gebhart/patrepeval huggingface dataset:
Prompt tumor formation and maintenance of constitutive NF‐κB activity of multiple myeloma cells in NOD/SCID/γCnull mice (2004)

Clinically and biologically relevant animal models are indispensable to evaluate both the pathophysiology and strategies for diagnosis and treatment of multiple myeloma (MM). We examined the tumorigenicity of MM cell lines KMM-1 and U-266 in an in vivo cell proliferation model using NOD/SCID/gammacnull (NOG) mice. Two cell lines were inoculated either subcutaneously (s.c.) in the post-auricular region or intravenously (i.v.) in the tail of NOG mice. The KMM-1 cell line produced a progressively growing large tumor with infiltration of the cells expressing human lambda-chain in various organs of all NOG mice, while the U-266 cell line failed to do so. Tumor cells grown in NOG mice maintained the original histomorphology, as well as expression patterns of tumor markers human lambda Ig light chain and VEGF. Tumor progression in mice also correlated with elevation of serum human soluble IL-6R and gp130. Tumor cells sustained a strong NF-kappaB activity in vivo and induced NF-kappaB components were indistinguishable from those in cells cultured in vitro. The rapid and efficient engraftment of the MM cell line in NOG mice suggests that this is a very useful animal model which could provide a novel system in which to clarify the mechanism of growth of cancer cells, as well as to develop new therapeutic regimens against MM.
Monolithic 3D BEOL FinFET switch arrays using location-controlled-grain technique in voltage regulator with better FOM than 2D regulators (2019)

Monolithic 3D back-end of line (BEOL) FinFET switch arrays are demonstrated in large single crystalline Si islands (2.56 μm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> ), whose location, size and shape are determined by design. Details of the improved location-controlled-grain (LCG) technique are presented. A voltage regulator implemented with the BEOL switch arrays using external control signals shows better theoretical figure of merit (FOM) of 0.089ns than 2D voltage regulators of 0.43ns.
Therapeutic strategies for atypical and recurrent hemolytic uremic syndromes (HUS) (2006)

Therapy of recurrent/aHUS is not evidence based. However, several reports in the literature and the personal experience of the authors suggests that many patients with complement disorders respond well to any form of plasma therapy. Most centers prefer plasma exchange in the beginning and continue with plasma infusion as mainstay or prophylaxis. Despite this active and vigorous regimen many patients succumb to end-stage renal disease. Transplantation of either kidney alone or combined kidney/liver transplantation bear a high risk of recurrence. New therapeutic strategies are therefore absolutely mandatory. Hopefully, new insights in the mechanisms of disease and perhaps new complement inhibitors (such as humanized anti C5 antibodies) may improve treatment and outcome of these poor patients.
Evolutionary analysis of the influenza A virus M gene with comparison of the M1 and M2 proteins (1991)

Phylogenetic analysis of 42 membrane protein (M) genes of influenza A viruses from a variety of hosts and geographic locations showed that these genes have evolved into at least four major host-related lineages: (i) A/Equine/prague/56, which has the most divergent M gene; (ii) a lineage containing only H13 gull viruses; (iii) a lineage containing both human and classical swine viruses; and (iv) an avian lineage subdivided into North American avian viruses (including recent equine viruses) and Old World avian viruses (including avianlike swine strains). The M gene evolutionary tree differs from those published for other influenza virus genes (e.g., PB1, PB2, PA, and NP) but shows the most similarity to the NP gene phylogeny. Separate analyses of the M1 and M2 genes and their products revealed very different patterns of evolution. Compared with other influenza virus genes (e.g., PB2 and NP), the M1 and M2 genes are evolving relatively slowly, especially the M1 gene. The M1 and M2 gene products, which are encoded in different but partially overlapping reading frames, revealed that the M1 protein is evolving very slowly in all lineages, whereas the M2 protein shows significant evolution in human and swine lineages but virtually none in avian lineages. The evolutionary rates of the M1 proteins were much lower than those of M2 proteins and other internal proteins of influenza viruses (e.g., PB2 and NP), while M2 proteins showed less rapid evolution compared with other surface proteins (e.g., H3HA). Our results also indicate that for influenza A viruses, the evolution of one protein of a bicistronic gene can affect the evolution of the other protein.(ABSTRACT TRUNCATED AT 400 WORDS)
The autonomous underwater glider "Spray" (2001)

