gebhart/patrepeval huggingface dataset:
Imatinib (STI571)-Mediated Changes in Glucose Metabolism in Human Leukemia BCR-ABL-Positive Cells (2004)

The therapeutic efficacy of imatinib mesylate (Gleevec) is based on its specific inhibition of the BCR-ABL oncogene protein, a widely expressed tyrosine kinase in chronic myelogenous leukemia (CML) cells. The goal of this study was to evaluate glucose metabolism in BCR-ABL-positive cells that are sensitive to imatinib exposure. Two human BCR-ABL-positive cell lines (CML-T1 and K562) and one BCR-ABL-negative cell line (HC-1) were incubated with different imatinib concentrations for 96 hours. Magnetic resonance spectroscopy on cell acid extracts was performed to evaluate [1-13C]glucose metabolism, energy state, and changes in endogenous metabolites after incubation with imatinib. Imatinib induced a concentration-dependent inhibition of cell proliferation in CML-T1 (IC50, 0.69 +/- 0.06 micromol/L) and K562 cells (IC50, 0.47 +/- 0.04 micromol/L), but not in HC-1 cells. There were no metabolic changes in imatinib-treated HC-1 cells. In BCR-ABL-positive cells, the relevant therapeutic concentrations of imatinib (0.1-1.0 micromol/L) decreased glucose uptake from the media by suppressing glycolytic cell activity (C3-lactate at 0.25 mmol/L, 65% for K562 and 77% for CML-T1 versus control). Additionally, the activity of the mitochondrial Krebs cycle was increased (C4-glutamate at 0.25 micromol/L, 147% for K562 and 170% for CML-T1). The improvement in mitochondrial glucose metabolism resulted in an increased energy state (nucleoside triphosphate/nucleoside diphosphate at 0.25 micromol/L, 130% for K562 and 125% for CML-T1). Apoptosis was observed at higher concentrations. Unlike standard chemotherapeutics, imatinib, without cytocidal activity, reverses the Warburg effect in BCR-ABL-positive cells by switching from glycolysis to mitochondrial glucose metabolism, resulting in decreased glucose uptake and higher energy state.
Axonal mRNA in Uninjured and Regenerating Cortical Mammalian Axons (2009)

Using a novel microfluidic chamber that allows the isolation of axons without contamination by nonaxonal material, we have for the first time purified mRNA from naive, matured CNS axons, and identified the presence of >300 mRNA transcripts. We demonstrate that the transcripts are axonal in nature, and that many of the transcripts present in uninjured CNS axons overlap with those previously identified in PNS injury-conditioned DRG axons. The axonal transcripts detected in matured cortical axons are enriched for protein translational machinery, transport, cytoskeletal components, and mitochondrial maintenance. We next investigated how the axonal mRNA pool changes after axotomy, revealing that numerous gene transcripts related to intracellular transport, mitochondria and the cytoskeleton show decreased localization 2 d after injury. In contrast, gene transcripts related to axonal targeting and synaptic function show increased localization in regenerating cortical axons, suggesting that there is an increased capacity for axonal outgrowth and targeting, and increased support for synapse formation and presynaptic function in regenerating CNS axons after injury. Our data demonstrate that CNS axons contain many mRNA species of diverse functions, and suggest that, like invertebrate and PNS axons, CNS axons synthesize proteins locally, maintaining a degree of autonomy from the cell body.
Synthesis of (4R)-D,L-[4-2H]- and (4S)-D,L-[42H]homoserine lactones (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis of (4R)-D,L-[4-2H]- and (4S)-D,L-[42H]homoserine lactonesDouglas M. Kalvin and Ronald W. WoodardCite this: J. Org. Chem. 1985, 50, 13, 2259–2263Publication Date (Print):June 1, 1985Publication History Published online1 May 2002Published inissue 1 June 1985https://pubs.acs.org/doi/10.1021/jo00213a012https://doi.org/10.1021/jo00213a012research-articleACS PublicationsRequest reuse permissionsArticle Views290Altmetric-Citations16LEARN 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-Alertsclose Get e-Alerts
THERMODYNAMICS OF LIGHT EMISSION AND FREE-ENERGY STORAGE INPHOTOSYNTHESIS (2016)

