gebhart/patrepeval huggingface dataset:
Overexpression of groESL in Clostridium acetobutylicum Results in Increased Solvent Production and Tolerance, Prolonged Metabolism, and Changes in the Cell's Transcriptional Program (2003)

DNA array and Western analyses were used to examine the effects of groESL overexpression and host-plasmid interactions on solvent production in Clostridium acetobutylicum ATCC 824. Strain 824(pGROE1) was created to overexpress the groESL operon genes from a clostridial thiolase promoter. The growth of 824(pGROE1) was inhibited up to 85% less by a butanol challenge than that of the control strain, 824(pSOS95del). Overexpression of groESL resulted in increased final solvent titers 40% and 33% higher than those of the wild type and plasmid control strains, respectively. Active metabolism lasted two and one half times longer in 824(pGROE1) than in the wild type. Transcriptional analysis of 824(pGROE1) revealed increased expression of motility and chemotaxis genes and a decrease in the expression of the other major stress response genes. Decreased expression of the dnaKJ operon upon overexpression of groESL suggests that groESL functions as a modulator of the CIRCE regulon, which is shown here to include the hsp90 gene. Analysis of the plasmid control strain 824(pSOS95del) revealed complex host-plasmid interactions relative to the wild-type strain, resulting in prolonged biphasic growth and metabolism. Decreased expression of four DNA gyrases resulted in differential expression of many key primary metabolism genes. The ftsA and ftsZ genes were expressed at higher levels in 824(pSOS95del), revealing an altered cell division and sporulation pattern. Both transcriptional and Western analyses revealed elevated stress protein expression in the plasmid-carrying strain.
1. The Science of HIGH EXPLOSIVES (1958)

RETURN TO ISSUEPREVAdvertisementNEXT1. The Science of HIGH EXPLOSIVESCite this: Chem. Eng. News 1958, 36, 24, 47Publication Date (Print):June 16, 1958Publication History Published online6 November 2010Published inissue 16 June 1958https://doi.org/10.1021/cen-v036n024.p047Copyright © 1958 AMERICAN CHEMICAL SOCIETY This publication is free to access through this site. Learn MoreArticle Views139Altmetric-Citations-LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail PDF (127 KB) SUBJECTS:Explosives Get e-Alerts
Cancer as a Complex Phenotype: Pattern of Cancer Distribution within and beyond the Nuclear Family (2004)

We conclude that genetic factors are involved in the etiology of many cancers and that these factors are in some cases shared by different cancer sites. However, a significantly increased RR conferred upon mates of patients with cancer at some sites indicates that shared environment or nonrandom mating for certain risk factors also play a role in the familial clustering of cancer. Our results indicate that cancer is a complex, often non-site-specific disease for which increased risk extends beyond the nuclear family.
Regulation of Toll‐like receptor signaling pathways in innate immune responses (2012)

Toll-like receptors (TLRs) are critical pattern recognition receptors (PRRs) that recognize pathogen-associated molecular patterns (PAMPs), which are conserved and specific molecular "signatures" expressed by pathogens. TLR ligation triggers distinct but shared signaling pathways that lead to effector mechanisms in innate immune responses. TLR specificity and activation are strictly and finely tuned at multiple levels of various signal transduction pathways, resulting in complex signaling platforms. Many molecules, ranging from membrane and cytosol to nuclear, contribute to TLR ligand discrimination or receptor signaling and play different roles in the regulation of TLR responses via different mechanisms, such as cross-regulation, protein modification, helper cofactors, and posttranscriptional and epigenetic regulation. Herein, we summarize the most recent literature that provides new insight into regulation of TLR signaling-triggered innate immune responses. A greater understanding of the mechanisms underlying the control of TLR signaling may provide new targets for therapeutic intervention for infections and inflammatory diseases.
Mapping of the gene for interferon‐inducible dsRNA‐dependent protein kinase to chromosome region 2p21‐22: A site of rearrangements in myeloproliferative disorders (1993)

