gebhart/patrepeval huggingface dataset:
A Near Edge X-ray Absorption Fine Structure Spectroscopy Investigation of the Structure of Self-Assembled Films of Octadecyltrichlorosilane (2002)

Polarization-dependent near edge X-ray absorption fine structure (NEXAFS) spectroscopy was used to determine the ordering of octadecyltrichlorosilane (OTS) molecules in self-assembled (SA) films on Si/SiOx. Coverages of adsorbed material for different SA films were determined by integration of the NEXAFS signal due entirely to the C 1s absorption. The structures and coverages of the SA films deposited by chemisorption from solution in toluene were determined for two different deposition conditions: (1) open to the atmosphere and (2) water- and oxygen-free conditions inside a drybox. SA films of OTS deposited under ambient air conditions grew as islands on the substrate and were well-ordered as indicated by a strong polarization-dependence in the NEXAFS spectra. For depositions performed in the drybox, ordered or disordered films grew uniformly over the substrate. Ordered SA films deposited in the drybox exhibited higher average tilt angles and lower coverages of adsorbed material than SA films deposited under ambient air conditions. The structure and coverage are discussed with respect to results from measurements of contact angles of water and ellipsometry.
Administration of monoclonal anti-T cell antibodies retards murine lupus in BXSB mice. (1986)

Murine lupus in BXSB mice is associated with B cell hyperactivity, monocyte proliferation, and impaired T cell function. However, the significance of these abnormalities, and the relationship among them, has not been clearly established. To examine the role of T cells in the pathogenesis of autoimmune disease in BXSB mice, we depleted specific T cell subsets from BXSB males by using rat IgG2b monoclonal antibodies (MAb) to either Thy-1.2 (on all T cells) or L3T4 (on "helper/inducer" T cells). A single injection of anti-Thy-1.2 (6 mg i.v.) at age 3 mo produced a sustained 40 to 50% reduction in circulating T cells for 6 mo. Treatment prevented monocytosis, reduced anti-DNA antibody concentration, and retarded renal disease, but it did not prolong life. Repeated injections of rat MAb to Thy-1.2 were precluded by the development of a host immune response to rat immunoglobulin (Ig) that can cause anaphylaxis in BXSB mice. In contrast, rat MAb to L3T4 stimulated little or no immune response to rat Ig. We therefore were able to treat BXSB mice weekly with anti-L3T4 (2 mg i.p.) from age 3 to 12 mo. Treatment reduced circulating L3T4+ cells beneath the level of detection by fluorescence analysis. It also significantly reduced monocytosis, anti-DNA antibody production, renal disease, and mortality. These findings establish that monocytosis and autoimmunity in BXSB mice are promoted by T cells. They extend our previous observation that MAb to L3T4 retard autoimmunity in NZB/NZW F1 mice. Our finding that treatment with MAb to L3T4 is effective in two strains of lupus-prone mice suggests that treatment with MAb to Leu-3/T4, the human homologue for L3T4, may be effective in people with systemic lupus erythematosus.
Activation of JNK3α1 Requires both MKK4 and MKK7:  Kinetic Characterization of in Vitro Phosphorylated JNK3α1 (2000)

JNK3 alpha 1 is predominantly a neuronal specific MAP kinase that is believed to require, like all MAP kinases, both threonine and tyrosine phosphorylation for maximal enzyme activity. In this study we investigated the in vitro activation of JNK3 alpha 1 by MAP kinase kinase 4 (MKK4), MAP kinase kinase 7 (MKK7), and the combination of MKK4 + MKK7. Mass spectral analysis showed that MKK7 was capable of monophosphorylating JNK3 alpha 1 in vitro, whereas both MKK4 and MKK7 were required for bisphosphorylation and maximal enzyme activity. Measuring catalysis under Vmax conditions showed MKK4 + MKK7-activated JNK3 alpha 1 had Vmax 715-fold greater than nonactivated JNK3 alpha 1 and MKK7-activated JNK3 alpha 1 had Vmax 250-fold greater than nonactivated JNK3 alpha 1. In contrast, MKK4-activated JNK3 alpha 1 had no increase in Vmax compared to nonactivated levels and had no phosphorylation on the basis of mass spectrometry. These data suggest that MKK7 was largely responsible for JNK3 alpha 1 activation and that a single threonine phosphorylation may be all that is needed for JNK3 alpha 1 to be active. The steady-state rate constants kcat, Km(GST-ATF2++), and Km(ATP) for both monophosphorylated and bisphosphorylated JNK3 alpha 1 were within 2-fold between the two enzyme forms, suggesting the addition of tyrosine phosphorylation does not affect the binding of ATF2, ATP, or maximal turnover. Finally, the MAP kinase inhibitor, SB203580, had an IC50 value approximately 4-fold more potent on the monophosphorylated JNK3 alpha 1 compared to the bisphosphorylated JNK3 alpha 1, suggesting only a modest effect of tyrosine phosphorylation on inhibitor binding.
Characteristics of Serine Acetyltransferase from<i>Escherichia coli</i>Deleting Different Lengths of Amino Acid Residues from the C-Terminus (2000)

