gebhart/patrepeval huggingface dataset:
Insulin Resistance of Muscle Glucose Transport in Rats Fed a High-Fat Diet: A Reevaluation (1997)

Rats fed a high-fat diet develop skeletal muscle insulin resistance. There is disagreement regarding whether a decrease in the GLUT4 isoform of the glucose transporter is responsible. We found that feeding rats a high-fat diet that reduced the responsiveness of glucose transport to insulin in skeletal muscles by approximately 25-45% in 4 weeks, had no significant effect on muscle GLUT4 content. There is also controversy regarding whether the contraction/anoxia activated pathway of glucose transport stimulation is affected by fat feeding. We found that stimulation of muscle glucose transport by either swimming, in situ contractions, or anoxia was depressed to a similar extent as insulin responsiveness in high-fat-fed rats. It has been suggested that the muscle insulin resistance caused by a high-fat diet is due to increased fat oxidation and glucose-fatty acid cycle activity. However, we found that insulin-stimulated glucose transport was reduced by approximately 40% when muscles of fat-fed rats were incubated under anoxic conditions under which fatty acid oxidation should not occur. Rats maintained on the high-fat diet up to 32 weeks developed the characteristics of the abdominal obesity syndrome, including insulin resistance, hyperinsulinemia, hyperglycemia, elevated LDL cholesterol and VLDL triglycerides, and marked visceral obesity. We conclude that 1) in rats fed a high-fat diet the muscle insulin resistance is not due to a decrease in total GLUT4 content or to increased fat oxidation, 2) fat feeding also results in resistance of muscle glucose transport to stimulation via the contraction/anoxia pathway, and 3) rats fed a high-fat diet may be a useful model of the abdominal obesity syndrome.
Long-term culture of human bone marrow cells. (1980)

A method has been described for the long-term culture of human bone marrow cells in liquid medium. Hematopoiesis, as measured by the production of granulocytic-macrophage progenitor cells (CFUc), continued for at least 20 weeks and was dependent upon the presence of a marrow-derived adherent layer of cells. As in the case of murine marrow liquid cultures, the adherent layer consisted of mononuclear phagocytic cells, endothelial cells, and lipid-laden adipocytes, the latter being essential for long-term hematopoiesis. Optimal growth conditions included McCoy's medium supplemented with fetal bovine serum, horse serum, and hydrocortisone and incubation at 33 degrees C. Horse serum in conjunction with hydrocortisone appeared essential for the growth of adipocytes.
Cerebral metabolism of [1,2-13C2]acetate as detected by in vivo and in vitro 13C NMR. (1990)

The metabolism of [1,2-13C2]acetate in rat brain was studied by in vivo and in vitro 13C NMR spectroscopy, in particular by taking advantage of the homonuclear 13C-13C spin coupling patterns. Well nourished rats were infused with [1,2-13C2]acetate or [1-13C]acetate in the jugular vein, and the in situ kinetics of 13C labeling during the infusion period was followed by 13C NMR techniques. The in vivo 13C NMR spectra showed signals from (i) the C-1 carbon of [1,2-13C2] acetate or [1-13C]acetate, (ii) 13CO3H-, and (iii) the natural abundance 13C carbons of sufficiently mobile fatty acids. Methanol/HCl/perchloric acid extracts of the brains were prepared and were further analyzed by high resolution 13C NMR. The homonuclear 13C-13C spin coupling patterns after infusion of [1,2-13C2]acetate showed very different isotopomer populations in glutamate, glutamine, and gamma-aminobutyric acid. Analyzing the relative proportions of these isotopomers revealed (i) two different glutamate compartments in the rat brain characterized by the presence and absence, respectively, of glutamine synthase activity, (ii) two different tricarboxylic acid cycles, one preferentially metabolizing [(1,2-13C2]acetate, the other mainly using unlabeled acetyl-coenzyme A, (iii) a hitherto unknown cerebral pyruvate recycling system associated with the tricarboxylic acid cycle, metabolizing primarily unlabeled acetyl-coenzyme A, and (iv) a predominant production of gamma-aminobutyric acid in the glutamate compartment lacking glutamine synthase.
Physical Activity Assessment With Accelerometers: An Evaluation Against Doubly Labeled Water (2007)

