gebhart/patrepeval huggingface dataset:
Tissue Distributions of Dhurrin and of Enzymes Involved in Its Metabolism in Leaves of Sorghum bicolor (1979)

The tissue distributions of dhurrin [p-hydroxy-(S)-mandelonitrile-beta-d-glucoside] and of enzymes involved in its metabolism have been investigated in leaf blades of light-grown Sorghum bicolor seedlings. Enzymic digestion of these leaves using cellulase has enabled preparations of epidermal and mesophyll protoplasts and bundle sheath strands to be isolated with only minor cross-contamination. Dhurrin was located entirely in the epidermal layers of the leaf blade, whereas the two enzymes responsible for its catabolism, namely dhurrin beta-glucosidase and hydroxynitrile lyase, resided almost exclusively in the mesophyll tissue. The final enzyme of dhurrin biosynthesis, uridine diphosphate glucose:p-hydroxymandelonitrile glucosyltransferase, was found in both mesophyll (32% of the total activity of the leaf blade) and epidermal (68%) tissues. The bundle sheath strands did not contain significant amounts of dhurrin or of these enzymes. It was concluded that the separation of dhurrin and its catabolic enzymes in different tissues prevents its large scale hydrolysis under normal physiological conditions. The well documented production of HCN (cyanogenesis), which occurs rapidly on crushing Sorghum leaves, would be expected to proceed when the contents of the ruptured epidermal and mesophyll cells are allowed to mix.
Progressive meshes (1996)

Highly detailed geometric models are rapidly becoming commonplace in computer graphics. These models, often represented as complex triangle meshes, challenge rendering performance, transmission bandwidth, and storage capacities. This paper introduces the progressive mesh (PM) representation, a new scheme for storing and transmitting arbitrary triangle meshes. This efficient, lossless, continuous-resolution representation addresses several practical problems in graphics: smooth geomorphing of level-of-detail approximations, progressive transmission, mesh compression, and selective refinement.
Some properties of spherical and rod-shaped semiconductor and metal nanocrystals (2002)

Abstract In this paper, we summarize our results on the effect of changing size and shape of semiconductor and metallic nanocrystals. The change in size (from 3.5 to 1.1 nm) and shape (from spherical to rod) of CdSe nanocrystals is found to affect both their optical and nonradiative properties. In gold quasi-spherical nanocrystals, results on the dependence of the electron-phonon relaxation of the surrounding medium are presented. For gold nanorods, results and conclusions on the mechanism of their self-assembly are presented. Enhanced Raman scattering on their surfaces is studied and compared with that on spherical particle surfaces.
Feedforward networks with monotone constraints (2003)

In many practical applications of artificial neural networks (ANN), there exist natural constraints on the model such as monotonic relations between inputs and outputs that are known in advance. It is advantageous to incorporate these constraints into the ANN structure. We propose a modified feedforward network structure that enforces monotonic relations on designated input variables. The backpropagation formulas for the gradients in the new network structure are derived which lead to various learning algorithms. The monotone properties and the backpropagation formulas for the networks are proven mathematically and verified with numerical examples. A computer program for the new network structure and a learning algorithm is implemented to test the system. Experimental results are obtained on both simulated and real data sets.
Induction of perlecan gene expression precedes amyloid formation during experimental murine AA amyloidogenesis. (1993)

Increased perlecan mRNA levels account, at least in part, for the accumulation of perlecan in murine splenic AA amyloid deposits. This induction of perlecan gene expression occurs before the onset of amyloid formation, supporting a role for perlecan in the earliest stages of amyloid fibrillogenesis.
Nonalcoholic fatty liver disease: relationship to insulin sensitivity and oxidative stress. Treatment approaches using vitamin E, magnesium, and betaine. (2002)

Nonalcoholic steatotic hepatitis (NASH), the most prevalent form of progressive liver disease in the United States, is considered to be a manifestation of insulin resistance syndrome. There is increasing evidence that steatosis in NASH is a result of the pathology in fat metabolism occurring in obesity and insulin resistance. For steatosis to progress to necroinflammation and fibrosis, however, the theory of mitochondrial oxidative-stress induced cellular damage is receiving wide acceptance. Treatment approaches that address these etiologies are reviewed: betaine, magnesium, and vitamin E.
RASSF1A Mediates p21Cip1/Waf1-Dependent Cell Cycle Arrest and Senescence through Modulation of the Raf-MEK-ERK Pathway and Inhibition of Akt (2009)