Some properties of serine acetyltransferases (SATs) from Escherichia coli, deleting 10-25 amino acid residues from the C-terminus (SATdeltaC10-deltaC25) were investigated. The specific activity depended only slightly on the length of the C-terminal region deleted. Although the sensitivity of SATdeltaC10 to inhibition by L-cysteine was similar to that for the wild-type SAT, it became less with further increases in the length of the amino acid residues deleted. SATdeltaC10 was inactivated on cooling to 0 degrees C and dissociated into dimers or trimers in the same manner as the wild-type SAT, but Met-256-le mutant SAT as well as SATdeltaC14, SATdeltaC20, and SATdeltaC25 were stable. Since SATdeltaC10, SATdeltaC14, and SATdeltaC25 did not form a complex with O-acetylserine sulfhydrylase-A (OASS-A) in a way similar to SATdeltaC20, it was indicated that 10 amino acid residues or fewer from the C-terminus of the wild-type SAT are responsible for the complex formation with OASS-A. The C-terminal peptide of the 10 amino acid residues interacted competitively with OASS-A with respect to OAS although its affinity was much lower than that for the wild-type SAT.
Unicode Support in the CJK Package (2008)

KEYWORDS Unicode, UTF-8, CJK, LATEX, CJKutf8, font encoding, character set, X E TEX, PDF, bookmarks. ABSTRACT This article describes how the CJK package for LATEX handles Unicode encoded characters. Using the CJKutf8.sty file, LATEX's native Unicode handling is com- bined with CJK's capabilities for CJKV scripts. Another recent extension is sup- port for X E TEX which is here described also.
A Unified Approach for the Derivation of Robust Control for Boost PFC Converters (2009)

In this paper, a generalized approach for the systematic generation of robust control rules for the boost power factor correction converter is presented. Based on a cascading multiloop control structure, a unified approach for deriving the control functions for the inner current loop and the outer voltage loop is proposed. The resulting control provides unity power factor and regulated average output voltage with fast transient response. The control performance is robust under all practical conditions as a result of the application of feedback linearization. This method eliminates the nonlinearity and the dependence of the error dynamics on the input disturbance. The control parameters can be designed according to the desired steady-state and transient response performances. The resulting control rules are readily implemented in analog circuitries. Experiments are conducted to evaluate the control performance.
Interpolation using the discrete cosine transform (1992)

Zooming and zero padding interpolation algorithms based on the conventional discrete cosine transform (DCT) are presented. The DCT algorithms are shown to be more accurate and outperform algorithms based on the Wang modified DCT-I which was proposed to replace the DCT for interpolation purposes.
Molecular Epidemiology of HIV Transmission in a Dental Practice (1992)

Human immunodeficiency virus type 1 (HIV-1) transmission from infected patients to health-care workers has been well documented, but transmission from an infected health-care worker to a patient has not been reported. After identification of an acquired immunodeficiency syndrome (AIDS) patient who had no known risk factors for HIV infection but who had undergone an invasive procedure performed by a dentist with AIDS, six other patients of this dentist were found to be HIV-infected. Molecular biologic studies were conducted to complement the epidemiologic investigation. Portions of the HIV proviral envelope gene from each of the seven patients, the dentist, and 35 HIV-infected persons from the local geographic area were amplified by polymerase chain reaction and sequenced. Three separate comparative genetic analyses--genetic distance measurements, phylogenetic tree analysis, and amino acid signature pattern analysis--showed that the viruses from the dentist and five dental patients were closely related. These data, together with the epidemiologic investigation, indicated that these patients became infected with HIV while receiving care from a dentist with AIDS.
Everyone's a (Future) Chemist (2002)