This review focuses on the ability of different accelerometers to assess daily physical activity as compared with the doubly labeled water (DLW) technique, which is considered the gold standard for measuring energy expenditure under free-living conditions. The PubMed Central database (U.S. NIH free digital archive of biomedical and life sciences journal literature) was searched using the following key words: doubly or double labeled or labeled water in combination with accelerometer, accelerometry, motion sensor, or activity monitor. In total, 41 articles were identified, and screening the articles' references resulted in one extra article. Of these, 28 contained sufficient and new data. Eight different accelerometers were identified: 3 uniaxial (the Lifecorder, the Caltrac, and the CSA/MTI/Actigraph), one biaxial (the Actiwatch AW16), 2 triaxial (the Tritrac-R3D and the Tracmor), one device based on two position sensors and two motion sensors (ActiReg), and the foot-ground contact pedometer. Many studies showed poor results. Only a few mentioned partial correlations for accelerometer counts or the increase in R(2) caused by the accelerometer. The correlation between the two methods was often driven by subject characteristics such as body weight. In addition, standard errors or limits of agreement were often large or not presented. The CSA/MTI/Actigraph and the Tracmor were the two most extensively validated accelerometers. The best results were found for the Tracmor; however, this accelerometer is not yet commercially available. Of those commercially available, only the CSA/MTI/Actigraph has been proven to correlate reasonably with DLW-derived energy expenditure.
Corneal Collagen Cross-Linking for Ectasia After Excimer Laser Refractive Surgery: 1-Year Results (2009)

One year after surgery, CXL appears to stabilize eyes with ectasia consequent to excimer laser refractive surgery and improve BSCVA.
Two-Dimensional Gel Electrophoresis of Rat Islet Proteins: Interleukin 1β-Induced Changes in Protein Expression are Reduced by L-Arginine Depletion and Nicotinamide (1995)

Interleukin (IL)-1 beta-mediated damage to beta-cells in isolated islets of Langerhans depends upon de novo synthesis of proteins that have not been fully identified. Further, IL-1 beta-induced and tumor necrosis factor alpha-induced islet damage partly depends on the intracellular production of the nitric oxide (NO) radical. IL-1 beta has also been reported to induce the synthesis of cellular defense proteins, e.g., heme-oxygenase and heat shock proteins 70 and 90. Nicotinamide, while in itself inactive, inhibited IL-1 beta-induced NO production in a time- and dose-dependent manner. To enable the identification of IL-1 beta-induced proteins with possible protective and deleterious effects, we characterized the effects of IL-1 beta, nicotinamide, and NO synthesis inhibition by L-arginine depletion on rat islet protein expression detected by high-resolution two-dimensional gel electrophoresis. More than 1,600 proteins were reproducibly detected in control rat islets. Incubation with IL-1 beta-, nicotinamide-, or L-arginine-depleted control medium upregulated 29, 3, and 1 protein, respectively, and downregulated 4, 0, and 1 protein, respectively. Addition of nicotinamide and L-arginine depletion reduced the upregulation of 16 and 20 IL-1 beta-induced proteins, respectively. The identity of these proteins is under study. The demonstrated changes in protein expression caused by IL-1 beta +/- nicotinamide and L-arginine depletion may form the basis for identification of proteins with possible protective and deleterious roles in the initial beta-cell destruction in insulin-dependent diabetes mellitus.
Reconstituting Organ-Level Lung Functions on a Chip (2010)

Here, we describe a biomimetic microsystem that reconstitutes the critical functional alveolar-capillary interface of the human lung. This bioinspired microdevice reproduces complex integrated organ-level responses to bacteria and inflammatory cytokines introduced into the alveolar space. In nanotoxicology studies, this lung mimic revealed that cyclic mechanical strain accentuates toxic and inflammatory responses of the lung to silica nanoparticles. Mechanical strain also enhances epithelial and endothelial uptake of nanoparticulates and stimulates their transport into the underlying microvascular channel. Similar effects of physiological breathing on nanoparticle absorption are observed in whole mouse lung. Mechanically active "organ-on-a-chip" microdevices that reconstitute tissue-tissue interfaces critical to organ function may therefore expand the capabilities of cell culture models and provide low-cost alternatives to animal and clinical studies for drug screening and toxicology applications.
The DNA sequence of human chromosome 21 (2000)