A small (50-kg, 2-m long) underwater vehicle with operating speeds of 20-30 cm/s and ranges up to 6000 km has been developed and field tested. The vehicle is essentially an autonomous profiling float that uses a buoyancy engine to cycle vertically and wings to glide horizontally while moving up and down. Operational control and data relay is provided by GPS navigation and two-way communication through ORBCOMM low-Earth-orbit satellites. Missions are envisioned with profile measurements repeated at a station or spaced along a transect. The initial instrument complement of temperature, conductivity, and pressure sensors was used to observe internal waves and tides in the Monterey underwater canyon.
A framework for authorship identification of online messages: Writing‐style features and classification techniques (2005)

Abstract With the rapid proliferation of Internet technologies and applications, misuse of online messages for inappropriate or illegal purposes has become a major concern for society. The anonymous nature of online‐message distribution makes identity tracing a critical problem. We developed a framework for authorship identification of online messages to address the identity‐tracing problem. In this framework, four types of writing‐style features (lexical, syntactic, structural, and content‐specific features) are extracted and inductive learning algorithms are used to build feature‐based classification models to identify authorship of online messages. To examine this framework, we conducted experiments on English and Chinese online‐newsgroup messages. We compared the discriminating power of the four types of features and of three classification techniques: decision trees, backpropagation neural networks, and support vector machines. The experimental results showed that the proposed approach was able to identify authors of online messages with satisfactory accuracy of 70 to 95%. All four types of message features contributed to discriminating authors of online messages. Support vector machines outperformed the other two classification techniques in our experiments. The high performance we achieved for both the English and Chinese datasets showed the potential of this approach in a multiple‐language context.
MicroRNAs: Critical Regulators of Development, Cellular Physiology and Malignancy (2005)

MicroRNAs (miRNAs) are 18-24 nucleotide RNA molecules that regulate the stability or translational efficiency of target mRNAs. These regulatory RNAs function by acting as sequence-specific guides which recruit a large protein complex known as the RNA-induced silencing complex, or RISC, to target mRNAs which are subsequently silenced. Diverse functions have been attributed to miRNAs including the regulation of cellular differentiation, proliferation, and apoptosis. Moreover, significant evidence has accumulated implicating a fundamental role for miRNAs in the development of cancer. We recently demonstrated that the oncogenic transcription factor c-Myc regulates a group of miRNAs known as the mir-17 cluster. This represents the first documented example of a mammalian transcription factor that regulates miRNA expression. Moreover, it was independently demonstrated that the mir-17 cluster accelerates c-Myc-induced lymphomagenesis in an in vivo mouse model. Together, these studies support an important role for this group of miRNAs in c-Myc-mediated tumorigenesis. We have also demonstrated that two miRNAs in this cluster regulate the pro-proliferative, pro-apoptotic transcription factor E2F1. Herein, we propose a model in which the mir-17 cluster prevents excessive E2F1 activity, and thereby apoptosis, in response to activation of c-Myc.
Partial compensation signal-level-based up-link power control to extend terminal battery duration (2001)

