gebhart/patrepeval huggingface dataset:
Insights into the Mode of Action of Chitosan as an Antibacterial Compound (2008)

Chitosan is a polysaccharide biopolymer that combines a unique set of versatile physicochemical and biological characteristics which allow for a wide range of applications. Although its antimicrobial activity is well documented, its mode of action has hitherto remained only vaguely defined. In this work we investigated the antimicrobial mode of action of chitosan using a combination of approaches, including in vitro assays, killing kinetics, cellular leakage measurements, membrane potential estimations, and electron microscopy, in addition to transcriptional response analysis. Chitosan, whose antimicrobial activity was influenced by several factors, exhibited a dose-dependent growth-inhibitory effect. A simultaneous permeabilization of the cell membrane to small cellular components, coupled to a significant membrane depolarization, was detected. A concomitant interference with cell wall biosynthesis was not observed. Chitosan treatment of Staphylococcus simulans 22 cells did not give rise to cell wall lysis; the cell membrane also remained intact. Analysis of transcriptional response data revealed that chitosan treatment leads to multiple changes in the expression profiles of Staphylococcus aureus SG511 genes involved in the regulation of stress and autolysis, as well as genes associated with energy metabolism. Finally, a possible mechanism for chitosan's activity is postulated. Although we contend that there might not be a single classical target that would explain chitosan's antimicrobial action, we speculate that binding of chitosan to teichoic acids, coupled with a potential extraction of membrane lipids (predominantly lipoteichoic acid) results in a sequence of events, ultimately leading to bacterial death.
Mass Spectrometry Protocol for the Absolute Quantification of a Monoclonal Antibody in Serum with Immunopurification (2013)

We present here an analytical protocol for the sensitive, specific, and accurate absolute quantification of cetuximab, a human:murine chimeric monoclonal antibody, using mass spectrometry. Extraction from human serum is performed with micrometric magnetized beads, functionalized with soluble epidermal growth factor receptor (sEGFR), the pharmacological target of cetuximab. This specific immunocapture step allows sample purification and, in parallel, assessment of the antibody's biological potency. The eluted mAb is digested with trypsin and specific peptides from light and heavy chains are monitored by liquid chromatography coupled with tandem mass spectrometry operated in the selected reaction monitoring (SRM) mode. The limit of quantification of the assay was 20 ng/mL in serum.
Ultra-thin EBL (encapsulated barrier layer) for ferroelectric capacitor (2002)

A new EBL (encapsulating barrier layer), Al/sub 2/O/sub 3/, was developed in order to preserve the excellent ferroelectric characteristics of PZT capacitors throughout the integration process of FRAMs. From the fully working double-level metal, one-poly, 1T/1C 64 k PZT FRAM, Al/sub 2/O/sub 3/ films with thickness in the range of 60 /spl Aring/ to 100 /spl Aring/ showed excellent barrier properties against the hydrogen attack, reaction between PZT film and IMD, and out diffusion of the volatile component in the capacitor. Moreover, the excellent insulating properties of ultra-thin Al/sub 2/O/sub 3/ EBL offered the reduction of one photo/etch step during the full integration process, which required for the conventional TiO/sub 2/ one.
Local output feedback stabilization of reaction–diffusion PDEs with saturated measurement (2022)

Abstract This paper addresses the topic of output feedback stabilization of general one-dimensional reaction–diffusion partial differential equations (PDEs) in the presence of a saturation in the measurement. The boundary control and the second boundary condition take the form of Dirichlet/Neumann/Robin boundary conditions. The measurement is selected as a boundary Dirichlet trace. The boundary measurement, as available for feedback control, is assumed to be subject to a saturation. In this context, we achieve the local exponential stabilization of the reaction–diffusion PDE while estimating a subset of the domain of attraction of the origin.
ChemInform Abstract: UMWANDLUNG VON PENICILLIN‐SULFOXIDEN IN CEPHALOSPORINE DURCH AZO‐VERBINDUNGEN (1973)