Chromosome 21 is the smallest human autosome. An extra copy of chromosome 21 causes Down syndrome, the most frequent genetic cause of significant mental retardation, which affects up to 1 in 700 live births. Several anonymous loci for monogenic disorders and predispositions for common complex disorders have also been mapped to this chromosome, and loss of heterozygosity has been observed in regions associated with solid tumours. Here we report the sequence and gene catalogue of the long arm of chromosome 21. We have sequenced 33,546,361 base pairs (bp) of DNA with very high accuracy, the largest contig being 25,491,867 bp. Only three small clone gaps and seven sequencing gaps remain, comprising about 100 kilobases. Thus, we achieved 99.7% coverage of 21q. We also sequenced 281,116 bp from the short arm. The structural features identified include duplications that are probably involved in chromosomal abnormalities and repeat structures in the telomeric and pericentromeric regions. Analysis of the chromosome revealed 127 known genes, 98 predicted genes and 59 pseudogenes.
Carboxyhemoglobin Levels in an Unstable Hemoglobin Disorder (Hb Zürich): Effect on Phenotypic Expression (1980)

The affinity of Hb Zurich for carbon monoxide is approximately 65 times that of normal hemoglobin. The carboxyhemoglobin content in serum from individuals with Hb Zurich ranged from 3.9 to 6.7 percent in nine nonsmokers and from 9.8 to 19.7 percent in six smokers. Rates of hemolysis and hemoglobin denaturation were less in smokers than in nonsmokers, effects that may be secondary to the stabilization of Hb Zurich by carbon monoxide.
Measurement of Enantiomeric Excess by Kinetic Resolution and Mass Spectrometry (1999)

New applications for your mass spectrometer-use it to measure enantiomeric excess! The enantiomeric content of very small quantities of chiral alcohols and amines has been determined by derivatization with chiral acylating agents in which mass is correlated to absolute configuration. The resultant esters and amides were then analyzed by electrospray ionization mass spectrometry (ESI-MS; shown schematically). The technique requires surprisingly low levels of diastereoselectivity in the acylation step, and is therefore generally applicable.
Receptor-mediated uptake of 3,3',5-triiodo-L-thyronine by cultured fibroblasts. (1980)

Using video intensification fluorescence microscopy and tetramethylrhodamine (Rho)-labeled 3,3',5-triiodo-L-thyronine (T3), we studied the uptake of T3 by cultured mouse fibroblasts. After incubation of cells with Rho-T3 for 30 min at 37 degrees C the fluorescent hormone was concentrated in many small bright accumulations. With a 1000-fold excess of unlabeled T3, only weak background fluorescence was seen. Furthermore, when cells were incubated with Rho or Rho-thyronine only background fluorescence was detected. These results indicate that the cellular uptake of Rho-T3 occurred through a T3-specific receptor-mediated process. Most of these accumulations underwent saltatory motion in living cells, indicating that the T3 was contained within endocytic vesicles. When cultured cells were incubated with Rho-T3 for 60 min at 4 degrees C, only diffuse fluorescence was observed, Rho-T3 became concentrated in vesicles upon warming of the cells to either 23 degrees C or 37 degrees C. Simultaneous incubation of cells with fluorescein-labeled alpha 2-macroglobulin and Rho-T3 showed that Rho-T3 was internalized in the same vesicles as alpha 2-macroglobulin. Furthermore, as previously reported for alpha 2-macroglobulin in the presence of methylamine, dansylcadaverine, or bacitracin, clustering and internalization were inhibited but the overall fluorescence intensity of the cells did not appear to be affected. Because it has been previously shown that receptor-mediated endocytosis of alpha 2-macroglobulin occurs through clustering of ligands in coated pits on the cell surface, these results indicate that Rho-T3 follows the same pathway. Thus it has now been demonstrated that a low-molecular weight hormone enters cells by this pathway.
Autoencoders for learning template spectrograms in electrocorticographic signals (2018)

