsaicin (CAS: 404-86-4), cigarette smoke condensate (CSC), and ethanol (CAS: 3807-77-0) were examined in secondary cultured human esophageal epithelial cells in serum-free LHC-8 medium. Effects were evaluated by morphology and measurement of clonal growth rate (population doublings per day), cross-linked envelope (CLE) formation, and the enzymatic activities of ornithine decarboxylase (ODC) and plasminogen activator (PA). All compounds tested were inhibitory to clonal growth; concentrations causing 50% growth inhibition were estimated as 10 nM TPA, 6 nM T-2 toxin, 40 microM capsaicin, 8 micrograms CSC/ml, 540 mM ethanol, and 0.8 microgram CSC/ml with 220 mM ethanol. None of the compounds tested induced CLE formation, although calcium ionophore (A23187) could induce CLE in at least 60% of the cells. TPA (10 and 100 nM) decreased the ODC activity of cells, and capsaicin (100 microM) induced ODC by 220%. TPA (1-100 nM) and capsaicin (100 microM) also induced PA activity. Slight increases in ODC activity by CSC (10 micrograms/ml), CSC (1 microgram/ml) with ethanol, and T-2 toxin (1 nM) were observed, but PA activity was not affected by these compounds. The results indicated that the response of human esophageal epithelial cells to TPA is both similar to and different from that reported for human epidermal and bronchial cells in vitro. Enhancement of PA activity and decrease in ODC by TPA are found in all three human epithelial cell types. However, these changes are not associated in esophageal cells with increased CLE formation as reported in studies with the use of bronchial and epidermal epithelial cells. The results from these acute studies provide the basis for designing in vitro carcinogenesis investigations using these agents.
A Phase I Study of Ruxolitinib, Lenalidomide, and Steroids for Patients with Relapsed/Refractory Multiple Myeloma (2020)

This phase I trial demonstrates that a JAK inhibitor, ruxolitinib, can overcome refractoriness to lenalidomide and steroids for patients with RRMM. These results represent a promising novel therapeutic approach for treating multiple myeloma (ClinicalTrials.gov number, NCT03110822).
Diabetes mellitus and coronary artery disease (1996)

University of Alabama at Birmingham School of Medicine, Department of Medicine. Birmingham, Alabama, USA.
Autoimmune diseases in paediatric gastroenterology : proceedings of Falk Symposium 127 (IV International Falk Symposium on Paediatric Gastroenterology) held in Basel, Switzerland, November 8-9, 2001 (2002)

Preface. List of Principal Authors. Section I: Autoimmunity of the Gastrointestinal Tract. 1. Dynamics of T lymphozyte responses: Intermediates, effectors and memory cells A. Lanzavecchia. 2. Gut-oriented immune response and oral tolerance to dietary antigens O. Alpan. 3. Role of molecular mimicry in viral and autoimmune liver disease D. Vergani. 4. Autoantibodies in autoimmune hepatitis W.B. Storch. Section II: Pathology and Clinical Manifestations. 5. Pathology of autoimmune hepatitis D. Huff. 6. Autoimmune hepatitis and sclerosing cholangitis G. Mieli-Vergani. 7. Primary biliary cirrhosis U. Leuschner. Section III: Treatment. 8. Paediatric liver transplantation. Geneva experience from 1989 to 2001 C. Le Coultre. 9. Patient management after paediatric liver transplantation M. Burdelski, et al. 10. De novo autoimmune hepatitis after liver transplantation N. Hadzic, et al. 11. Ursodeoxycholic acid: its cytoprotective action in liver disease E.L. Renner. 12. Alopecia associated with anti-LKM antibody-positive AIH D. Belli. Section IV: Pathology and Aetiology of gut autoimmunity. 13. Acute portal vein thrombosis: treatment by the transjugular approach - A case report M. Rossle. 14. Pathology of ulcerative colitis and Crohn's disease J.-O. Gebbers. Section V: Clinical manifestations and treatment of inflammatory bowel disease. 15. Novel perspective on the possible role of enterocytes in intestinal and systemic autoimmunity E.M. Eisenstein, E. Lebenthal. 16. Long-term outcome of autoimmune enteropathy (AE) P.J. Milla. 17. Aetiology of inflammatory bowel disease A.J. Wakefield. 18. Medical therapies from inflammatory bowel disease: an overview G.R. Lichtenstein. 19. Azathioprine in the treatment of paediatric ulcerative colitis H.K. Harms, et al. 20. Molecular mechanisms of steroid resistance in chronic inflammatory bowel disease H. Bantel, K. Schulze-Osthoff. 21. Treatment with budesonide in inflammatory bowel disease R. Behrens. 22. Clinical outcome of IBD during long-term 5-ASA treatment, and gender-related differences in children F. Hadziselimovic, et al. 23. Anti-TNF strategies in paediatric Crohn's disease C.P. Braegger. 24. Side-effects associated with use of oral budesonide in children and adolescents A. Levine. Section VI: Short presentations of selected topics. Section VII: Mini-posters read by title Case Reports: I: Liver. II: Intestine -- Crohn's disease. III: Intestine: -- Crohn's disease. Index.
Light Signal Transduction in Higher Plants (2004)