A Planck law relationship between absorption and emission spectra is used to compute the fluorescence spectra of some photosynthetic systems from their absorption spectra. Calculated luminescence spectra of purple bacteria agree well but not perfectly with published experimental spectra. Application of the Planck law relation to published activation spectra for Systems I and II of spinach chloroplast permits independent calculation of the luminescence spectra of the two systems; if the luminescence yield of System I is taken to be one-third the yield of System II, then the combined luminescence spectrum closely fits published experimental measurement. Consideration of the entropy associated with the excited state of the absorbing molecules is used to compute the oxidation-reduction potentials and maximum free-energy storage resulting from light absorption. Spinach chloroplasts under an illumination of 1 kilolux of white light can produce at most a potential difference of 1.32 eV for System I, and 1.36 eV for System II. In the absence of non-radiative losses, the maximum amount of free energy stored is 1.19 eV and 1.23 eV per photon absorbed for Systems I and II, respectively. The bacterium Chromatium under an illumination of 1 milliwatt/cm{sup 2} of Na D radiation can produce at most a potential difference of 0.90 eV; the maximum amount of free energy stored is 0.79 eV per photon absorbed. The combined effect of partial thermodynamic reversibility and a finite trapping rate on the amount of luminescence is considered briefly.
Single-Wall Carbon Nanotubes under High Pressures to 62 GPa Studied Using Designer Diamond Anvils (2001)

Single-wall carbon nanotube samples were studied under high pressures to 62 GPa using designer diamond anvils with buried electrical microprobes that allowed for monitoring of the four-probe electrical resistance at elevated pressure. After initial densification, the electrical resistance shows a steady increase from 3 to 42 GPa, followed by a sharp rise above 42 GPa. This sharp rise in electrical resistance at high pressures is attributed to opening of an energy band gap with compression. Nanoindentation hardness measurements on the pressure-treated carbon nanotube samples gave a hardness value of 0.50 +/- 0.03 GPa. This hardness value is approximately 2 orders of magnitude lower than the amorphous carbon phase produced in fullerenes under similar conditions. Therefore, the pressure treatment of single-wall carbon nanotubes to 62 GPa did not produce a superhard carbon phase.
Physiological response to circuit weight training in borderline hypertensive subjects (1987)

Male subjects (10 experimental, 16 control) with borderline hypertension (140/90 to 160/95 mm Hg) participated in a circuit weight training program for 9 wk to assess its efficacy and safety. Resting blood pressure and heart rate were measured under standardized conditions prior to and following each session and at several locations in the circuit. Subjects were assessed pre- and post-training. Upper and lower body strength increased 12.5 and 53% when assessed by one-repetition maximum lifts for bench press (57 to 64 kg) and leg press (134 to 205 kg), respectively. Total weight lifted per circuit increased 57% (4,374 to 6,866 kg). Lean body mass increased 2.2% (64.0 to 65.4 kg), skinfold thicknesses decreased, and other measures of body composition remained unchanged. Cardiovascular endurance as assessed by arm ergometry maximal oxygen uptake increased 21.1% (1.9 to 2.3 1-min−1), and by 7.8% as assessed by treadmill maximal oxygen uptake (40.9 to 44.1 ml·kg−1. min−1). Resting heart rate and systolic blood pressure did not change. Diastolic blood pressure fell from 95.8 to 91.3 mm Hg. All changes were significant to at least P < 0.05. Thus, cireuit weight training can elicit marked improvements in muscular strength and modest improvements in body composition and cardi-orespiratory endurance. Circuit weight training does not exacerbate resting or exercise blood pressure and may have beneficial effects.
Highly sensitive protein sensor based on thermally-reduced graphene oxide field-effect transistor (2011)

We report the fabrication of a highly sensitive field-effect transistor (FET) biosensor using thermally-reduced graphene oxide (TRGO) sheets functionalized with gold nanoparticle (NP)-antibody conjugates. Probe antibody was labeled on the surface of TRGO sheets through Au NPs and electrical detection of protein binding (Immunoglobulin G/IgG and anti-Immunoglobulin G/anti-IgG) was accomplished by FET and direct current (dc) measurements. The protein binding events induced significant changes in the resistance of the TRGO sheet, which is referred to as the sensor response. The dependence of the sensor response on the TRGO base resistance in the sensor and the antibody areal density on the TRGO sheet was systematically studied, from which a correlation of the sensor response with sensor parameters was found: the sensor response was more significant with larger TRGO base resistance and higher antibody areal density. The detection limit of the novel biosensor was around the 0.2 ng/mL level, which is among the best of reported carbon nanomaterial-based protein sensors and can be further optimized by tuning the sensor structure.
Amino group reactions of the sulfhydryl reagent methyl methanesulfonothioate. Inactivation of D-3-hydroxybutyrate dehydrogenase and reaction with amines in water (1980)

Methyl methanesulfonothioate (MMTS) has been used as a sulfhydryl reagent. However, it inactivates D-3-hydroxybutyrate dehydrogenase in a manner that suggests that an amino group may have reacted with the reagent. Nuclear magnetic resonance (NMR) analysis of solutions of glycylglycine, glycine ethyl ester, and imidazole with MMTS indicates that a reaction occurs which produces what is identified by its NMR signal as the methylsulfenamide of the amine. It is suggested that caution should be used when MMTS is employed where reaction with an amine could give an undesired product.
CD19 signalling improves the Epstein–Barr virus‐induced immortalization of human B cell (2005)