Abstract In Gegenwart von a/E‐Azo‐bis‐(N‐methylformamid) reagieren die Penicillin (I) bei 100 ‐ 1 10°C in Dimethylacetamid zu den Cephemen (II), die in 30 ‐ 4′O%iger Ausbeute erhalten werden.
Tropopause‐level thin cirrus coverage revealed by ICESat/Geoscience Laser Altimeter System (2006)

We analyze the distribution of thin (optical depth &lt; 0.40) cirrus in the tropics at potential temperatures of 360, 370, 377.5, and 400 K, which are levels that bracket the tropical tropopause. The observations were obtained between 29 September and 17 November 2003 by the Geoscience Laser Altimeter System (GLAS), carried on board the Ice, Cloud, and land Elevation Satellite (ICESat). The GLAS data show that these thin, near‐tropopause cirrus (TNTC) occur over broad regions of the latitude range 20°S to 30°N, with distinct maxima collocated with regions of intense convection, and that TNTC occurrence frequency decreases strongly with increasing altitude. At 377.5 K, approximately the level of the tropical tropopause, TNTC frequency over convection is two to six times larger than in the so‐called “cold pool,” the climatological temperature minimum located over the equatorial western Pacific where it has been suggested that dehydration of air entering the stratosphere is occurring. Comparisons between assimilated temperatures, outgoing longwave radiation (a proxy for deep convection), and TNTC frequency show that TNTC can be found where assimilated temperatures are low and deep convection is occurring. We find that assimilated temperatures, by themselves, are incomplete predictors of TNTC locations.
Effect of Solar Radiation on Severity of Soybean Rust (2012)

Soybean rust (SBR), caused by Phakopsora pachyrhizi, is a damaging fungal disease of soybean (Glycine max). Although solar radiation can reduce SBR urediniospore survival, limited information is available on how solar radiation affects SBR progress within soybean canopies. Such information can aid in developing accurate SBR prediction models. To manipulate light penetration into soybean canopies, structures of shade cloth attenuating 30, 40, and 60% sunlight were constructed over soybean plots. In each plot, weekly evaluations of severity in lower, middle, and upper canopies, and daily temperature and relative humidity were recorded. Final plant height and leaf area index were also recorded for each plot. The correlation between amount of epicuticular wax and susceptibility of leaves in the lower, middle, and upper canopies was assessed with a detached leaf assay. Final disease severity was 46 to 150% greater in the lower canopy of all plots and in the middle canopy of 40 and 60% shaded plots. While daytime temperature within the canopy of nonshaded soybean was greater than shaded soybean by 2 to 3°C, temperatures recorded throughout typical evenings and mornings of the growing season in all treatments were within the range (10 to 28.5°C) for SBR development as was relative humidity. This indicates temperature and relative humidity were not limiting factors in this experiment. Epicuticular wax and disease severity in detached leaf assays from the upper canopy had significant negative correlation (P = 0.009, R = -0.84) regardless of shade treatment. In laboratory experiments, increasing simulated total solar radiation (UVA, UVB, and PAR) from 0.15 to 11.66 MJ m(-2) increased mortality of urediniospores from 2 to 91%. Variability in disease development across canopy heights in early planted soybean may be attributed to the effects of solar radiation not only on urediniospore viability, but also on plant height, leaf area index, and epicuticular wax, which influence disease development of SBR. These results provide an understanding of the effect solar radiation has on the progression of SBR within the soybean canopy.
HIV drug resistance: problems and perspectives (2012)

Access to combination antiretroviral treatment (ART) has improved greatly over recent years. At the end of 2011, more than eight million HIV infected people were receiving antiretroviral therapy in low-income and middle-income countries. ART generally works well in keeping the virus suppressed and the patient healthy. However, treatment only works as long as the virus is not resistant against the drugs used. In the last decades, HIV treatments have become better and better at slowing down the evolution of drug resistance, so that some patients are treated for many years without having any resistance problems. However, for some patients, especially in low-income countries, drug resistance is still a serious threat to their health. This essay will review what is known about transmitted and acquired drug resistance, multi-class drug resistance, resistance to newer drugs, resistance due to treatment for the prevention of mother-to-child transmission, the role of minority variants (low-frequency drug-resistance mutations), and resistance due to pre-exposure prophylaxis.
T and B cell Tolerance and Responses to Viral Antigens in Transgenic Mice: Implications for the Pathogenesis of Autoimmune versus Immunopathological Disease (1991)