Plants utilize several families of photoreceptors to fine-tune growth and development over a large range of environmental conditions. The UV-A/blue light sensing phototropins mediate several light responses enabling optimization of photosynthetic yields. The initial event occurring upon photon capture is a conformational change of the photoreceptor that activates its protein kinase activity. The UV-A/blue light sensing cryptochromes and the red/far-red sensing phytochromes coordinately control seedling establishment, entrainment of the circadian clock, and the transition from vegetative to reproductive growth. In addition, the phytochromes control seed germination and shade-avoidance responses. The molecular mechanisms involved include light-regulated subcellular localization of the photoreceptors, a large reorganization of the transcriptional program, and light-regulated proteolytic degradation of several photoreceptors and signaling components.
Patient-Specific Prosthetic Fingers by Remote Collaboration–A Case Study (2011)

The concealment of amputation through prosthesis usage can shield an amputee from social stigma and help improve the emotional healing process especially at the early stages of hand or finger loss. However, the traditional techniques in prosthesis fabrication defy this as the patients need numerous visits to the clinics for measurements, fitting and follow-ups. This paper presents a method for constructing a prosthetic finger through online collaboration with the designer. The main input from the amputee comes from the Computer Tomography (CT) data in the region of the affected and the non-affected fingers. These data are sent over the internet and the prosthesis is constructed using visualization, computer-aided design and manufacturing tools. The finished product is then shipped to the patient. A case study with a single patient having an amputated ring finger at the proximal interphalangeal joint shows that the proposed method has a potential to address the patient's psychosocial concerns and minimize the exposure of the finger loss to the public.
Crystal structure of an in vivo HIV‐1 protease mutant in complex with saquinavir: Insights into the mechanisms of drug resistance (2000)

Saquinavir is a widely used HIV-1 protease inhibitor drug for AIDS therapy. Its effectiveness, however, has been hindered by the emergence of resistant mutations, a common problem for inhibitor drugs that target HIV-1 viral enzymes. Three HIV-1 protease mutant species, G48V, L90M, and G48V/L90M double mutant, are associated in vivo with saquinavir resistance by the enzyme (Jacobsen et al., 1996). Kinetic studies on these mutants demonstrate a 13.5-, 3-, and 419-fold increase in Ki values, respectively, compared to the wild-type enzyme (Ermolieff J, Lin X, Tang J, 1997, Biochemistry 36:12364-12370). To gain an understanding of how these mutations modulate inhibitor binding, we have solved the HIV-1 protease crystal structure of the G48V/L90M double mutant in complex with saquinavir at 2.6 A resolution. This mutant complex is compared with that of the wild-type enzyme bound to the same inhibitor (Krohn A, Redshaw S, Richie JC, Graves BJ, Hatada MH, 1991, J Med Chem 34:3340-3342). Our analysis shows that to accommodate a valine side chain at position 48, the inhibitor moves away from the protease, resulting in the formation of larger gaps between the inhibitor P3 subsite and the flap region of the enzyme. Other subsites also demonstrate reduced inhibitor interaction due to an overall change of inhibitor conformation. The new methionine side chain at position 90 has van der Waals interactions with main-chain atoms of the active site residues resulting in a decrease in the volume and the structural flexibility of S1/S1' substrate binding pockets. Indirect interactions between the mutant methionine side chain and the substrate scissile bond or the isostere part of the inhibitor may differ from those of the wild-type enzyme and therefore may facilitate catalysis by the resistant mutant.
Cell biology of neuronal endocytosis (1993)