Promoter hypermethylation preventing expression of the RAS association domain family 1 isoform A (RASSF1A) gene product is among the most abundant epigenetic deregulations in human cancer. Restoration of RASSF1A inhibits tumor cell growth in vitro and in murine xenograft models. Rassf1a-deficient mice feature increased spontaneous and carcinogen-induced tumor formation. Mechanistically, RASSF1A affects several cellular functions, such as microtubule dynamics, migration, proliferation, and apoptosis; however, its tumor-suppressive mechanism is incompletely understood. To study the functional consequences of RASSF1A expression in human cancer cells, we made use of a doxycycline-inducible expression system and a RASSF1A-deficient lung cancer cell line. We observed that RASSF1A induces cell cycle arrest in G(1) phase and senescence in vitro and in tumors established in immunodeficient mice. RASSF1A-mediated growth inhibition was accompanied by the up-regulation of the cyclin-dependent kinase inhibitor p21(Cip1/Waf1) and proceeded independently of p53, p14(Arf), and p16(Ink4a). Loss of p21(Cip1/Waf1) or coexpression of the human papilloma virus 16 oncoprotein E7 was found to override RASSF1A-induced cell cycle arrest and senescence. Conditional RASSF1A affected mitogen-activated protein kinase and protein kinase B/Akt signaling to up-regulate p21(Cip1/Waf1) and to facilitate its nuclear localization. In summary, RASSF1A can mediate cell cycle arrest and senescence in human cancer cells by p53-independent regulation of p21(Cip1/Waf1).
Transferrin conjugates of adriamycin are cytotoxic without intercalating nuclear DNA. (1992)

Studies of the biological chemistry of most anticancer drugs have revealed their cytotoxicity is expressed after the drugs have entered cells. It is thought that anthracycline antitumor drugs exert their cytotoxicity by entering cells, diffusing into nuclei, and inhibiting topoisomerase II and/or intercalating DNA base pairs. In order to deliver anthracyclines to transferrin (TRF) receptors on the plasma membranes of human tumor cells, we have prepared conjugates of adriamycin (ADR) with human TRF. These TRF-ADR conjugates were found to be stable at low pH and to exert more efficient cytotoxicity than free drug. By using spectrofluorometry, we found that the fluorescence of ADR within the conjugate was quenched by native DNA, demonstrating the presence of conformationally available drug to intercalate with nuclear DNA. However, fluorescence was not quenched when conjugate was reacted with viable cells, indicating that ADR did not reach the nucleus. Results of fluorescence microscopy experiments confirmed that free but not conjugated ADR reached the nuclei of viable cells, and TRF-ADR conjugates labeled with fluorescein isothiocyanate were found to initiate lateral diffusion as determined by patch and cap reactions. The involvement of TRF receptors was shown by flow cytometry experiments in which native TRF inhibited binding of fluorescein-labeled TRF-ADR conjugates. These data suggest that TRF-ADR conjugates mediate cytotoxicity by a mechanism other than intercalation with nuclear DNA. This mechanism, revealed by conjugating ADR to a TRF carrier, may not initiate complications such as cardiotoxicity and drug resistance.
Deep Multi-User Reinforcement Learning for Distributed Dynamic Spectrum Access (2018)

We consider the problem of dynamic spectrum access for network utility maximization in multichannel wireless networks. The shared bandwidth is divided into K orthogonal channels. In the beginning of each time slot, each user selects a channel and transmits a packet with a certain transmission probability. After each time slot, each user that has transmitted a packet receives a local observation indicating whether its packet was successfully delivered or not (i.e., ACK signal). The objective is a multi-user strategy for accessing the spectrum that maximizes a certain network utility in a distributed manner without online coordination or message exchanges between users. Obtaining an optimal solution for the spectrum access problem is computationally expensive, in general, due to the large-state space and partial observability of the states. To tackle this problem, we develop a novel distributed dynamic spectrum access algorithm based on deep multi-user reinforcement leaning. Specifically, at each time slot, each user maps its current state to the spectrum access actions based on a trained deep-Q network used to maximize the objective function. Game theoretic analysis of the system dynamics is developed for establishing design principles for the implementation of the algorithm. The experimental results demonstrate the strong performance of the algorithm.
INTERNET, ESCUELA Y VIDA COTIDIANA EN LA INFANCIA (2001)