The development of small, portable "lab-on-a-chip" devices has the potential to provide individuals with the tools for complex chemical and biochemical analysis. In his Perspective, Burns charts recent progress toward fabricating such devices. He highlights the report by Terray et al., who use latex spheres manipulated by optical traps to pump fluids. The integration of such components into larger, more complex devices will open up applications from airborne contaminant detection to genetic testing and screening.
Anticancer activities of adenine nucleotides in mice are mediated through expansion of erythrocyte ATP pools. (1989)

ATP and AMP exhibit significant anticancer activities against established footpad CT26 colon adenocarcinoma in CB6F1 mice. Adenosine, inorganic phosphate, and inorganic pyrophosphate were without such effects under identical conditions. Daily intraperitoneal injections of adenine nucleotides in large volumes of saline, starting after the tumors became palpable, resulted in inhibition of tumor growth and a few "cures." The treatment was not toxic to the host as determined by changes in body weights. Weight loss observed in animals upon progression of the fast-growing CT26 tumors was slowed markedly in adenine nucleotide-treated mice. The inhibition of weight loss in tumor-bearing mice was shown to be neither the cause nor the effect of the inhibition of tumor growth. Intraperitoneal injections of AMP or ATP but not of adenosine yielded expansions of erythrocyte ATP pools in host animals. The expanded erythrocyte ATP pools are stable over a period of hours, while slowly releasing micromolar amounts of ATP into the blood plasma compartment, leading to several-fold increases in plasma (extracellular) ATP levels. Based on previous studies in which 1-5 microM extracellular ATP effectively inhibited the growth of a variety of tumor cells in several in vitro systems, it is suggested that similar levels of ATP in blood plasma account for the anticancer activities observed in a murine host.
UV-assisted rotational moulding of microstructures using a conventional flexographic printing machine (2003)

This paper pertains to the development of a system for micro replication that has been successfully implemented on a conventional flexographic printing machine. The core technology in the system is UV assisted rotational moulding using an elastomer as the micro mould and UV curable polymers as the casting material.
A General Algorithm for Computing Distance Transforms in Linear Time (2005)

A new general algorithm for computing distance transforms of digital images is presented. The algorithm consists of two phases. Both phases consist of two scans, a forward and a backward scan. The first phase scans the image column-wise, while the second phase scans the image row-wise. Since the computation per row (column) is independent of the computation of other rows (columns), the algorithm can be easily parallelized on shared memory computers. The algorithm can be used for the computation of the exact Euclidean, Manhattan (L 1 norm), and chessboard distance (L ∞ norm) transforms.
Structural Basis for Acceptor Substrate Recognition of a Human Glucuronyltransferase, GlcAT-P, an Enzyme Critical in the Biosynthesis of the Carbohydrate Epitope HNK-1 (2004)

The HNK-1 carbohydrate epitope is found on many neural cell adhesion molecules. Its structure is characterized by a terminal sulfated glucuronyl acid. The glucuronyltransferases, GlcAT-P and GlcAT-S, are involved in the biosynthesis of the HNK-1 epitope, GlcAT-P as the major enzyme. We overexpressed and purified the recombinant human GlcAT-P from Escherichia coli. Analysis of its enzymatic activity showed that it catalyzed the transfer reaction for N-acetyllactosamine (Galbeta1-4GlcNAc) but not lacto-N-biose (Galbeta1-3GlcNAc) as an acceptor substrate. Subsequently, we determined the first x-ray crystal structures of human GlcAT-P, in the absence and presence of a donor substrate product UDP, catalytic Mn(2+), and an acceptor substrate analogue N-acetyllactosamine (Galbeta1-4GlcNAc) or an asparagine-linked biantennary nonasaccharide. The asymmetric unit contains two independent molecules. Each molecule is an alpha/beta protein with two regions that constitute the donor and acceptor substrate binding sites. The UDP moiety of donor nucleotide sugar is recognized by conserved amino acid residues including a DXD motif (Asp(195)-Asp(196)-Asp(197)). Other conserved amino acid residues interact with the terminal galactose moiety of the acceptor substrate. In addition, Val(320) and Asn(321), which are located on the C-terminal long loop from a neighboring molecule, and Phe(245) contribute to the interaction with GlcNAc moiety. These three residues play a key role in establishing the acceptor substrate specificity.
Interaction of spin-labeled nucleotides with sarcoplasmic reticulum adenosine triphosphatase (1988)