Recent evidence suggests that the human interferon-inducible double-stranded RNA-dependent protein kinase may function as a tumor suppressor. Here we describe the mapping of the gene for this kinase to chromosome region 2p21-22 by fluorescence in situ hybridization. A combined analysis of cytogenetic data from a series of 341 patients with hematologic disorders that exhibited cytogenetic abnormalities and from published reports indicates that abnormalities involving 2p21-22 occur nonrandomly and are observed among patients with acute myelogenous leukemia, raising the possibility of a role for this protein kinase in leukemogenesis.
A Step-up Approach for Cell Therapy in Stroke: Translational Hurdles of Bone Marrow-Derived Stem Cells (2011)

Stroke remains a significant unmet condition in the USA and throughout the world. To date, only approximately 3% of the population suffering an ischemic stroke benefit from the thrombolytic drug tissue plasminogen activator, largely due to the drug's narrow therapeutic window. The last decade has witnessed extensive laboratory studies suggesting the therapeutic potential of cell-based therapy for stroke. Limited clinical trials of cell therapy in stroke patients are currently being pursued. Bone marrow-derived stem cells are an attractive, novel transplantable cell source for stroke. There remain many unanswered questions in the laboratory before cell therapy can be optimized for transplantation in the clinical setting. Here, we discuss the various translational hurdles encountered in bringing cell therapy from the laboratory to the clinic, using stem cell therapeutics as an emerging paradigm for stroke as a guiding principle. In particular, we focus on the preclinical studies of cell transplantation in experimental stroke with emphasis on a better understanding of mechanisms of action in an effort to optimize efficacy and to build a safety profile for advancing cell therapy to the clinic. A forward looking strategy of combination therapy involving stem cell transplantation and pharmacologic treatment is also discussed.
Modifications of cellular responses to lysophosphatidic acid and platelet-activating factor by plasma gelsolin (2006)

Gelsolin is a highly conserved intracellular actin-binding protein with an extracellular isoform, plasma gelsolin (pGSN). Blood concentrations of pGSN decrease in response to diverse tissue injuries. Depletion of pGSN to critical levels precedes and often predicts complications of injuries such as lung permeability changes and death. Administration of recombinant pGSN ameliorates such complications and reduces mortality in animal models. One proposed mechanism for pGSN's protective effects is that it inhibits inflammatory mediators generated during primary injuries, since pGSN binds bioactive mediators, including lysophospatidic acid (LPA) and endotoxin in vitro. However, no direct evidence in support of this hypothesis has been available. Here we show that recombinant pGSN modestly inhibited LPA-induced P-selectin upregulation by human platelets in the presence of albumin (P < 0.0001). However, physiologically relevant pGSN concentrations inhibit platelet-activating factor (PAF)-mediated P-selectin expression by up to 77% (P < 0.0001). pGSN also markedly inhibited PAF-induced superoxide anion (O(2)(-)) production of human peripheral neutrophils (PMN) in a concentration-dependent manner (P < 0.0001). A phospholipid-binding peptide derived from pGSN (QRLFQVKGRR) also inhibited PAF-mediated O(2)(-) generation (P = 0.024). Therefore, pGSN interferes with PAF- and LPA-induced cellular activation in vitro, suggesting a mechanism for the protective role of pGSN in vivo.
VESICLES ASSOCIATED WITH CALCIFICATION IN THE MATRIX OF EPIPHYSEAL CARTILAGE (1969)

Vesicles have been identified within the cartilage matrix of the upper tibial epiphyseal plate of normal mice. They were seen at all levels within the plate and usually did not appear to be in contact with cartilage cells. Vesicles were concentrated within the matrix of the longitudinal septa from the proliferative zone downward. They varied considerably in size ( approximately 300 A to approximately 1 micro) and in shape. They were bounded by unit membranes, and contained materials of varying density including, rarely, ribosomes. A close association was demonstrated between matrix vesicles and calcification: in the lower hypertrophic and calcifying zones of the epiphysis, vesicles were found in juxtaposition to needle-like structures removed by demineralization with ethylenediaminetetraacetate and identified by electron diffraction as hydroxyapatite and/or fluorapatite crystal structure-the former being indistinguishable from the latter for most cases in which electron diffraction methods are employed. Decalcification also revealed electron-opaque, partially membrane-bounded structures within previously calcified cartilage of the epiphyseal plate and underlying metaphysis which corresponded in size and distribution to matrix vesicles. It is suggested that matrix vesicles are derived from cells and that they may play a role in initiating calcification at the epiphysis.
Leptospira interrogans serovar grippotyphosa infection in dogs (1996)