Existe una preocupación constante por el uso que los niños hacen de Internet en su tiempo libre y también sobre cómo puede canalizarse esa magnífica fuente de información hacia objetivos educativos. Los niños ya han integrado Internet como un elemento más de información, diversión y relación con los demás. Internet es, por tanto, parte de la cultura infantil. Sin embargo, poco se sabe todavía sobre qué es los que interesa a los niños de esta tecnología y qué papel ocupa en sus actividades cotidianas. El objeto de este artículo es: a) explorar las motivaciones psico-sociales de los niños para el uso de Internet, b) analizar los nuevos elementos culturales propiciados por esta herramienta informativa, c) conocer hasta qué punto las actuaciones de la institución educativa sobre Internet se encuentran cercanas o alejadas de los intereses y motivaciones reales que guían a los niños en el uso de esta tecnología, y d) establecer algunas pautas de planificación para el uso de Internet en las escuelas. Se pretende así abandonar visiones tan habituales y poco efectivas como las que abordan las tecnologías de la comunicación como causantes de efectos negativos en la infancia, o como las que ponen en las tecnologías de la comunicación grandes esperanzas para solucionar los problemas de falta de motivación y bajo rendimiento académico actualmente vigentes en las escuelas.
Pharmacokinetics of recombinant human insulin‐like growth factor I given subcutaneously to healthy volunteers and to patients with growth hormone receptor deficiency (1993)

The pharmacokinetics of recombinant human insulin-like growth factor I (rhIGF-I) were studied in healthy volunteers and in patients with growth hormone receptor deficiency (GHRD; Laron syndrome). Following single subcutaneous injections of rhIGF-I, 40 and 80 micrograms/kg, to healthy volunteers, the peptide was absorbed slowly, with a maximum concentration reached after about 7 hours. Following daily multiple subcutaneous injections of rhIGF-I, 40 micrograms/kg, trough concentrations of IGF-I were increased by 277 +/- 50 micrograms/l (mean +/- SD) from baseline. IGF-I was thus characterized as a low-clearance peptide, with a clearance and half-life estimated at about 0.20 ml/minute/kg and 20 hours, respectively, in healthy volunteers. The volume of distribution was low, about 0.20-0.36 litres/kg, the bioavailability of subcutaneously administered rhIGF-I was 100%, and the rate of production of IGF-I was estimated to be about 50 micrograms/kg/day (3.5 mg/day). Patients with GHRD had low baseline IGF-I concentrations (30-50 micrograms/l) and a much more rapid turnover of IGF-I compared with that in healthy volunteers. The clearance and half-life of IGF-I were estimated to be about 0.60 ml/minute/kg and 6 hours, respectively. The volume of distribution was about the same as in healthy subjects. Due to the rapid turnover of IGF-I, trough IGF-I concentrations were increased to just above baseline during subcutaneous injections of 40 micrograms/kg once daily for 7 days. The maximum increase in IGF-I levels was 111 +/- 12 micrograms/l and 150 +/- 3 micrograms/l following daily subcutaneous injections of 40 x 1 and 40 x 2 micrograms/kg for 7 days, respectively.
Novel syntheses of hydantoin derivativesK (1978)

Abstract N ‐Substituted hydantoin derivatives have been synthesized by the condensation of an α‐amino acid derivative, a primary amine and diphenyl carbonate. The method has been applied to the synthesis of hydantoin derivatives with two hydroxyl and/or carboxyl groups.
A family of bacteriocin ABC transporters carry out proteolytic processing of their substrates concomitant with export (1995)

Lantibiotic and non-lantibiotic bacteriocins are synthesized as precursor peptides containing N-terminal extensions (leader peptides) which are cleaved off during maturation. Most non-lantibiotics and also some lantibiotics have leader peptides of the so-called double-glycine type. These leader peptides share consensus sequences and also a common processing site with two conserved glycine residues in positions -1 and -2. The double-glycine-type leader peptides are unrelated to the N-terminal signal sequences which direct proteins across the cytoplasmic membrane via the sec pathway. Their processing sites are also different from typical signal peptidase cleavage sites, suggesting that a different processing enzyme is involved. Peptide bacteriocins are exported across the cytoplasmic membrane by a dedicated ATP-binding cassette (ABC) transporter. Here we show that the ABC transporter is the maturation protease and that its proteolytic domain resides in the N-terminal part of the protein. This result demonstrates that the ABC transporter has a dual function: (i) removal of the leader peptide from its substrate, and (ii) translocation of its substrate across the cytoplasmic membrane. This represents a novel strategy for secretion of bacterial proteins.
Rapid stimulation by insulin of a serine/threonine kinase in 3T3-L1 adipocytes that phosphorylates microtubule-associated protein 2 in vitro. (1987)