Spin-labeled derivatives of AMP-PCP, ATP, and 2'-deoxy-ATP, with a nitroxide moiety attached to the ribose ring [3'-O-(1-oxy-2,2,5,5-tetramethylpyrroline-3-carbonyl)nucleotide], are used to study the nucleotide binding site stoichiometry of sarcoplasmic reticulum (SR) ATPase. With all derivatives, a maximal binding of 4.5 nmol/mg of SR protein is found, a value close to the number of phosphorylation sites obtained with ATP. The spin-labeled nucleotides cannot be utilized by the enzyme as substrates. Binding of spin-labeled nucleotides is inhibited by labeling the ATPase with fluorescein 5'-isothiocyanate, indicating that all the labeled nucleotide is located at the catalytic site. Additions of spin-labeled ATP to vesicle suspensions during steady turnover demonstrate competitive inhibition of both catalysis and the regulatory effect normally exhibited by ATP. As secondary binding of spin-labeled ATP is not detected at pertinent concentrations, it is suggested that both functions of ATP may be effected through a single site.
A sub-module capacitor voltage balancing scheme for the Alternate Arm Converter (AAC) (2013)

A per-phase sub-module capacitor voltage balancing scheme for the Alternate Arm Converter (AAC) is proposed. Leg balancing regulates the sum of sub-module capacitor voltages in a leg to its set-point. Arm balancing regulates each sub-module capacitor voltage to the nominal sub-module capacitor voltage. Additional converter control requirements and the modulation scheme are also discussed. The control and modulation scheme has been verified by simulation. The leg balancing control loop was designed to be critically damped to primarily limit oscillations in the output variable caused by changes in AC-side power demands; the simulation results indicated this specification was met.
Hysteroscopic sterilization--a routine method? (1977)

Our intention was to sterilize 50 women by means of hysteroscopic sterilization, and we were unsuccessful in 60% of these cases. All these women ran the risk of another pregnancy with hysteroscopic sterilization alone. Therefore--in our opinion--the method of hysteroscopic sterilization by thermocoagulation of the intramural part of the tubes is not yet a routine method, at least not before another modification of this method or instruments makes it possible to obtain better results.
Musclin, a Novel Skeletal Muscle-derived Secretory Factor (2004)

Skeletal muscle is involved in the homeostasis of glucose and lipid metabolism. We hypothesized that the skeletal muscle produces and secretes bioactive factor(s), similar to adipocytokines secreted by fat tissue. Here, we report the identification of a novel secretory factor, musclin, by signal sequence trap of mouse skeletal muscle cDNAs. Musclin cDNA encoded 130 amino acids, including NH(2)-terminal 30-amino acid signal sequence. Musclin protein contained a region homologous to natriuretic peptide family, and KKKR, a putative serine protease cleavage site, similar to the natriuretic peptide family. Full-length musclin protein and KKKR-dependent cleaved form were secreted in media of musclin cDNA-transfected mammalian cell cultures. Musclin mRNA was expressed almost exclusively in the skeletal muscle of mice. Musclin mRNA levels in skeletal muscle were markedly low in fasted, increased upon re-feeding, and were low in streptozotocin-treated insulin-deficient mice. Musclin mRNA expression was induced at late stage in the differentiation of C2C12 myocytes. In myocytes, insulin increased, while epinephrine, isoproterenol, and forskolin reduced musclin mRNA, all of which are known to increase the cellular content of cyclic AMP, a counter-regulator to insulin. Pathologically, overexpression of musclin mRNA was noted in the muscles of obese insulin-resistant KKAy mice. Functionally, recombinant musclin significantly attenuated insulin-stimulated glucose uptake and glycogen synthesis in myocytes. In conclusion, we identified musclin, a novel skeletal muscle-derived secretory factor. Musclin expression level is tightly regulated by nutritional changes and its physiological role could be linked to glucose metabolism.
Non-alcoholic fatty liver disease and obesity: Biochemical, metabolic and clinical presentations (2014)