Power control (PC) techniques have been studied for years with the aim of reducing interference and allowing efficient battery energy management. Among PC algorithms, those based on the signal-level (not on cochannel interference) show good characteristics in terms of network stability and provide optimum downlink performance when a half-compensation scheme is used instead of a full-compensation algorithm. This work is concerned with partial (including the full and half cases) compensation signal-level-based PC algorithms and their impact on battery duration of mobile terminals, i.e., the uplink is investigated. A time division multiple access (TDMA)-based cellular system is considered. The effect of a slow PC, i.e., following only slow channel fluctuations, on the average transmitted power of mobile terminals is evaluated through a completely analytical model; both ideal and nonideal PC are considered. Starting from suitable requirements on radio coverage, we show that a half-compensation PC scheme is often a good choice for extending terminal battery life (thus, also reducing health risks).
Proprotein convertase subtilisin kexin 9: the third locus implicated in autosomal dominant hypercholesterolemia (2005)

PCSK9 is the third locus implicated in autosomal dominant hypercholesterolemia (Hchola3), and it appears to play an important role in cellular cholesterol metabolism. Understanding the function of PCSK9 will be important for broadening our knowledge of LDL metabolism and may aid in the development of novel hypocholesterolemic agents.
Redirection of sialic acid metabolism in genetically engineered Escherichia coli (2001)

Most microorganisms do not produce sialic acid (sialate), and those that do appear to use a biosynthetic mechanism distinct from mammals. Genetic hybrids of nonpathogenic, sialate-negative laboratory Escherichia coli K-12 strains designed for the de novo synthesis of the polysialic acid capsule from E. coli K1 proved useful in elucidating the genetics and biochemistry of capsule biosynthesis. In this article we propose a dynamic model of sialometabolism to investigate the effects of biosynthetic neu (N-acetylneuraminic acid) and catabolic nan (N-acylneuraminate) mutations on the flux of intermediates through the sialate synthetic pathway. Intracellular sialate concentrations were determined by high pH anion exchange chromatography with pulsed amperometric detection. The results indicated that a strain carrying a null defect in the gene encoding polysialyltransferase (neuS) accumulated > 50 times more CMP-sialic acid than the wild type when strains were grown in a minimal medium supplemented with glucose and casamino acids. Metabolic accumulation of CMP-sialic acid depended on a functional sialic acid synthase (neuB), as shown by the inability of a strain lacking this enzyme to accumulate a detectable endogenous sialate pool. The neuB mutant concentrated trace sialate from the medium, indicating its potential value for quantitative analysis of free sialic acids in complex biological samples. The function of the sialate aldolase (encoded by nanA) in limiting intermediate flux through the synthetic pathway was determined by analyzing free sialate accumulation in neuA (CMP-sialic acid synthetase) nanA double mutants. The combined results demonstrate how E. coli avoids a futile cycle in which biosynthetic sialate induces the system for its own degradation and indicate the feasibility of generating sialooligosaccharide precursors through targeted manipulation of sialate metabolism.
V-movement, levels of representation and the structure of S (1994)

DOAJ is a unique and extensive index of diverse open access journals from around the world, driven by a growing community, committed to ensuring quality content is freely available online for everyone.
Interpreting the Behavior of Enzymes Purpose or Pedigree? (1988)

To interpret the growing body of data describing the structural, physical, and chemical behaviors of biological macromolecules, some understanding must be developed to relate these behaviors to the evolutionary processes that created them. Behaviors that are the products of natural selection reflect biological function and offer clues to the underlying chemical principles. Nonselected behaviors reflect historical accident and random drift. This review considers experimental data relevant to distinguishing between nonfunctional and functional behaviors in biological macromolecules. In the first segment, tools are developed for building functional and historical models to explain macromolecular behavior. These tools are then used with recent experimental data to develop a general outline of the relationship between structure, behavior, and natural selection in proteins and nucleic acids. In segments published elsewhere, specific functional and historical models for three properties of enzymes--kinetics, stereospecificity, and specificity for cofactor structures--are examined. Functional models appear most suitable for explaining the kinetic behavior of proteins. A mixture of functional and historical models appears necessary to understand the stereospecificity of enzyme reactions. Specificity for cofactor structures appears best understood in light of purely historical models based on a hypothesis of an early form of life exclusively using RNA catalysis.
Stress-induced birefringence in large-mode-area micro-structured optical fibers (2005)