Experiments with transgenic mice illustrate clonal elimination of T cells specific for antigens expressed appropriately in the thymus, but presence of inducible T cells when the antigen presented on class I MHC antigens is expressed exclusively on non-lymphohemopoietic cells in the periphery (pancreatic beta islet cells). TCR-transgenic LCMV-carrier mice expressing LCMV in the thymus exhibit clonal elimination at the early CD4+8+ thymocyte stage, causing CTL unresponsiveness in these mice. In contrast, studies with RIP LCMV-GP-transgenic mice (expressing GP in pancreatic beta cells) and with TCR-RIP LCMV-GP double-transgenic mice show that CTL reactivity is normal. These experiments argue against so-called peripheral anergy of class I MHC antigen-restricted cytotoxic T cells as a general mechanism of peripheral immunological tolerance to self. They reveal that self epitopes that are genetically self and presented by class I antigens may not be considered immunologically self if expressed solely extrathymically, despite the fact that they are antigenic and can be recognized by induced effector T cells. Genetic self that is presented on cells which can induce neither tolerance nor an immune response is immunologically dealt with as foreign and therefore may be called nonimmunological self. Appropriate presentation of the same epitope on antigen-presenting cells promptly induces effector T cells and causes disease; such disease should not be called autoimmune because it is an immunopathological T-cell mediated disease, comparable to an unfavorably balanced immunopathological T-cell response to a virus. Mechanisms that control autoantibody responses were studied in mice expressing a viral transgene. Such mice generate neutralizing antiviral autoantibody responses only when the transgenic viral antigen is linked to a foreign T-helper determinant. These findings, therefore, document differences in levels of T- vs B-cell tolerance (so-called split tolerance) under a given expression level of a "self" antigen. They illustrate how unresponsiveness of B cells to produce T-independent IgM is dose-dependent and that IgG autoantibodies are triggered by introducing foreign T-helper determinants that can be recognised in a linked fashion. This model suggests that, while T-cell tolerance to tolerogenic self in the thymus is solid, B-cell tolerance in general is not. From the point of view of autoantibody responses these T-helper cells may also be called immunopathological; i.e., these T-helper cells are specific for foreign epitopes that, via linked recognition, trigger truly autoimmune B cells.(ABSTRACT TRUNCATED AT 400 WORDS)
A Simple and Efficient Method for the Preparation of Hindered Alkyl−Aryl Ethers (1998)

ADVERTISEMENT RETURN TO ISSUEPREVNoteNEXTA Simple and Efficient Method for the Preparation of Hindered Alkyl−Aryl EthersThomas F. Woiwode, Christoph Rose, and Thomas J. WandlessView Author Information Department of Chemistry, Stanford University, Stanford, California 94305-5080 Cite this: J. Org. Chem. 1998, 63, 25, 9594–9596Publication Date (Web):November 19, 1998Publication History Received13 August 1998Published online19 November 1998Published inissue 1 December 1998https://pubs.acs.org/doi/10.1021/jo981647thttps://doi.org/10.1021/jo981647tbrief-reportACS PublicationsCopyright © 1998 American Chemical SocietyRequest reuse permissionsArticle Views2548Altmetric-Citations60LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Alcohols,Anions,Aromatic compounds,Ethers,Substitution reactions Get e-Alerts
Bioluminescence tracking of alginate micro-encapsulated cell transplants (2014)