Epstein-Barr virus (EBV) infection in vitro immortalizes primary B cells and generates B lymphoblastoid cell lines (LCLs). These EBV-LCLs have been used for several purposes in immunological and genetic studies, but some trials involving these transformations fail for unknown reasons, and several EBV-LCLs do not grow in normal culture. In this study, we improved the immortalization method by CD19 and B-cell receptor (BCR) co-ligation. This method shortens the time required for the immortalization and generation of EBV-LCLs but does not alter the cell phenotype of the LCLs nor the expression of the EBV genes. In particular, the CD19 and BCR co-ligation method was found to be the most effective method examined. EBV-infected B cells induced by CD19 and/or BCR ligation expressed the intracellular latent membrane protein LMP-1 earlier than EBV-infected B cells, and the expression of intracellular LMP-1 was found to be closely related to the time of immortalization. These results suggest that the modified method, using CD19 and/or BCR ligation, may efficiently generate EBV-LCLs, by expressing intracellular LMP-1 at an early stage.
Neuronal pattern correlates with the severity of human immunodeficiency virus-associated dementia complex. Usefulness of spatial pattern analysis in clinicopathological studies. (1996)

The spatial distributional pattern of neurons, in the superior frontal gyrus of 32 subjects who died of acquired immune deficiency syndrome, was examined. The patients were classified as nondemented, mildly demented, and severely demented, and some were treated with the anti-retroviral drug zidovudine. Spatial statistical techniques were employed to investigate the degree of clustering in the individual cases and various groups. We found that the cluster pattern of large and small neurons differed significantly with increasing severity of dementia but was not influenced by the duration of zidovudine treatment. We conclude that this is a sensitive technique for clinicopathological correlations and that the differences may result from loss of specific neuronal populations, which could determine the degree of dementia.
Au-In bonding below the eutectic temperature (1993)

A bonding method using Au-In alloy which requires a low process temperature of 200 degrees C to produce high temperature (454 degrees C) bonds is reported. Multiple layers of Au and In are deposited on semiconductor wafers in one vacuum cycle to reduce In oxidation. The semiconductor dice are then bonded to substrates coated with Au. Above 157 degrees C, the indium layer melts and dissolves the Au layers to form a mixture of liquid and solid. The solid-liquid interdiffusion process continues until the mixture solidifies to form the Au-In bond. A scanning acoustic microscope (SAM) was used to determine the excellent bonding quality before and after thermal shock tests while an energy dispersive X-ray (EDX) was employed to determine the composition of the resulting bonds. The resulting bond has an unbonding temperature greater than 545 degrees C. Due to the low process temperature, the stress on the bonded structure caused by thermal expansion mismatch is reduced. This type of bonding is useful when bonding at a low temperature is followed by a subsequent higher temperature process.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Anatomically based modeling (1997)

We describe an improved, anatomically based approach to modeling and animating animals. Underlying muscles, bones, and generalized tissue are modeled as triangle meshes or ellipsoids. Muscles are deformable discretized cylinders lying between fixed origins and insertions on specific bones. Default rest muscle shapes can be used, or the rest muscle shape can be designed by the user with a small set of parameters. Muscles automatically change shape as the joints move. Skin is generated by voxelizing the underlying components, filtering, and extracting a polygonal isosurface. Isosurface skin vertices are associated with underlying components and move with them during joint motion. Skin motion is consistent with an elastic membrane model. All components are parameterized and can be reused on similar bodies with non-uniformly scaled parts. This parameterization allows a non-uniformly sampled skin to be extracted, maintaining more details at the head and extremities.
Comparing cache architectures and coherency protocols on x86-64 multicore SMP systems (2009)

Across a broad range of applications, multicore technology is the most important factor that drives today's microprocessor performance improvements. Closely coupled is a growing complexity of the memory subsystems with several cache levels that need to be exploited efficiently to gain optimal application performance. Many important implementation details of these memory subsystems are undocumented. We therefore present a set of sophisticated benchmarks for latency and bandwidth measurements to arbitrary locations in the memory subsystem. We consider the coherency state of cache lines to analyze the cache coherency protocols and their performance impact. The potential of our approach is demonstrated with an in-depth comparison of ccNUMA multiprocessor systems with AMD (Shanghai) and Intel (Nehalem-EP) quad-core x86-64 processors that both feature integrated memory controllers and coherent point-to-point interconnects. Using our benchmarks we present fundamental memory performance data and architectural properties of both processors. Our comparison reveals in detail how the microarchitectural differences tremendously affect the performance of the memory subsystem.
Genetic manipulation of acid formation pathways by gene inactivation in Clostridium acetobutylicum ATCC 824 (1996)