Endocytosis is the process by which cells take in fluid and components of the plasma membrane. In this way cells obtain nutrients and trophic factors, retrieve membrane proteins for degradation, and sample their environment. In neuronal cells endocytosis is essential for the recycling of membrane after neurotransmitter release and plays a critical role during early developmental stages. Moreover, alterations of the endocytic pathway have been attributed a crucial role in the pathophysiology of certain neurological diseases. Although well characterized at the ultrastructural level, little is known of the dynamics and molecular organization of the neuronal endocytic pathways. In this respect most of our knowledge comes from studies of non-neuronal cells. In this review we will examine the endocytic pathways in neurons from a cell biological viewpoint by making comparisons with non-neuronal cells and in particular with another polarized cell, the epithelial cell.
Roles of Macro-actions in Accelerating Reinforcement Learning TITLE2: (1998)

Several researchers have proposed reinforcement learning methods that obtain advantages in learning by using temporally extended actions, or macro-actions, but none has carefully analyzed what these advantages are. In this paper, we separate and analyze two advantages of using macro-actions in reinforcement learning: the effect on exploratory behavior, independent of learning, and the effect on the speed with which the learning process propagates accurate value information. We empirically measure the separate contributions of these two effects in gridworld and simulated robotic environments. In these environments, both effects were significant, but the effect of value propagation was larger. We also compare the accelerations of value propagation due to macro-actions and eligibility traces in the gridworld environment. Although eligibility traces increased the rate of convergence to the optimal value function compared to learning with macro-actions but without eligibility traces, eligibility traces did not permit the optimal policy to be learned as quickly as it was using macro-actions.
3-Methylthiophene Self-Assembled Monolayers on Planar and Nanoparticle Au Surfaces (2005)

In this article the adsorption of 3-methylthiophene on planar and nanoparticle Au surfaces is investigated. The resulting systems are compared with a benchmark system based on 1-decanethiol. The characterization data collected evidence the formation of a packed 3-methylthiophene SAM on the planar surface. In particular, spectroscopic investigations suggest that 3-methylthiophene aromatic system is not adsorbed on the surface through the pi-electron system but rather through the S atom alone. On the other hand, the behavior of 3-methylthiophene on nanoparticle surfaces is notably different from that of the alkanethiol. Only a limited fraction of the surface of Au nanoparticles results to be actually coated after purification; this notwithstanding, the nanoparticle growth seems to be strongly influenced by the presence of such a labile encapsulating agent.
Possible Cardiovascular Hazards of the Alcohol-Calcium Carbimide Interaction (1982)

Healthy volunteers taking ethanol after pretreatment with calcium carbimide, a drug commonly used in treatment of alcoholism, were studied by echocardiography. Marked facial flushing and accumulation of acetaldehyde after ethanol were accompanied by circulatory acceleration corresponding in magnitude to at least moderate physical exercise. The heart rate (+/- SD) rose from 58 +/- 6 to 107 +/- 11 beats/min (p less than .001) the cardiac output from 4.1 +/- 0.6 to 9.4 +/- 1.1 L/min (p less than .001), and the ejection fraction from 70 +/- 3 to 89 +/- 2% (p less than .001). The systolic blood pressure rose initially from 121 +/- 6 to 143 +/- 5 mmHg (p less than .001). The diastolic blood pressure declined from 80 +/- 0 to 51 +/- 13 mmHg (p less than .01), and the estimated peripheral resistance to one-third of its preethanol level (p less than .001). These marked cardiovascular changes suggest that the ethanol-calcium carbimide interaction can be hazardous to alcoholics with ischaemic or other forms of myocardial diseases.
A Demonstration of the RADAR Personal Assistant (2018)

Email clients were not designed to serve as a task management tools, but a high volume of task-relevant information in email leads many people to use email clients for this purpose. Such usage aggravates a user’s experience of email overload and reduces productivity. Prior research systems have sought to address this problem by experimentally adding task management capabilities to email client software. RADAR (Reflective Agents with Distributed Adaptive Reasoning) takes a different approach in which a software agent acts like a trusted human assistant. Many RADAR components employ machine learning to improve their performance. Human participant studies showed a clear impact of learning on user performance metrics.
Antibody-mediated Modulation of Cryptococcus neoformans Infection Is Dependent on Distinct Fc Receptor Functions and IgG Subclasses (1998)