Leptospirosis attributed to infection with serovar grippotyphosa was diagnosed in 11 dogs. In naturally and experimentally infected dogs, a stereotypic serologic response to infection with Leptospira serovar grippotyphosa was detected. Although the highest serum antibody titers developed against serovar grippotyphosa, most dogs also had lower titers against serovars bratislava and pomona. Acute renal failure was evident in 10 dogs. One dog died prior to initiation of treatment; the remaining 10 dogs were treated with antibiotics and fluids. Two dogs were euthanatized, 2 dogs recovered without clinical or biochemical evidence of residual renal dysfunction, and 6 dogs recovered but had varying degrees of renal insufficiency. Hepatic involvement appeared to be a minor component of the disease in these dogs. Our results indicate that Leptospira serovar grippotyphosa infection is an important problem in dogs and should be considered when evaluating a dog with renal failure.
Logic Regression (2003)

AbstractLogic regression is an adaptive regression methodology that attempts to construct predictors as Boolean combinations of binary covariates. In many regression problems a model is developed that relates the main effects (the predictors or transformations thereof) to the response, while interactions are usually kept simple (two- to three-way interactions at most). Often, especially when all predictors are binary, the interaction between many predictors may be what causes the differences in response. This issue arises, for example, in the analysis of SNP microarray data or in some data mining problems. In the proposed methodology, given a set of binary predictors we create new predictors such as “X1, X2, X3, and X4 are true,” or “X5 or X6 but not X7 are true.” In more specific terms: we try to fit regression models of the form g(E[Y]) = b0 + b1 L1 + · · · + bn Ln , where Lj is any Boolean expression of the predictors. The Lj and bj are estimated simultaneously using a simulated annealing algorithm. This article discusses how to fit logic regression models, how to carry out model selection for these models, and gives some examples.Key Words: Adaptive model selectionBoolean logicBinary variablesInteractionsSimulated annealingSNP data
Positive and negative signal co-operativity in the immune system: the BCR, FcγRIIB, CR2 paradigm (1997)

Conference Article| May 01 1997 Positive and negative signal co-operativity in the immune system: the BCR, FcγRIIB, CR2 paradigm J. C. Cambier J. C. Cambier 1National Jewish Center for Immunology and Respiratory Medicine, Division of Basic Sciences, Department of Pediatrics and Department of Immunology, University of Colorado Health Sciences Center, Denver, CO 80206, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Author and article information Publisher: Portland Press Ltd Received: November 19 1996 Online ISSN: 1470-8752 Print ISSN: 0300-5127 © 1997 Biochemical Society1997 Biochem Soc Trans (1997) 25 (2): 441–445. https://doi.org/10.1042/bst0250441 Article history Received: November 19 1996 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn Email Cite Icon Cite Get Permissions Citation J. C. Cambier; Positive and negative signal co-operativity in the immune system: the BCR, FcγRIIB, CR2 paradigm. Biochem Soc Trans 1 May 1997; 25 (2): 441–445. doi: https://doi.org/10.1042/bst0250441 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 ContentAll JournalsBiochemical Society Transactions Search Advanced Search Keywords: BCR, B-cell antigen receptor, CR2, type-2 complement receptor, FcγRIIB1, receptor for IgG constant regions, PLC, phospholipase C, PI3-k, phosphatidylinositol 3-kinase, SHP, SH2-containing tyrosine phosphatase, SHIP, Ptdlns (3,4,5)P1 5′-phosphatase, ITAM, immunoreceptor tyrosine-based activation motif, ITIM, immunoreceptor tyro-sine-based inhibitor motif This content is only available as a PDF. © 1997 Biochemical Society1997 Article PDF first page preview Close Modal You do not currently have access to this content.
ChemInform Abstract: CARBONIUM ION REACTIONS PART 12, ACETOLYSIS OF 5‐(2‐BROMOETHYL)‐5H‐DIBENZO(A,D)CYCLOHEPTENE AND NITROUS ACID DEAMINATION OF 5‐(2‐AMINOETHYL)‐5H‐DIBENZO(A,D)CYCLOHEPTENE (1975)