We report on detailed numerical investigation of stress-induced birefringence in micro-structured solid-core optical fibers. The stress is induced either by external forces or stress applying parts inside the fiber. Both methods lead to different stress distributions where screening as well as enhancement effects due to the air-hole micro-structuring could be observed. Furthermore, we discuss the potential of the realization of polarization-maintaining low-nonlinearity micro-structured fibers that are suitable for applications in ultrafast optics.
A Capillary Ion Source for the Cyclotron (1939)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation M. Stanley Livingston, M. G. Holloway, C. P. Baker; A Capillary Ion Source for the Cyclotron. Rev Sci Instrum 1 February 1939; 10 (2): 63–67. https://doi.org/10.1063/1.1751482 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAIP Publishing PortfolioReview of Scientific Instruments Search Advanced Search |Citation Search
Cloning and expression in Escherichia coli of the gene encoding Aspergillus flavus urate oxidase. (1992)

Amino acid sequencing of peptides obtained after proteolytic hydrolysis of Aspergillus flavus urate oxidase (uricase) permitted the design of oligodeoxynucleotide probes that were used to obtain 1.2- and 5-kilobase pair DNA fragments from A. flavus cDNA and genomic libraries, respectively. The cDNA fragment contained the entire coding region for uricase, and comparison with the genomic fragment revealed the presence of two short introns in the coding region of the gene. A. flavus uricase has around 40% overall identity with uricases from higher organisms but with many conserved amino acids. Hitherto highly conserved consensus patterns found in other uricases were found to be modified in the A. flavus enzyme, notably the sequence Val-Leu-Lys-Thr-Thr-Gln-Ser near position 150, which in the filamentous fungus is uniquely modified to Val-Leu-Lys-Ser-Thr-Asn-Ser. Silent mutations were introduced by cassette mutagenesis near the 5'-extremity of the coding sequence in order to conform with Escherichia coli codon usage, and the uricase was expressed in the E. coli cytoplasm in a completely soluble, biologically active form.
An operational framework for value-passing processes (1994)

This paper develops a semantic framework for concurrent languages with value passing. An operation analogous to substitution in the λ-calculus is given, and a semantics is given for a value-passing version of Milner's Calculus of Communicating Systems (CCS). An operational equivalence is then defined and shown to coincide with Milner's (early) bisimulation equivalence. We also show how semantics maybe given for languages with asynchronous communication primitives. In contrast with existing approaches to value passing, this semantics does not reduce data exchange to pure synchronization over (potentially infinite) families of ports indexed by data, and it avoids variable renamings that are not local to processes engaged in communication.
An Evaluation of Peptide‐Bond Isosteres (2011)

Peptide-bond isosteres can enable a deep interrogation of the structure and function of a peptide or protein by amplifying or attenuating particular chemical properties. In this Minireview, the electronic, structural, and conformational attributes of four such isosteres-thioamides, esters, alkenes, and fluoroalkenes-are examined in detail. In particular, the ability of these isosteres to partake in noncovalent interactions is compared with that of the peptide bond. The consequential perturbations provide a useful tool for chemical biologists to reveal new structure-function relationships, and to endow peptides and proteins with desirable attributes.
Isostatic diffusion bonding of microduplex stainless steel (1992)

AbstractStudies of isostatic diffusion bonding of microduplex stainless steel have been made for two surface finishes at temperatures in the range 1200–1320 K for times of up to 10 h and pressures of up to 2·8 MPa. Bond quality has been assessed using metallography, compressive lap shear testing, and scanning electron microscopy of the fracture faces of lap shear testpieces. Sound bonds were observed with recrystallisation across the bondline for a range of conditions, although it was always possible to detect the mterface because of the presence of small oxide particles. Bonding at temperatures <1273 K led to hardening and embrittlement of the steel owing to σ phase formation. Comparison of experimental bonding times for a pressure of 2·1 MPa with times predicted by an isostatic diffusion bonding model showed substantial discrepancies. Although the discrepancies could partly be a result of uncertainties in the material parameters used in the model, it is probable that the interfacial oxide has acted as a diffusion barrier reducing the rate of mass transfer, thereby increasing experimental bonding times.MST/1602
Regulatory role of IgE-binding factors from rat T lymphocytes. I. Mechanism of enhancement of IgE response by IgE-potentiating factor. (1980)