With increasing interest in and active development towards higher spatial resolution ECoG, along with the availability of large scale datasets from epilepsy monitoring units, there is an opportunity to develop automated and scalable unsupervised methods to learn effective summaries of spatial, temporal and frequency patterns in these data. The proposed methods reduce the effort required by neural engineers to develop effective features for BCI decoders. The clustering approach has applications in functional mapping studies for identifying brain regions associated with behavioral changes.
Preparation and Phase Segregation of Block Copolymer Nanotube Multiblocks (2004)

Different nanotubes were prepared from two triblock copolymers. Chemistry was performed on the nanotubes so that one type contained amino terminal groups and the other bore carboxyl terminal groups. The amino and carboxyl groups were reacted by amidization to join the nanotubes head to tail to yield nanotube multiblocks. The block copolymer nanotube multiblocks (CONATUBLOCs) may be viewed as a macroscopic counterpart of block copolymers. Like block copolymers, the different blocks of the CONATUBLOCs segregated from one another not only in a block-selective solvent mixture but also in the solid state.
NGF reduces striatal excitotoxic neuronal loss without affecting concurrent neuronal stress (1993)

Nerve growth factor (NGF) has protective effects against striatal excitotoxic injury in the adult brain. To begin to define the mechanism of NGF-mediated sparing, we sought to determine the effects of biologically delivered NGF on the degree of neuronal stress and the development of excitotoxic lesions in the rat striatum. Immortalized fibroblasts genetically altered to secrete NGF (NGF[+]) or control fibroblasts (NGF[-]) were stereotactically implanted near the striatum 7 d before striatal infusion of an NMDA-receptor agonist. Two days after excitotoxin infusion, the volume of neuronal loss was reduced by 34% (p < 0.001) in the NGF[+] group when compared to the NGF[-] group; however, there was no difference in the volume of 72 kD heat shock protein (HSP72) immunoreactivity expressed in the two groups after 2 d. The final volumes of neuronal loss at 10 d were significantly greater than seen at 2 d, with the volume of neuronal loss in the NGF[+] group reduced by 20% (p < 0.004) when compared to the NGF[-] group. Interestingly, the volume of neuronal loss at 10 d in the NGF[-] group, but not the NGF[+] group, closely approximated the HSP72 immunoreactive volumes seen at 2 d. These results suggest that the cell stress marker, HSP72, is predictive of neuronal loss after striatal excitotoxic insult and while NGF treatment does not alter the overall HSP72 response, it significantly reduces subsequent neuronal loss. We conclude that NGF-mediated neuroprotective mechanisms alter neuronal response to injury without affecting the primary cell stress response to NMDA-receptor activation.
Layer-by-layer assembly as a versatile bottom-up nanofabrication technique for exploratory research and realistic application (2007)

The layer-by-layer (LbL) adsorption technique offers an easy and inexpensive process for multilayer formation and allows a variety of materials to be incorporated within the film structures. Therefore, the LbL assembly method can be regarded as a versatile bottom-up nanofabrication technique. Research fields concerned with LbL assembly have developed rapidly but some important physicochemical aspects remain uninvestigated. In this review, we will introduce several examples from physicochemical investigations regarding the basics of this method to advanced research aimed at practical applications. These are selected mostly from recent reports and should stimulate many physical chemists and chemical physicists in the further development of LbL assembly. In order to further understand the mechanism of the LbL assembly process, theoretical work, including thermodynamics calculations, has been conducted. Additionally, the use of molecular dynamics simulation has been proposed. Recently, many kinds of physicochemical molecular interactions, including hydrogen bonding, charge transfer interactions, and stereo-complex formation, have been used. The combination of the LbL method with other fabrication techniques such as spin-coating, spraying, and photolithography has also been extensively researched. These improvements have enabled preparation of LbL films composed of various materials contained in well-designed nanostructures. The resulting structures can be used to investigate basic physicochemical phenomena where relative distances between interacting groups is of great importance. Similarly, LbL structures prepared by such advanced techniques are used widely for development of functional systems for physical applications from photovoltaic devices and field effect transistors to biochemical applications including nano-sized reactors and drug delivery systems.
Ignition on the National Ignition Facility: a path towards inertial fusion energy (2009)