Cell-based therapies to treat loss-of-function hormonal disorders such as diabetes and Parkinson's disease are routinely coupled with encapsulation strategies, but an understanding of when and why grafts fail in vivo is lacking. Consequently, investigators cannot clearly define the key factors that influence graft success. Although bioluminescence is a popular method to track the survival of free cells transplanted in preclinical models, little is known of the ability to use bioluminescence for real-time tracking of microencapsulated cells. Furthermore, the impact that dynamic imaging distances may have, due to freely-floating microcapsules in vivo, on cell survival monitoring is unknown. This work addresses these questions by applying bioluminescence to a pancreatic substitute based on microencapsulated cells. Recombinant insulin-secreting cells were transduced with a luciferase lentivirus and microencapsulated in Ba<sup>2+</sup> crosslinked alginate for in vitro and in vivo studies. In vitro quantitative bioluminescence monitoring was possible and viable microencapsulated cells were followed in real time under both normoxic and anoxic conditions. Although in vivo dispersion of freely-floating microcapsules in the peritoneal cavity limited the analysis to a qualitative bioluminescence evaluation, signals consistently four orders of magnitude above background were clear indicators of temporal cell survival. Strong agreement between in vivo and in vitro cell proliferation over time was discovered by making direct bioluminescence comparisons between explanted microcapsules and parallel in vitro cultures. Broader application of this bioluminescence approach to retrievable transplants, in supplement to currently used end-point physiological tests, could improve understanding and accelerate development of cell-based therapies for critical clinical applications. Copyright © 2014 John Wiley & Sons, Ltd.
Diels–Alder Reaction of Thiophene: Dramatic Effects of High‐Pressure/Solvent‐Free Conditions (2004)

The extraordinary power of high-pressure/solvent-free conditions for the Diels–Alder reaction of thiophene has been established. For example, maleic anhydride (X=O) reacted with thiophene at 0.8 GPa and 100 °C to give the desired exo adduct in almost quantitative yield (see scheme). Further application of this method to maleimide (X=NR) and acrylic dienophiles demonstrated its remarkable potential.
Erlotinib antagonizes ABC transporters in acute myeloid leukemia (2012)

Erlotinib was originally developed as an epidermal growth factor receptor (EGFR)-specific inhibitor for the treatment of solid malignancies, yet also exerts significant EGFR-independent antileukemic effects in vitro and in vivo. The molecular mechanisms underlying the clinical antileukemic activity of erlotinib as a standalone agent have not yet been precisely elucidated. Conversely, in preclinical settings, erlotinib has been shown to inhibit the constitutive activation of SRC kinases and mTOR, as well as to synergize with the DNA methyltransferase inhibitor azacytidine (a reference therapeutic for a subset of leukemia patients) by promoting its intracellular accumulation. Here, we show that both erlotinib and gefitinib (another EGFR inhibitor) inhibit transmembrane transporters of the ATP-binding cassette (ABC) family, including P-glycoprotein (P-gp), multidrug resistance-associated proteins (MRPs) and breast cancer resistance protein (BCRP), also in acute myeloid leukemia (AML) cells that do not overexpress these pumps. Thus, inhibition of drug efflux by erlotinib and gefitinib selectively exacerbated (in a synergistic or additive fashion) the cytotoxic response of KG-1 cells to chemotherapeutic agents that are normally extruded by ABC transporters (e.g., doxorubicin and etoposide). Erlotinib limited drug export via ABC transporters by multiple mechanisms, including the downregulation of surface-exposed pumps and the modulation of their ATPase activity. The effects of erlotinib on drug efflux and its chemosensitization profile persisted in patient-derived CD34+ cells, suggesting that erlotinib might be particularly efficient in antagonizing leukemic (stem cell) subpopulations, irrespective of whether they exhibit or not increased drug efflux via ABC transporters.
Kilometer‐scale roughness of Mars: Results from MOLA data analysis (2000)

