gebhart/patrepeval huggingface dataset:
Stimulatory effect of certain plant sphingolipids on fruiting of Schizophyllum commune. (1986)

We reported previously that certain cerebrosides and ceramides from fungi were active upon fruiting of Schizophyllum commune (Kawai, G., and Ikeda, Y. (1982) Biochim. Biophys. Acta 719, 612-618; Kawai, G., and Ikeda, Y. (1983) (Biochim. Biophys. Acta 754, 243-248). This work was undertaken to extend our study to sphingolipids in wheat grain. The cerebrosides from wheat grain were fractionated by high-performance liquid chromatography into at least 40 components with and without the fruiting-inducing activity. Four major active fractions were characterized by thin-layer chromatography, infrared spectroscopy, gas-liquid chromatography, gas-liquid chromatography-mass spectroscopy, and 1H and 13C nuclear magnetic resonance spectroscopy. The active cerebrosides consist of glucose, 2-hydroxyhexadecanoic acid or 2-hydroxyoctadecanoic acid acid, and (4E,8Z)-sphingadienine or (8Z)-sphingenine. The cerebroside with (8Z)-sphingenine became inactive when the double bond was hydrogenated. Diglycosylceramides were as active as the monoglycosylceramides, but triglycosylceramides were only about 10% as active. The relationship between the structure and the activity is discussed.
Glucagon-like peptide-1 and control of insulin secretion. (1995)

Although glucose is the major regulator of insulin secretion by pancreatic beta cells, its action is modulated by several neural and hormonal stimuli. In particular, hormones secreted by intestinal endocrine cells stimulate glucose-induced insulin secretion very potently after nutrient absorption. These hormones, called gluco-incretins or insulinotropic hormones, are major regulators of postprandial glucose homeostasis. The main gluco-incretins are GIP (gastric inhibitory polypeptide or glucose-dependent insulinotropic polypeptide) and GLP-1 (glucagon-like polypeptide-1). The secretion of GIP, a 42 amino acid polypeptide secreted by duodenal K cells, is triggered by fat and glucose. GIP stimulation of insulin secretion depends on the presence of specific beta-cell receptors and requires glucose at a concentration at least equal to or higher than the normoglycaemic level of approximately 5 mM. GIP accounts for about 50% of incretin activity, and the rest may be due to GLP-1 which is produced by proteolytic processing of the preproglucagon molecule in intestinal L cells. GLP-1 is the most potent gluco-incretin characterized so far. As with GIP, its stimulatory action requires a specific membrane receptor and normal or elevated glucose concentrations. Contrary to GIP, the incretin effect of GLP-1 is maintained in non-insulin-dependent diabetic patients. This peptide or agonists of its beta-cell receptor could provide new therapeutic tools for the treatment of Type II diabetic hyperglycaemia.
State of the Art in Laser Surface Texturing (2004)

Surface texturing has emerged in the last decade as a viable option of surface engineering resulting in significant improvement in load capacity, wear resistance, friction coefficient etc. of tribological mechanical components. Various techniques can be employed for surface texturing but Laser Surface Texturing (LST) is probably the most advanced so far. LST produces a very large number of micro-dimples on the surface and each of these micro-dimples can serve either as a micro- hydrodynamic bearing in cases of full or mixed lubrication, a micro-reservoir for lubricant in cases of starved lubrication conditions, or a micro-trap for wear debris in either lubricated or dry sliding. The present paper reviews the current effort being made world wide on surface texturing in general and on laser surface texturing in particular. It presents the state of the art of LST and the potential of this technology in various lubricated applications like mechanical seals, piston rings and thrust bearings. The paper also describes some fundamental on going research around the world with LST.
Chemicapacitive microsensors for detection of explosives and TICs (2005)