Insulin treatment (Kact, 5 X 10(-9) M) of serum-starved 3T3-L1 adipocytes stimulates a soluble serine/threonine kinase that catalyzes phosphorylation of microtubule-associated protein 2 (MAP-2) in vitro. Maximal activation of MAP-2 kinase activity by 80 nM insulin was observed after 10 min of hormonal stimulation, prior to maximal stimulation of S6 kinase activity (20 min). The insulin-stimulatable MAP-2 kinase activity is not adsorbed to phosphocellulose, whereas the principal S6 kinase activity is retained and elutes at approximately 0.5 M NaCl. The insulin-stimulatable MAP-2 kinase is less stable during incubation at 30 degrees C than S6 kinase activity. Inclusion of phosphatase inhibitors decreases the rate at which the stimulated MAP-2 kinase activity is lost from extract supernatants incubated at 30 degrees C. p-Nitrophenyl phosphate is more effective than DL-phosphotyrosine, whereas DL-phosphoserine is without effect at the concentration used (40 mM). The difference in MAP-2 kinase activity in extract supernatants from control and insulin-treated cells is also preserved after rapid chromatography on Sephadex G-25. These results show that a soluble serine/threonine kinase is rapidly activated by insulin, possibly by phosphorylation of either the kinase itself or an interacting modulator.
Perceptual organisation in diffusion mri: curves and streamline flows (2008)

This thesis proposes a new computational framework for the modeling of biological tissue structure in diffusion MRI data. By measuring the local Brownian motion of water molecules, diffusion MRI provides estimates of local fibre orientations in tissues such as the white matter of the brain. Over the last years, diffusion MRI has become an important tool for the in vivo study of brain connectivity. Nevertheless, the inference of the structure of white matter fibres is still an open problem. The methodology introduced in this thesis is based on differential geometry and perceptual organisation. The key ideas are to model white matter fibres as 3D space curves, to view diffusion MRI data as providing information about the tangent vectors of these curves, and to frame the problem as that of inferring 3D curve geometry from a discretized, incomplete, and potentially blurred and noisy field of tangent measurements. Inspired by notions used in perceptual organisation in computer vision, we develop local geometric constraints which guide the inference process and ultimately result in the recovery of the underlying fibre geometry. We start by introducing a notion of co-helicity between triplets of orientation estimates, which is incorporated in a geometric inference process. This process is referred to as 3D curve inference, and it estimates the parameters of the local best-fit osculating helix for each orientation in the dataset. Based on this, a relaxation labeling framework is set-up for the regularization of diffusion MRI data. We then develop a 3D curve inference technique for the identification of complex sub-voxel fibre configurations in high angular resolution diffusion
M‐CSF, c‐Fms, and Signaling in Osteoclasts and their Precursors (2006)

Prevention of conditions, such as osteoporosis, requires an understanding of the molecular mechanisms of bone resorption. The understanding that cells of the myeloid lineage are osteoclast precursors suggests that macrophage colony-stimulating factor (M-CSF) plays an important role in osteoclast biology. Signals generated by the binding of M-CSF to the cell-surface receptor c-Fms appear to trigger events leading to osteoclast differentiation. We have created a chimeric variant of the c-Fms receptor, which has allowed study of downstream events activated by M-CSF in a model more relevant to normal physiology than prior studies, which have relied on myeloid tissues. Our studies suggest novel regulatory signaling pathways initiated via the c-Fms receptor.
Identification and expression of five mutations in the human acid sphingomyelinase gene causing types A and B Niemann-Pick disease. Molecular evidence for genetic heterogeneity in the neuronopathic and non-neuronopathic forms. (1992)