Integrational plasmid technology has been used to disrupt metabolic pathways leading to acetate and butyrate formation in Clostridium acetobutylicum ATCC 824. Non-replicative plasmid constructs, containing either clostridial phosphotransacetylase (pta) or butyrate kinase (buk) gene fragments, were integrated into homologous regions on the chromosome. Integration was assumed to occur by a Campbell-like mechanism, inactivating either pta or buk. Inactivation of the pta gene reduced phosphotransacetylase and acetate kinase activity and significantly decreased acetate production. Inactivation of the buk gene reduced butyrate kinase activity, significantly decreased butyrate production and increased butanol production.
Probing Adhesion Forces at the Molecular Scale (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTProbing Adhesion Forces at the Molecular ScaleRoss C. Thomas, J. E. Houston, Richard M. Crooks, Taisun Kim, and Terry A. MichalskeCite this: J. Am. Chem. Soc. 1995, 117, 13, 3830–3834Publication Date (Print):April 1, 1995Publication History Published online1 May 2002Published inissue 1 April 1995https://pubs.acs.org/doi/10.1021/ja00118a019https://doi.org/10.1021/ja00118a019research-articleACS PublicationsRequest reuse permissionsArticle Views786Altmetric-Citations146LEARN 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-Alertsclose Get e-Alerts
A modular system for robust positioning using feedback from stereo vision (1997)

This paper introduces a modular framework for robot motion control using stereo vision. The approach is based on a small number of generic motion control operations referred to as primitive skills. Each primitive skill uses visual feedback to enforce a specific task-space kinematic constraint between a robot end-effector and a set of target features. By observing both the end-effector and target features, primitive skills are able to position with an accuracy that is independent of errors in hand-eye calibration. Furthermore, primitive skills are easily combined to form more complex kinematic constraints as required by different applications. These control laws have been integrated into a system that performs tracking and control on a single processor at real-time rates. Experiments with this system have shown that it is extremely accurate, and that it is insensitive to camera calibration error. The system has been applied to a number of example problems, showing that modular, high precision, vision-based motion control is easily achieved with off-the-shelf hardware.
MOVE: An End-to-End Solution To Network Denial of Service (2005)

We present a solution to the denial of service (DoS) problem that does not rely on network infrastructure support, conforming to the end-to-end (e2e) design principle. Our approach is to combine an overlay network, which allows us to treat authorized traffic preferentially, with a lightweight process-migration environment that allows us to move services easily between different parts of a distributed system. Functionality residing on a part of the system that is subjected to a DoS attack migrates to an unaffected location. The overlay network ensures that traffic from legitimate users, who are authenticated before they are allowed to access the service, is routed to the new location. We demonstrate the feasibility and effectiveness of our approach by measuring the performance of an experimental prototype against a series of attacks using PlanetLab, a distributed experimental testbed. Our preliminary results show that the end-to-end latency remains at acceptable levels during regular operation, increasing only by a factor of 2 to 3, even for large overlays. When a process migrates due to a DoS attack, the disruption of service for the end user is in the order of a few seconds, depending on the network proximity of the servers involved in the migration.
Species Identification and Virulence Attributes of Saccharomyces boulardii (nom. inval.) (1998)

Saccharomyces boulardii (nom. inval.) has been used for the treatment of several types of diarrhea. Recent studies have confirmed that S. boulardii is effective in the treatment of diarrhea, in particular chronic or recurrent diarrhea, and furthermore that it is a safe and well-tolerated treatment. The aim of the present study was to identify strains of S. boulardii to the species level and assess their virulence in established murine models. Three strains of S. boulardii were obtained from commercially available products in France and Italy. The three S. boulardii strains did not form spores upon repeated testing. Therefore, classical methods used for the identification of Saccharomyces spp. could not be undertaken. Typing by using the restriction fragment length polymorphisms (RFLPs) of the PCR-amplified intergenic transcribed spacer regions (including the 5. 8S ribosomal DNA) showed that the three isolates of S. boulardii were not separable from authentic isolates of Saccharomyces cerevisiae with any of the 10 restriction endonucleases assessed, whereas 9 of the 10 recognized species of Saccharomyces could be differentiated. RFLP analysis of cellular DNA with EcoRI showed that all three strains of S. boulardii had identical patterns and were similar to other authentic S. cerevisiae isolates tested. Therefore, the commercial strains of S. boulardii available to us cannot be genotypically distinguished from S. cerevisiae. Two S. boulardii strains were tested in CD-1 and DBA/2N mouse models of systemic disease and showed intermediate virulence compared with virulent and avirulent strains of S. cerevisiae. The results of the present study show that these S. boulardii strains are asporogenous strains of the species S. cerevisiae, not representatives of a distinct and separate species, and possess moderate virulence in murine models of systemic infection. Therefore, caution should be advised in the clinical use of these strains in immunocompromised patients until further study is undertaken.