Non-alcoholic fatty liver disease (NAFLD) is the most common liver disease in the world. Presentation of the disease ranges from simple steatosis to non-alcoholic steatohepatitis (NASH). NAFLD is a hepatic manifestation of metabolic syndrome that includes central abdominal obesity along with other components. Up to 80% of patients with NAFLD are obese, defined as a body mass index (BMI) > 30 kg/m(2). However, the distribution of fat tissue plays a greater role in insulin resistance than the BMI. The large amount of visceral adipose tissue (VAT) in morbidly obese (BMI > 40 kg/m(2)) individuals contributes to a high prevalence of NAFLD. Free fatty acids derived from VAT tissue, as well as from dietary sources and de novo lipogenesis, are released to the portal venous system. Excess free fatty acids and chronic low-grade inflammation from VAT are considered to be two of the most important factors contributing to liver injury progression in NAFLD. In addition, secretion of adipokines from VAT as well as lipid accumulation in the liver further promotes inflammation through nuclear factor kappa B signaling pathways, which are also activated by free fatty acids, and contribute to insulin resistance. Most NAFLD patients are asymptomatic on clinical presentation, even though some may present with fatigue, dyspepsia, dull pain in the liver and hepatosplenomegaly. Treatment for NAFLD and NASH involves weight reduction through lifestyle modifications, anti-obesity medication and bariatric surgery. This article reviews the available information on the biochemical and metabolic phenotypes associated with obesity and fatty liver disease. The relative contribution of visceral and liver fat to insulin resistance is discussed, and recommendations for clinical evaluation of affected individuals is provided.
Inference of Historical Changes in Migration Rate From the Lengths of Migrant Tracts (2008)

After migrant chromosomes enter a population, they are progressively sliced into smaller pieces by recombination. Therefore, the length distribution of "migrant tracts" (chromosome segments with recent migrant ancestry) contains information about historical patterns of migration. Here we introduce a theoretical framework describing the migrant tract length distribution and propose a likelihood inference method to test demographic hypotheses and estimate parameters related to a historical change in migration rate. Applying this method to data from the hybridizing subspecies Mus musculus domesticus and M. m. musculus, we find evidence for an increase in the rate of hybridization. Our findings could indicate an evolutionary trajectory toward fusion rather than speciation in these taxa.
An Epstein-Barr virus protein associated with cell growth transformation interacts with a tyrosine kinase (1991)

Epstein-Barr virus (EBV) encodes two integral membrane proteins in latently infected growth-transformed cells. One of these, LMP1, can transform rodent fibroblasts and induce markers of B-lymphocyte activation. The second, LMP2, colocalizes with LMP1 in a constitutive patch in the EBV-transformed B-lymphocyte plasma membrane. The experiments reported here demonstrate that LMP2 may biochemically interact with LMP1 and that LMP2 closely associates with and is an important substrate for a B-lymphocyte tyrosine kinase in EBV-transformed B lymphocytes or in B-lymphoma cells in which LMP2 is expressed by gene transfer. LMP2 is also serine and threonine phosphorylated. LMP2 localizes to a peripheral membrane (presumably plasma membrane) patch in transfected B-lymphoma cells and colocalizes with much of the cellular tyrosine-phosphorylated proteins. LMP2 undergoes tyrosine phosphorylation in anti-LMP2 or antiphosphotyrosine immunoprecipitates from transfected B-lymphoma cells or EBV-transformed B lymphocytes. The first 167 of the 497 amino acids of LMP2 retain full ability to associate with and act as a substrate for a tyrosine kinase. A 70-kDa phosphotyrosine cell protein associates with LMP2 in transfected cells or in EBV-transformed B lymphocytes and could be a mediator of the effects of LMP2.
Column-stores vs. row-stores (2008)

There has been a significant amount of excitement and recent work on column-oriented database systems ("column-stores"). These database systems have been shown to perform more than an order of magnitude better than traditional row-oriented database systems ("row-stores") on analytical workloads such as those found in data warehouses, decision support, and business intelligence applications. The elevator pitch behind this performance difference is straightforward: column-stores are more I/O efficient for read-only queries since they only have to read from disk (or from memory) those attributes accessed by a query.