Seacoast Science develops chemical sensors that use polymer-coated micromachined capacitors to measure the dielectric permittivity of an array of selectively absorbing materials. We present recent results demonstrating the sensor technology's capability to detect components in explosives and toxic industrial chemicals. These target chemicals are detected with functionalized polymers or network materials, chosen for their ability to adsorb chemicals. When exposed to vapors or gases, the permittivity of these sorbent materials changes depending on the strength of the vapor-sorbent interaction. Sensor arrays made of ten microcapacitors on a single chip have been previously shown to detect vapors of organic compounds (chemical warfare agents, industrial solvents, fuels) and inorganic gases (SO2, CO2, NO2). Two silicon microcapacitor structures were used, one with parallel electrode plates and the other with interdigitated "finger-like" electrodes. The parallel-plates were approximately 300 &#956;m wide and separated by 750 nm. The interdigitated electrodes were approximately 400 &#956;m long and were elevated above the substrate to provide faster vapor access. Eight to sixteen of these capacitors are fabricated on chips that are 5 x 2 mm and are packaged in less than 50 cm<sup>3</sup> with supporting electronics and batteries, all weighing less than 500 grams. The capacitors can be individually coated with different materials creating a small electronic nose that produces different selectivity patterns in response to different chemicals. The resulting system's compact size, low-power consumption and low manufacturing costs make the technology ideal for integration into various systems for numerous applications.
Metallic slit waveguide for dispersion-free low-loss terahertz signal transmission (2007)

Transmission characteristics of a metallic waveguide are presented combining negligible dispersion, very low attenuation, and two-dimensional mode confinement. The waveguide is fabricated by sawing a 270μm wide slit through a 40mm wide and 300μm thick silicon slab and subsequent metalization of all faces. Single-mode terahertz pulses propagating through the slit are excited at one end of the waveguide using a photoconductive antenna array and detected with a freely positionable photoconductive probe tip. Low-loss propagation with negligible group velocity dispersion is observed in the 0.1–1.0THz frequency range. Compared to former approaches considerably stronger mode confinement is achieved.
Early Clinical Development of ARQ 197, a Selective, Non–ATP-Competitive Inhibitor Targeting MET Tyrosine Kinase for the Treatment of Advanced Cancers (2011)

Expression of the receptor tyrosine kinase c-MET (MET, mesenchymal-epithelial transition factor) in many cancers, and its participation in multiple signal transduction pathways involved in malignant tumor growth, suggest a wide therapeutic potential for MET inhibition in human cancer. Here we describe the discovery and early clinical development of ARQ 197, a novel, selective, non-ATP-competitive inhibitor of MET. Phase I studies demonstrate that ARQ 197 has a predictable pharmacokinetics and favorable safety profile, making it a potentially ideal partner for combination with cytotoxic chemotherapies and targeted anticancer agents. Results from phase I and phase II trials demonstrate preliminary evidence of anticancer activity. New data from a global phase II randomized trial comparing a combination of ARQ 197 plus erlotinib with erlotinib/placebo, in endothelial growth factor receptor inhibitor-naïve patients with locally advanced/metastatic non-small cell lung cancer, demonstrate improvement in progression-free and overall survival with combined therapy. Results were especially pronounced for patients with non-squamous lung cancer histologies, and in particular molecularly defined subgroups including KRAS mutations. These and other data from ARQ 197 clinical trials in hepatocellular, germ-cell, pancreatic (in combination with gemcitabine), and colorectal (in combination with cetuximab and irinotecan) cancers further highlight the potential role of ARQ 197 in existing and emerging anticancer therapeutic regimens.
Toward third-generation aptamers: Spiegelmers and their therapeutic prospects. (2003)

Single-stranded mirror-image oligonucleotides, which are highly resistant to nuclease degradation and are capable of tightly and specifically binding to protein targets to inhibit their function, have been developed as potential therapeutic agents. The scientific discoveries that led to the development of the Spiegelmer technology are described in this review, along with recent preclinical developments of the first therapeutic Spiegelmers.
Quantum embeddings for machine learning (2020)