Coupling of an antibody response to effector cells through the Fc region of antibodies is a fundamental objective of effective vaccination. We have explored the role of the Fc receptor system in a murine model of Cryptococcus neoformans protection by infecting mice deleted for the common gamma chain of FcRs. Passive administration of an IgG1 mAb protects FcRgamma+/- mice infected with C. neoformans, but fails to protect FcRgamma-/- mice, indicating that the gamma chain acting through FcgammaRI and/or III is essential for IgG1-mediated protection. In contrast, passive administration of an IgG3 mAb with identical specificity resulted in enhanced pathogenicity in gamma chain-deficient and wild-type mice. In vitro studies with isolated macrophages demonstrate that IgG1-, IgG2a-, and IgG2b-opsonized C. neoformans are not phagocytosed or arrested in their growth in the absence of the FcRgamma chain. In contrast, opsonization of C. neoformans by IgG3 does not require the presence of the gamma chain or of FcRII, and the internalization of IgG3-treated organisms does not arrest fungal growth.
Laser cladding of Mg20Al80 powder on ZM5 magnesium alloy (2007)

AbstractAbstractLaser surface engineering can be used to alter the surface of alloys and produce a fine microstructure, usually improving the corrosion resistance and wear resistance. In the present paper, a CO2 laser was used to melt preplaced Mg20Al80 powder with the objective of improving the corrosion resistance of ZM5 magnesium alloy in sea water solution. The corrosion behaviour of the ZM5 substrate and the laser cladding Mg20Al80 sample was studied with relating to their microstructures. Corrosion was studied in a 3·5 wt-%NaCl solution at pH 7 by observing the corrosion morphology. The results showed that the Mg17Al12 acted as galvanic cathode in both the ZM5 substrate and the cladding layer. The enhanced corrosion resistance was attributed to the fine dispersion of intermetallic phases and extended Al solid solutions by laser rapid solidification.Keywords: LASER CLADDINGMAGNESIUM ALLOYGALVANIC CORROSION
A Mouse Model of Ischemic Spinal Cord Injury with Delayed Paralysis Caused by Aortic Cross-clamping (2010)

This new model should prove useful as a preclinical tool for screening neuroprotective therapeutics and for defining the basic biologic mechanisms that cause delayed paralysis and neurodegeneration after transient spinal cord ischemia.
THE HEAT-SHOCK RESPONSE (1986)

The Hippo pathway was initially discovered in Drosophila melanogaster as a key regulator of tissue growth. It is an evolutionarily conserved signaling cascade regulating numerous biological processes, including cell growth and fate decision, organ size ...Read More
Effect of regional‐scale transport on oxidants in the vicinity of Philadelphia during the 1999 NE‐OPS field campaign (2002)

A new meteorological‐chemical model is used to determine the relative contribution of regional‐scale transport and local photochemical production on air quality over Philadelphia. The model performance is evaluated using surface and airborne meteorological and chemical measurements made during a 30‐day period in July and August of 1999 as part of the Northeast Oxidant and Particulate Study (NE‐OPS). Good agreement between the simulations and observations was obtained. The bias in the vicinity of Philadelphia over the simulation period was −5.8 ppb for the peak ozone mixing ratio during the day and 2.0 ppb for the minimum ozone mixing ratio at night. Layers of ozone above the convective boundary layer were measured by both research aircraft and ozonesondes during the morning between 0900 and 1100 LT. The model demonstrates that upwind vertical mixing processes the previous afternoon, subsequent horizontal transport aloft, and depletion of ozone by NO titration within the stable boundary layer at night lead to the development of these layers. Ozone aloft was then entrained into the growing convective boundary, contributing to surface ozone concentrations. Through a series of sensitivity studies, we find that most of the ozone is the result of emissions in the vicinity of Philadelphia and Chesapeake Bay area, but up to 30–40% of the ozone during high ozone episodes was due to transport from upwind sources. Local emissions and meteorological conditions were largely responsible for one high ozone episode because of light winds.