The National Ignition Facility (NIF), the world's largest and most powerful laser system for inertial confinement fusion (ICF) and experiments studying high-energy-density (HED) science, is nearing completion at Lawrence Livermore National Laboratory (LLNL). NIF, a 192-beam Nd-glass laser facility, will produce 1.8 MJ, 500 TW of light at the third-harmonic, ultraviolet light of 351 nm. The NIF project is scheduled for completion in March 2009. Currently, all 192 beams have been operationally qualified and have produced over 4.0 MJ of light at the fundamental wavelength of 1053 nm, making NIF the world's first megajoule laser. The principal goal of NIF is to achieve ignition of a deuterium–tritium (DT) fuel capsule and provide access to HED physics regimes needed for experiments related to national security, fusion energy and for broader scientific applications. The plan is to begin 96-beam symmetric indirect-drive ICF experiments early in FY2009. These first experiments represent the next phase of the National Ignition Campaign (NIC). This national effort to achieve fusion ignition is coordinated through a detailed plan that includes the science, technology and equipment such as diagnostics, cryogenic target manipulator and user optics required for ignition experiments. Participants in this effort include LLNL, General Atomics, Los Alamos National Laboratory, Sandia National Laboratory and the University of Rochester Laboratory for Energetics (LLE). The primary goal for NIC is to have all of the equipment operational and integrated into the facility soon after project completion and to conduct a credible ignition campaign in 2010. When the NIF is complete, the long-sought goal of achieving self-sustaining nuclear fusion and energy gain in the laboratory will be much closer to realization. Successful demonstration of ignition and net energy gain on NIF will be a major step towards demonstrating the feasibility of inertial fusion energy (IFE) and will likely focus the world's attention on the possibility of an ICF energy option. NIF experiments to demonstrate ignition and gain will use central-hot-spot (CHS) ignition, where a spherical fuel capsule is simultaneously compressed and ignited. The scientific basis for CHS has been intensively developed (Lindl 1998 Inertial Confinement Fusion: the Quest for Ignition and Energy Gain Using Indirect Drive (New York: American Institute of Physics)) and has a high probability of success. Achieving ignition with CHS will open the door for other advanced concepts, such as the use of high-yield pulses of visible wavelength rather than ultraviolet and fast ignition concepts (Tabak et al 1994 Phys. Plasmas 1 1626–34, Tabak et al 2005 Phys. Plasmas 12 057305). Moreover, NIF will have important scientific applications in such diverse fields as astrophysics, nuclear physics and materials science. This paper summarizes the design, performance and status of NIF, experimental plans for NIC, and will present laser inertial confinement fusion–fission energy (LIFE) as a path to achieve carbon-free sustainable energy.
Evidence for functionally active protease‐activated receptor‐4 (PAR‐4) in human vascular smooth muscle cells (2001)

1. This study investigates, whether in addition to the protease-activated receptor-1 (PAR-1), PAR-4 is present in vascular smooth muscle cells (SMC) of the human saphenous vein and whether this receptor is functionally active. PAR-1 and PAR-4 are stimulated by thrombin and by the synthetic peptides SFLLRN and GYPGQV, respectively. 2. mRNAs for both, PAR-1 and PAR-4, were detected in the SMC by using reverse transcriptase polymerase chain reaction (RT - PCR). 3. Treatment of the SMC with GYPGQV (200 microM) resulted in a transient increase in free intracellular calcium. This calcium signal was completely abolished after a preceding challenge with thrombin (10 nM), indicating homologous receptor desensitization. 4. Stimulation of the SMC with 10 nM thrombin or 200 microM SFLLRN caused a time-dependent activation of the extracellular signal-regulated kinases-1/2 (ERK-1/2) with a maximum at 5 min. In contrast, 100 nM thrombin as well as 200 microM of GYPGQV induced a prolonged phosphorylation of ERK-1/2 with a maximum at 60 min. These data suggest that PAR-1 and PAR-4 are activated by thrombin at distinct concentrations and with distinct kinetics. 5. GYPGQV stimulated [(3)H]-thymidine incorporation in SMC. At 500 microM, the peptide increased DNA synthesis 2.5 fold above controls. A comparable mitogenic effect was obtained after stimulation of the SMC by 10 nM thrombin or 100 microM SFLLRN, respectively. 6. These data indicate that a functionally active PAR-4 is present in SMC and, in addition to PAR-1, might contribute to thrombin-induced mitogenesis.