Quantum classifiers are trainable quantum circuits used as machine learning models. The first part of the circuit implements a quantum feature map that encodes classical inputs into quantum states, embedding the data in a high-dimensional Hilbert space; the second part of the circuit executes a quantum measurement interpreted as the output of the model. Usually, the measurement is trained to distinguish quantum-embedded data. We propose to instead train the first part of the circuit -- the embedding -- with the objective of maximally separating data classes in Hilbert space, a strategy we call quantum metric learning. As a result, the measurement minimizing a linear classification loss is already known and depends on the metric used: for embeddings separating data using the l1 or trace distance, this is the Helstrom measurement, while for the l2 or Hilbert-Schmidt distance, it is a simple overlap measurement. This approach provides a powerful analytic framework for quantum machine learning and eliminates a major component in current models, freeing up more precious resources to best leverage the capabilities of near-term quantum information processors.
Throughput-Oriented NoC Topology Generation and Analysis for High Performance SoCs (2009)

This paper presents a new approach to the design and analysis of NoC topologies which is based on the transaction-oriented communication methods of on-chip components. We propose two algorithms that attempt to meet the communication requirement of an on-chip application using a minimum number of network resources for the task, by generating application-specific topologies. In addition, to aid the design process of complex systems, the design method incorporates a form of predictive analysis which can estimate the degree of contention in a given system without performing detailed simulation. This predictive analysis method is used to determine the minimum frequency of operation for generated topologies, and is incorporated into the topology generation process. The proposed design method was tested using real-word applications, including an MPEG4 decoder and a multi-window display application. The generated topologies were found to offer similar or better performance when compared with regular topologies. However, the topologies generated by our method were more economical, using, on average, half the network resources of regular topologies.
A urine inhibitor of interleukin 1 activity affects both interleukin 1 <i>alpha</i> and 1 <i>beta</i> but not tumor necrosis factor <i>alpha</i>. (1987)

Urine from monocytic leukemia and other febrile patients contains an inhibitor of interleukin 1 (IL-1), as measured by prostaglandin E2 and collagenase production by human fibroblasts and synovial cells. With the use of recombinant IL-1, the IL-1 inhibitor was partially purified by using ammonium sulfate precipitation, anion-exchange, and gel filtration chromatographies. IL-1 inhibitory activity elutes with an 18,000 to 25,000 apparent molecular size. The same fractions also inhibit IL-1 assayed by the proliferation of murine thymocytes and human fibroblasts. Both forms of human recombinant IL-1, IL-1 alpha and IL-1 beta, which show only 26% homology, but nevertheless bind to the same receptor, are affected by this natural inhibitor to the same extent. In contrast, human recombinant tumor necrosis factor, which shares some of the biologic activities of IL-1, is not inhibited by the urinary IL-1 inhibitor. This study shows that the various biologic activities of both forms of human recombinant IL-1 are inhibited by a partially purified natural urine-derived factor.
A Two-Component <i>Enhancer-Inhibitor</i> Transposon Mutagenesis System for Functional Analysis of the Arabidopsis Genome (1999)

A modified Enhancer-Inhibitor transposon system was used to generate a series of mutant lines by single-seed descent such that multiple I insertions occurred per plant. The distribution of original insertions in the population was assessed by isolating transposon-flanking DNA, and a database of insertion sites was created. Approximately three-quarters of the identified insertion sites show similarity to sequences stored in public databases, which demonstrates the power of this regimen of insertional mutagenesis. To isolate insertions in specific genes, we developed three-dimensional pooling and polymerase chain reaction strategies that we then validated by identifying mutants for the regulator genes APETALA1 and SHOOT MERISTEMLESS. The system then was used to identify inserts in a class of uncharacterized genes involved in lipid biosynthesis; one such insertion conferred a fiddlehead mutant phenotype.
On the luminescence of the Sb<sup>3+</sup>ion in Cs<sub>2</sub>NaMBr<sub>6</sub>(M=Sc,Y,La) (1987)

The luminescence spectra and decay curves of Sb3+-doped Cs2NaMBr6 (M=Sc,Y,La) are presented. In this lattice the Sb3+ ion (5s2) is octahedrally surrounded by six bromide ions. The emission consists of one band. The Stokes shift increases in going from Sc to La. This is connected to the larger space available for the Sb3+ ion in the same sequence. The excitation spectra can be interpreted by assuming a dynamical Jahn-Teller effect to be operative in the excited state of the Sb3+ ion. The results are compared with those for Sb3+ in Cs2NaMCl6 and for monovalent s2 ions in alkali bromides.
Cryptic Distant Relatives Are Common in Both Isolated and Cosmopolitan Genetic Samples (2012)