T lymphocytes in the mesenteric lymph nodes of rats infected with Nippostrongylus brasiliensis spontaneously released a soluble factor that selectively potentiated the IgE-forming cell response of antigen-primed cells to homologous antigen. The factor could enhance the IgE response of DNP-OA-primed cells to DNP-HSA and T cell-replacing factor. In contrast, the treatment of OA-primed T cells with the factor failed to enhance either the IgE or IgG response of the mixture of DNP-KLH primed cells and OA-primed T cells to DNP-OA. The results collectively suggested that the target cells of the IgE-potentiating factor are B cells. Indeed, IgE potentiating factor was absorbed by B cells rather than T cells or thymocytes. Evidence was obtained that IgE-potentiating factor could be absorbed by IgE-bearing B cells or IgE-coupled Sepharose, indicating that the factor had affinity for IgE. It appeared that the potentiating factor bound to IgE-bearing B cells and selectively enhanced the differentiation of IgE-B cells to IgE-forming cells. It was also found that the major source of the factor was Fc epsilon R-bearing T cells.
Cellular and Humoral Immune Responses to Alphavirus Replicon Vaccines Expressing Cytomegalovirus pp65, IE1, and gB Proteins (2007)

Development of vaccines against cytomegalovirus (CMV) is an important public health priority. We used a propagation-defective, single-cycle RNA replicon vector system derived from an attenuated strain of an alphavirus, Venezuelan equine encephalitis virus, to produce virus-like replicon particles (VRP) expressing various combinations of pp65, IE1, or gB proteins of human CMV. Protein expression in VRP-infected cells was highest with single-promoter replicons expressing pp65, IE1, a pp65/IE1 fusion protein, or the extracellular domain of gB and with double-promoter replicons expressing pp65 and IE1. Protein expression was lower with double- and triple-promoter replicons expressing gB, especially the full-length form of gB. BALB/c mice immunized with VRP expressing gB developed high titers of neutralizing antibody to CMV, and mice immunized with VRP expressing pp65, IE1, or a pp65/IE1 fusion protein developed robust antigen-specific T-cell responses as measured by gamma interferon enzyme-linked immunospot assay. Three overlapping immunodominant pp65 peptides contained a nine-amino-acid sequence (LGPISGHVL) that matches the consensus binding motif for a major histocompatibility complex H2-D(d) T-cell epitope. These data provide the basis for further development and clinical evaluation of an alphavirus replicon vaccine for CMV expressing the pp65, IE1, and gB proteins.
Liver Failure and Defective Hepatocyte Regeneration in Interleukin-6-Deficient Mice (1996)

Liver regeneration stimulated by a loss of liver mass leads to hepatocyte and nonparenchymal cell proliferation and rapid restoration of liver parenchyma. Mice with targeted disruption of the interleukin-6 (IL-6) gene had impaired liver regeneration characterized by liver necrosis and failure. There was a blunted DNA synthetic response in hepatocytes of these mice but not in nonparenchymal liver cells. Furthermore, there were discrete G1 phase (prereplicative stage in the cell cycle) abnormalities including absence of STAT3 (signal transducer and activator of transcription protein 3) activation and depressed AP-1, Myc, and cyclin D1 expression. Treatment of IL-6-deficient mice with a single preoperative dose of IL-6 returned STAT3 binding, gene expression, and hepatocyte proliferation to near normal and prevented liver damage, establishing that IL-6 is a critical component of the regenerative response.