The Mars Orbiter Laser Altimeter (MOLA) data are used to characterize the kilometer‐scale surface roughness of Mars. The median absolute value of the differential slope at a given baseline is proposed as a data‐derived measure of the surface roughness at this scale. Study of the scale dependence of roughness for the smoothest terrains gives an independent estimate of 20 cm for MOLA ranging accuracy. The baseline lengths from 0.6 to ∼20 km are used, and kilometer‐scale roughness is mapped for the entire surface. The maps show that different geological units have distinctive roughness characteristics. Scale dependence of roughness for a number of geological units is presented and discussed. The southern polar cap is rougher than the northern at kilometer and subkilometer scale, which suggests differences in the sublimation/condensation balance. The Vastitas Borealis Formation has a distinctive 3‐km‐scale background surface topography, which suggests a nonvolcanic origin for its upper layer. Young volcanic plains in Amazonis Planitia and the eastern part of Elysium Planitia are very similar to each other in their roughness characteristics and differ from other volcanic plains on Mars, which suggests a distinctive eruption style. There are systematic latitudinal variations of roughness in both the southern highlands and the northern lowlands: terrains at high latitude are smoother at short baselines; the characteristic vertical scale related to this difference is several meters. Processes that could be responsible for formation of this trend include creep of ice‐rich near‐surface material at high latitudes, treatment of the surface with repetitive deposition and sublimation of seasonal frost, climate‐controlled deposition and/or cementation of dust at high latitudes, and repetitive sublimation and accumulation of subsurface ice at low latitudes with climate variations. All mechanisms of origin could operate more effectively under different climate conditions. Relevant morphological observations favor mechanisms involving deposition of smooth blankets at high latitudes.
The localization of retinol-binding protein in rat liver by immunofluorescence microscopy (1975)

The localization of immunoreactive retinol-binding protein (RBP) in rat liver was studied by immunofluorescence microscopy. The study employed specific antisera to rat RBP prepared in a rabbit and in a sheep. The indirect, two-stage method of localizing tissue antigens was employed, and livers of both normal and vitamin A-deficient rats were examined. Fab' fragments of immunoglobulins were used, to minimize non-specific labelling of the frozen sections of liver. With these techniques, the specific immune staining of RBP was observed within liver parenchymal cells. This staining appeared as both particulate and diffuse within the cytoplasm of the parenchymal cells, and was not concentrated within one region of the liver cell or lobule. Staining for RBP was not observed in nuclei or in cells other than parenchymal cells. Similar particulate and diffuse immune staining for RBP was observed in liver sections from both vitamin A-deficient and normal rats. More intense immune staining appeared to be present in the sections of vitamin A-deficient animals, in good correlation with the expected higher levels of RBP in deficient as compared to normal liver. When liver sections were exposed to an antiserum to rat albumin, instead of one to rat RBP, immune cytoplasmic staining was observed which was entirely of a diffuse nature, and did not appear particulate or granular. The findings suggest that RBP, unlike albumin, is localized in part within cytoplasmic vesicles or granules which are large enough to be detected with immunofluorescence, and which are present in livers of both normal and vitamin A-deficient animals. The nature of these putative RBP-containing particles remains to be explored.
Highly Controlled Gas/Liquid Processes in a Continuous Lab‐Scale Device (2013)

Abstract The use of reactive gases for syntheses on small laboratory scale is often avoided due to safety concerns so that expensive alternatives are required. The recent development of gas‐permeable membrane‐based reactors offers new options for safe handling of these gases in a continuous‐flow system. A prototype of a gas/liquid system was built to introduce gas in the microreactor. An integrated gas flow controller and inline FTIR analysis were used to safely handle the gas. With the system, the carboxylation of a Grignard reagent with carbon dioxide was chosen as a nonhazardous model reaction to validate the prototype reactor.
Magneto-separation of genomic deoxyribose nucleic acid using pH responsive Fe3O4@silica@chitosan nanoparticles in biological samples (2014)

Magneto-separation of genomic deoxyribose nucleic acid using pH responsive Fe<sub>3</sub>O<sub>4</sub>@silica@chitosan nanoparticles in biological samples.
Thermographic evaluation of horses with podotrochlosis (1983)

The distal forelimbs of 10 clinically normal horses with hair clipped on 1 limb were thermographically scanned before and after exercise. The thermal patterns, temperature distribution, and temperature changes after exercise were determined and compared with those of 8 horses with podotrochlosis. Clipping the hair did not cause changes in the thermal patterns, but the clipped limbs were warmer than the unclipped limbs. The temperature of the limbs of horses with podotrochlosis did not increase as much after exercise as did the limbs of normal horses. The failure of skin temperature increase correlated with the radiographic evidence of enlarged vascular foramina in the navicular bone. Because the failure to increase skin temperature after exercise is the result of low blood flow, the enlarged vascular foramen can be related to a state of low blood flow.