Although a few hundred single nucleotide polymorphisms (SNPs) suffice to infer close familial relationships, high density genome-wide SNP data make possible the inference of more distant relationships such as 2(nd) to 9(th) cousinships. In order to characterize the relationship between genetic similarity and degree of kinship given a timeframe of 100-300 years, we analyzed the sharing of DNA inferred to be identical by descent (IBD) in a subset of individuals from the 23andMe customer database (n = 22,757) and from the Human Genome Diversity Panel (HGDP-CEPH, n = 952). With data from 121 populations, we show that the average amount of DNA shared IBD in most ethnolinguistically-defined populations, for example Native American groups, Finns and Ashkenazi Jews, differs from continentally-defined populations by several orders of magnitude. Via extensive pedigree-based simulations, we determined bounds for predicted degrees of relationship given the amount of genomic IBD sharing in both endogamous and 'unrelated' population samples. Using these bounds as a guide, we detected tens of thousands of 2(nd) to 9(th) degree cousin pairs within a heterogenous set of 5,000 Europeans. The ubiquity of distant relatives, detected via IBD segments, in both ethnolinguistic populations and in large 'unrelated' populations samples has important implications for genetic genealogy, forensics and genotype/phenotype mapping studies.
Studies on the biosynthesis of clavulanic acid. Part 5. Absolute stereochemistry of proclavaminic acid, the monocyclic biosynthetic precursor of clavulanic acid (1990)

Proclavaminic acid (1) was synthesized by a route which indicated its constitution to be (2S,3R)-5-amino-3-hydroxy-2-(2-oxoazetidin-1-yl)valeric acid. The spectroscopic properties of the synthetic material were identical with those of natural proclavaminic acid, and, like the natural product, it was converted into clavaminic acid (2) by clavaminic acid synthase. An efficient synthesis of 3-hydroxyornithine derivatives was devised which allowed the separation of diastereoisomers and the resolution of a threo compound by the acylase [EC 3.5.1.11] from Escherichia coli. The β-lactam ring was subsequently elaborated by Michael addition of a protected 3-hydroxyornithine to acrylic acid followed by ring closure using triphenylphosphine/di-2-pyridyl disulphide. Model reactions were carried out with enantiomerically pure threonine derivatives to confirm that the formation of the β-lactam moiety did not impair the integrity of the α- and β-chiral centres and that the enzymatic deacylation reaction was capable of resolving the α-centre of an α-amino-β-hydroxy acid. The enantiomeric purity of intermediates was determined using HPLC, 1H NMR spectroscopy utilising the chiral solvating reagents (R)- and (S)-1-(9-anthryl)-2,2,2-trifluoroethanol, and chiral GLC techniques.
Four-Wavelength III-V/SOI Heterogeneous Integrated Laser Based on Sampled Bragg Grating for CWDM (2013)

In this paper, we proposed a novel III-V/SOI heterogeneous distributed feedback laser. Stimulated emission generated in a III-V active waveguide modulated by the underneath silicon sampled Bragg grating results in a four-wavelength laser with 18.5-nm wavelength interval targeting for coarse wavelength-division multiplexing. The four wavelengths can be thermally tuned owing to the thermooptic effect of silicon with tuning bandwidth of 2.4 nm.
Generation of Homogeneous PDX1+ Pancreatic Progenitors from Human ES Cell-derived Endoderm Cells (2009)

One key step in producing insulin-secreting cells from human embryonic stem (hES) cells is the generation of pancreatic and duodenal homeobox gene 1 (PDX1)-expressing pancreatic progenitor cells. All-trans retinoic acid (RA) has important roles in pancreas development and is widely used to induce pancreatic differentiation of ES cells. When RA was added directly to the activin A-induced hES cells, <20% cells were positive for the pancreatic marker PDX1, whereas the other cells were mainly hepatic cells. We found that when the activin A-induced hES cells were replated and seeded at low cell densities, the addition of RA induced significant pancreatic differentiation and over 70% of cells in culture expressed PDX1. When the endodermal cells were isolated with the surface marker CXCR4 from the activin A-induced culture and further differentiated with RA, a homogeneous PDX1 1 cell population (over 95% pure) was generated. The PDX1 1 cells could further differentiate into cells that expressed pancreatic transcription factors and pancreatic endocrine or exocrine markers. We also found that RA inhibited the hepatic differentiation of endodermal cells that were seeded at low cell densities, and this inhibition may have been through the inhibition of Smad1/5/8 activity. Thus, we present a highly efficient and reproducible protocol for generating PDX1 1 pancreatic progenitor cells from hES cells.
Oligonucleotide Arrays for High-Throughput SNPs Detection in the MHC Class I Genes: HLA-B as a Model System (2002)