Abstract DasiHydroxydibenzocyclohepten (Ia) wird mit PBr 3 in das Bromid (Ib) übergefihrt.
Germination of spores of Bacillus subtilis with dodecylamine (2003)

These results provide new insight into the mechanism of spore germination with the cationic surfactant dodecylamine, and also into the mechanism of spore germination in general. New knowledge of mechanisms to stimulate spore germination may have applied utility, as germinated spores are much more sensitive to processing treatments than are dormant spores.
Absolute displacement measurements using modulation of the spectrum of white light in a Michelson interferometer (1989)

A technique is presented for measuring small displacements by observing the frequency of spectral modulation of white light in a Michelson interferometer. An experiment is described in which the step size of a stepper-motor-driven translation stage was measured by recording the spectrum of light output from an interferometer and performing a cross-correlation calculation with theoretical spectra. Measurements made using standard laboratory-quality optical equipment were accurate to within ~10 nm for a range of over 100 microm.
Production and secretion of fatty acids in genetically engineered cyanobacteria (2010)

Our purpose is to apply a fatty acid secretion strategy in photosynthetic microbial biofuel production, which will avoid the costly biomass recovery processes currently applied in algal biofuel systems. Starting with introducing acyl-acyl carrier protein thioesterases, we made five successive generations of genetic modifications into cyanobacterium Synechocystis sp. PCC 6803. The mutant strains were able to overproduce fatty acids (C10-C18) and secrete them into the medium at an efficiency of up to 133 +/- 12 mg/L of culture per day at a cell density of 1.5 x 10(8) cells/mL (0.23 g of dry weight/liter). Fatty acid secretion yields were increased by weakening the S layer and peptidoglycan layers. Although the fatty acid secreting strains had a long lag phase with many cells having damaged cell membranes when grown at low cell densities, these strains grew more rapidly in stationary phase and exhibited less cell damage than wild-type in a stationary culture. Our results suggest that fatty acid secreting cyanobacteria are a promising technology for renewable biofuel production.
4-1BB-Specific Monoclonal Antibody Promotes the Generation of Tumor-Specific Immune Responses by Direct Activation of CD8 T Cells in a CD40-Dependent Manner (2002)

4-1BB (CD137) is a member of the TNFR superfamily (TNFRSF9). T cell expression of 4-1BB is restricted to activated cells, and cross-linking has been shown to deliver a costimulatory signal. Here we have shown that treatment of tumor-bearing mice with agonistic 4-1BB-specific Abs can lead to T cell-mediated tumor rejection. In vivo mAb depletion experiments demonstrated that this rejection requires CD8(+) cells but not CD4(+) or NK cells. Both IFN-gamma- and CD40-mediated signals were also required, because no benefit was observed on treatment with 4-1BB mAb in mice in which the genes for these molecules had been knocked out. Interestingly, 4-1BB-mediated stimulation of immune responses in CD40L(-/-) mice is effective (although at a reduced level), and may suggest the existence of an alternative ligand for CD40. Additional experiments in IL-15(-/-) mice indicate that IL-15 is not required for either the generation of the primary tumor-specific immune response or the maintenance of the memory immune response. In contrast, the presence of CD4 cells during the primary immune response appears to play a significant role in the maintenance of effective antitumor memory. Finally, in mice in which the number of dendritic cells had been expanded by Fms-like tyrosine kinase3 ligand treatment, the antitumor effects of 4-1BB ligation were enhanced.
High-resolution micromachined interferometric accelerometer (2000)

We demonstrate a promising type of microfabricated accelerometer that is based on the optical interferometer. The interferometer consists of surface-micromachined interdigital fingers that are alternately attached to a proof mass and support substrate. Illuminating the fingers with coherent light generates a series of diffracted optical beams. Subangstrom displacements between the proof mass and frame are detected by measuring the intensity of a diffracted beam. The structure is fabricated with a two-mask silicon process and detected with a standard laser diode and photodetector. We estimate that the minimum detectable acceleration is six orders of magnitude below the acceleration of gravity, i.e., 2 μg/Hz in a 1 Hz bandwidth centered at 650 Hz.
Synthesis of 2-Substituted (±)-(2R,3R,5R)-Tetrahydrofuran-3,5-dicarboxylic Acid Derivatives (2001)