The deficient activity of the human lysosomal hydrolase, acid sphingomyelinase (ASM, EC 3.1.4.12), results in the neuronopathic (Type A) and non-neuronopathic (Type B) forms of Niemann-Pick disease (NPD). To investigate the genetic basis of the phenotypic heterogeneity in NPD, the molecular lesions in the ASM gene were determined from three unrelated NPD patients and evaluated by transient expression in COS-1 cells. A Type A NPD patient of Asian Indian ancestry (proband 1) was homoallelic for a T to A transversion in exon 2 of the ASM gene which predicted a premature stop at codon 261 of the ASM polypeptide (designated L261X). In contrast, an unrelated Type A patient of European ancestry (proband 2) was heteroallelic for a two-base (TT) deletion in exon 2 which caused a frame-shift mutation at ASM codon 178 (designated fsL178), leading to a premature stop at codon 190, and a G to A transition in exon 3 which caused a methionine to isoleucine substitution at codon 382 (designated M382I). Transient expression of the fsL178, L261X, and M382I mutations in COS-1 cells demonstrated that these lesions did not produce catalytically active ASM, consistent with the severe neuronopathic Type A NPD phenotype. In contrast, an unrelated Type B patient of European descent (proband 3) was heteroallelic for two missense mutations, a G to A transition in exon 2 which predicted a glycine to arginine substitution at ASM codon 242 (designated G242R), and an A to G transition in exon 3 which resulted in an asparagine to serine substitution at codon 383 (designated N383S). Interestingly, the G242R allele produced ASM activity in COS-1 cells at levels about 40% of that expressed by the normal allele, thereby explaining the mild Type B phenotype of proband 3 and the high residual activity (i.e. approximately 15% of normal) in cultured lymphoblasts. In contrast, the N383S allele did not produce catalytically active enzyme. None of these five ASM mutations was detected in over 60 other unrelated NPD patients analyzed, nor were these mutations found in over 100 normal ASM alleles. Thus, small deletions or nonsense mutations which trunctated the ASM polypeptide, or missense mutations that rendered the enzyme noncatalytic, resulted in Type A NPD disease, whereas a missense mutation that produced a defective enzyme with residual catalytic activity caused the milder nonneuronopathic Type B phenotype. These findings have facilitated genotype/phenotype correlations for this lysosomal storage disease and provided insights into the functional organization of the ASM polypeptide.
Glycosyltransferase – a specific marker for the discrimination of Bacillus anthracis from the Bacillus cereus group (2008)

Bacillus anthracis, the aetiological agent of anthrax, has been taxonomically classified with the Bacillus cereus group, which comprises B. cereus, Bacillus thuringiensis, Bacillus mycoides, Bacillus pseudomycoides and Bacillus weihenstephanensis. Although the pathogenesis and ecological manifestations may be different, B. anthracis shares a high degree of DNA sequence similarity with its group member species. As a result, the discrimination of B. anthracis from its close relatives in the B. cereus group is still quite difficult. Suppression subtractive hybridization (SSH) was performed to search for genomic differences between a B. anthracis Korean isolate CR and the most closely related B. cereus type strain KCTC 3624(T). Two-hundred and five B. anthracis CR clones obtained by SSH underwent Southern hybridization, and comparative sequences were analysed using the blast program from the National Center for Biotechnology Information (NCBI). Subsequently, primer sets based on the glycosyltransferase group 1 family protein gene specific to B. anthracis were designed from the sequences of subtracted clones, and their specificities were evaluated using eight B. anthracis, 33 B. cereus, 10 B. thuringiensis, six B. mycoides, one B. pseudomycoides, one B. weihenstephanensis and 19 strains from 11 other representative Bacillus species. PCR primers specific for the glycosyltransferase group 1 family protein gene did not amplify the desired products from any of the Bacillus strains under examination, except B. anthracis alone. These findings may be useful in the future development of efficient diagnostic tools for the rapid identification of B. anthracis from other members of the B. cereus group.
Practical low-noise stretched-pulse Yb^3+-doped fiber laser (2002)

We report on the development of what we consider to be a practical and highly stable stretched-pulse laser based on Yb(3+) -doped silica fiber. The Fabry-Perot cavity uses nonlinear polarization rotation as the mode-locking mechanism, and a semiconductor saturable-absorber mirror to ensure robust self-starting and incorporates a diffraction grating pair to compensate for the normal dispersion of the fiber. Use of a single-mode grating-stabilized telecommunications-qualified pump laser diode ensures reliable, low-noise operation (~0.05% amplitude fluctuations at 10-Hz measurement bandwidth). The laser generates high-quality, 60-pJ pulses of <110-fs duration at a repetition rate of ~54 MHz (3-mW average power).