A simple and efficient oligonucleotide array was developed to identify single nucleotide polymorphisms (SNPs) encoded within the highly polymorphic human major histocompatibility complex (MHC) using HLA-B as a model system. A total of 137 probes were designed to represent all known polymorphisms encoded in exons 2 and 3. PCR products were amplified from human genomic DNA and allowed to hybridize with the oligonucleotide array. Hybridization was detected by fluorescence scanning, and HLA-B alleles were assigned by quantitative analysis of the hybridization results. Variables known to influence the specificity of hybridization, such as oligonucleotide probe size, spacer length, surface density, hybridization conditions, and array uniformity and stability were studied. The efficiency and specificity of identifying HLA-B SNPs using the oligonucleotide arrays was evaluated by blinded analysis of 100 samples from unrelated individuals representing all HLA-B phenotypes. The oligonucleotide array method described in this paper provides unambiguous detection of complex heterozygous SNP combinations. This methodological approach may be applied to other highly polymorphic gene systems.
Growth of immortal simian virus 40 tsA-transformed human fibroblasts is temperature dependent. (1989)

Simian virus 40 (SV40)-mediated transformation of human fibroblasts offers an experimental system for studying both carcinogenesis and cellular aging, since such transformants show the typical features of altered cellular growth but still have a limited life span in culture and undergo senescence. We have previously demonstrated (D. S. Neufeld, S. Ripley, A. Henderson, and H. L. Ozer, Mol. Cell. Biol. 7:2794-2802, 1987) that transformants generated with origin-defective mutants of SV40 show an increased frequency of overcoming senescence and becoming immortal. To clarify further the role of large T antigen, we have generated immortalized transformants by using origin-defective mutants of SV40 encoding a heat-labile large T antigen (tsA58 transformants). At a temperature permissive for large-T-antigen function (35 degrees C), the cell line AR5 had properties resembling those of cell lines transformed with wild-type SV40. However, the AR5 cells were unable to proliferate or form colonies at temperatures restrictive for large-T-antigen function (39 degrees C), demonstrating a continuous need for large T antigen even in immortalized human fibroblasts. Such immortal temperature-dependent transformants should be useful cell lines for the identification of other cellular or viral gene products that induce cell proliferation in human cells.
An EDA-friendly protection scheme against side-channel attacks (2013)

This paper introduces a generic and automated methodology to protect hardware designs from side-channel attacks in a manner that is fully compatible with commercial standard cell design flows. The paper describes a tool that artificially adds jitter to the clocks of the sequential elements of a cryptographic unit, which increases the non-determinism of signal timing, thereby making the physical device more difficult to attack. Timing constraints are then specified to commercial EDA tools, which restore the circuit functionality and efficiency while preserving the introduced randomness. The protection scheme is applied to an AES-128 hardware implementation that is synthesized using both ASIC and FPGA design flows.
Human fibroblastoid interferon: immunosorbent column chromatography and N-terminal amino acid sequence (1980)

Three mice and one rabbit were inoculated with purified human fibroblastoid interferon. Neutralizing activity to human fibroblastoid interferon was observed in the serum of these animals with the rabbit showing the highest anti-interferon titers (10(6) neutralizing units/mL). Rabbit antiserum was coupled to cyanogen bromide activated Sepharose, and the resulting material was tested for use in the purification of human fibroblastoid interferon. Pure interferon obtained by this procedure was analyzed, and we report the sequence of the first 13 N-terminal amino acid residues of this protein.