An efficient synthesis of 2-substituted (+/-)-(2R,3R,5R)-tetrahydrofuran-3,5-dicarboxylic acid derivatives has been developed. Starting from 5-norborne-2-ol, the key intermediate (+/-)-methyl 5,6-exo,exo-(isopropylidenedioxy)-2-oxabicyclo[2.2.1]heptane-3-exo-carboxylate (15) was synthesized in an efficient six-step sequence. The key transformation is the base-catalyzed methanolysis-rearrangement of (+/-)-6,7-exo,exo-(isopropylidenedioxy)-4-exo-iodo-2-oxabicyclo[3.2.1]octan-3-one (14). Further manipulation of the 3-substituent of (+/-)-methyl 5,6-exo,exo-(isopropylidenedioxy)-2-oxabicyclo[2.2.1]heptane-3-exo-carboxylate (15) followed by deprotection of the diol moiety and ring opening catalyzed by RuCl(3)/NaIO(4) gave the title compounds in good yield.
Toxicity and antimicrobial activity of imidazolium and pyridinium ionic liquids (2005)

Ionic liquids (ILs) are novel organic salts with a wide liquid range that have enormous potential for industrial use as “green” chemicals. Varying the cationic and anionic components can alter IL properties and toxicities. Before the likely industrial release of ILs into the environment, it is necessary to determine their toxic and antimicrobial properties. As a measure of microbial toxicity of imidazolium and pyridinium ILs with varying alkyl chain lengths, we investigated Vibrio fischeri using the Microtox method. An increase in alkyl group chain length as well as an increase in the number of alkyl groups substituted on the cation ring corresponded with an increase in toxicity. Varying the anion identity did not significantly alter toxicity. We then examined the antimicrobial effects of 1000 ppm of butyl-, hexyl- and octyl- imidazolium and pyridinium bromide ILs on the growth of a group of microorganisms representing a variety of physiological and respiratory capabilities. In general, hexyl- and octyl- imidazolium and pyridinium bromides had significant antimicrobial activity to pure cultures of Escherichia coli, Staphylococcus aureus, Bacillus subtilis, Pseudomonas fluorescens and Saccharomyces cerevisiae. Butyl-imidazolium and pyridinium bromides were less antimicrobial than ILs with longer alkyl chain lengths to all microorganisms examined. However, the most significant antimicrobial activity was observed in tests with B. subtilis. This research provides toxicity and antimicrobial information about ILs, prior to their widespread use and release. This type of proactive approach can aid in the prevention of pollution, and avoid costs of future clean-up, and provide information about the “green” nature of practical industrial solvents.
The Structural Basis for the Specificity of Epidermal Growth Factor and Heregulin Binding (1995)

Heregulin is a ligand for the erbB3 and erbB4 receptors, with a region of high homology to epidermal growth factor (EGF). Despite this homology, these ligands bind to their corresponding receptors with great specificity. We report here the synthesis of heregulin beta 177-241 and show that a region consisting of amino acids 177-226 is sufficient both for binding and stimulation of receptor phosphorylation. Studies of chimeric EGF/heregulin peptides revealed that amino acids 177-181 of heregulin provide the specificity for binding to the heregulin receptor. The substitution of amino acids 177-181 of heregulin for the N terminus of EGF produced a unique bifunctional agonist that binds with high affinity to both the EGF receptor and the heregulin receptor.
An Adaptive Successive Cancellation List Decoder for Polar Codes with Cyclic Redundancy Check (2012)

In this letter, we propose an adaptive SC (Successive Cancellation)-List decoder for polar codes with CRC. This adaptive SC-List decoder iteratively increases the list size until at least one survival path can pass CRC. Simulation shows that the adaptive SC-List decoder provides significant complexity reduction. We also demonstrate that polar code (2048, 1024) with 24-bit CRC decoded by our proposed adaptive SC-List decoder with very large maximum list size can achieve a frame error rate FER ≤ 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-3</sup> {-3} at E <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">b</sub> /N <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">o</sub> = 1.1dB, which is about 0.25dB from the information theoretic limit at this block length.