gebhart/patrepeval huggingface dataset:
Improved expression of human interleukin-2 in high-cell-density fermentor cultures of Escherichia coli K-12 by a phosphotransacetylase mutant (1990)

A fluoroacetate-resistant mutant of Escherichia coli K-12 (MM-294) accumulated less acetate in the medium during growth to high cell density in fermentor cultures and was shown to be defective in its phosphotransacetylase activity. The mutant had an improved ability to continue growing during induction of interleukin-2 (IL-2) synthesis, and in fermentor cultures it gave a higher level of specific IL-2 accumulation than its parent during expression under control of the temperature-sensitive pL promoter. In flask cultures at lower cell density, the mutant again produced less acetate than the parent, although both showed a much lower level of acetate accumulation than that seen in fermentors at high cell density. Both showed a higher specific expression level of IL-2 in flask cultures, and there was a greater difference between the mutant and its parent in the final extent of specific IL-2 accumulation in fermentor cultures compared with flask cultures. Thus, the concentration of acetate in the medium, which was much higher in fermentor cultures (greater than or equal to 300 mM after 5 h of induction) than in flask cultures (less than or equal to mM) of the parent organism, was a significant factor in limiting expression of the heterologous protein product, IL-2. The acetate kinase-phosphotransacetylase pathway was therefore a major source of acetate formation in these cultures. Blocking this pathway improved accumulation of IL-2 and did not slow growth.
The effect of ligand on the rate of propagation of Cu(0)‐wire catalyzed SET‐LRP of MA in DMSO at 25 °C (2009)

Abstract The effect of initial ligand concentration on the apparent rate constant of propagation of single‐electron transfer living radical polymerization (SET‐LRP) of MA in DMSO at 25 °C was examined using various lengths of Cu(0) wire as catalyst. It was determined that unlike other parameters such as initiator concentration, solvent concentration, and deactivator concentration, no simple external rate‐order for the ligand concentration could be determined. Rather, the response of the rate of SET‐LRP to initial ligand concentration is complex and is likely determined by a competition of ligand‐dependent extent of disproportionation as well as the role of ligand concentration in the surface mediated activation process. Results suggest that a minimum concentration of ligand is needed to achieve both acceptable reaction rate and reaction control, and therefore, ligand concentration must be considered in designing experimental conditions for SET‐LRP. © 2009 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 47: 5629–5638, 2009
Chromatic coordinates in HDR image coding (2008)

The paper presents an undertaking to develop most compact high dynamic range image compression format and shows that chromatic color coordinate system plays a central role in such development. Important design considerations, such as conditions and criterions of data accuracy, efficiency and characteristics of color space, are addressed along the way. An additional trade-off between data precision and data size is discussed, and new feature of parameterized precision is introduced. Detailed comparison of Bef, Luv, Yxy chromatic coordinates is performed and special case of color space singularities is analyzed. LinLogBef imaging format implementation is presented and compared against OpenEXR and Radiance HDR formats by compression ratio, relative error and dynamic range characteristics. Other benefits provided by LinLogBef are further discussed, such as the format's convenience for image editing operations.
Sub-100-μm depth-resolved holographic imaging through scattering media in the near infrared (1995)

We discuss the compromise between depth and transverse spatial resolution for photorefractive holographic imaging through turbid media. Results from an optimized geometry for a 45°-cut rhodium-doped barium titanate photorefractive crystal are presented, demonstrating two-dimensional imaging through turbid media with both sub-100-μm depth and transverse spatial resolution.
Inflammatory proteins in plasma and the risk of dementia: the rotterdam study. (2004)

Plasma levels of inflammatory proteins are increased before clinical onset of dementia, Alzheimer disease, and vascular dementia.
Transparent dynamic reconfiguration for CORBA (2002)

Distributed systems with high availability requirements have to support some form of dynamic reconfiguration. This means that they must provide the ability to be maintained or upgraded without being taken off-line. Building a distributed system that allows dynamic reconfiguration is very intrusive to the overall design of the system, and generally requires special skills from both the client and server side application developers. There is an opportunity to provide support for dynamic reconfiguration at the object middleware level of distributed systems, and create a dynamic reconfiguration transparency to application developers. We propose a Dynamic Reconfiguration Service for CORBA that allows the reconfiguration of a running system with maximum transparency for both client and server side developers. We describe the architecture, a prototype implementation, and some preliminary test results.
Data mining for Web intelligence (2002)

Searching, comprehending, and using the semistructured HTML, XML, and database-service-engine information stored on the Web poses a significant challenge. This data is more sophisticated and dynamic than the information commercial database systems store. To supplement keyword-based indexing, researchers have applied data mining to Web-page ranking. In this context, data mining helps Web search engines find high-quality Web pages and enhances Web click stream analysis. For the Web to reach its full potential, however, we must improve its services, make it more comprehensible, and increase its usability. As researchers continue to develop data mining techniques, the authors believe this technology will play an increasingly important role in meeting the challenges of developing the intelligent Web. Ultimately, data mining for Web intelligence will make the Web a richer, friendlier, and more intelligent resource that we can all share and explore. The paper considers how data mining holds the key to uncovering and cataloging the authoritative links, traversal patterns, and semantic structures that will bring intelligence and direction to our Web interactions.
Plant defensins (2009)

Plant defensins are small, highly stable, cysteine-rich peptides that constitute a part of the innate immune system primarily directed against fungal pathogens. Biological activities reported for plant defensins include antifungal activity, antibacterial activity, proteinase inhibitory activity and insect amylase inhibitory activity. Plant defensins have been shown to inhibit infectious diseases of humans and to induce apoptosis in a human pathogen. Transgenic plants overexpressing defensins are strongly resistant to fungal pathogens. Based on recent studies, some plant defensins are not merely toxic to microbes but also have roles in regulating plant growth and development.
Binding of14C‐phosphatidylcholine to sodium chloride crystals (1970)

Abstract 14 C‐Phosphatidylcholine in benzene was found to bind to sodium chloride crystals. The magnitude of this binding was greatest when the crystal size was the smallest, namely when the crystals were prepared from frozen and lyophilized aqueous solution.
Improving Screen Content Coding In Hevc By Transform Skipping (2012)

Publication in the conference proceedings of EUSIPCO, Bucharest, Romania, 2012
Simply longer is not better: reversal of theta burst after-effect with prolonged stimulation (2010)

From all rTMS protocols at present, the theta burst stimulation (TBS) is considered the most efficient in terms of number of impulses and intensity required during a given stimulation. The aim of this study was to investigate the effects of inhibitory and excitatory TBS protocols on motor cortex excitability when the duration of stimulation was doubled. Fourteen healthy volunteers were tested under four conditions: intermittent theta bust stimulation (iTBS), continuous theta burst stimulation (cTBS), prolonged intermittent theta bust stimulation (ProiTBS) and prolonged continuous theta burst stimulation (ProcTBS). The prolonged paradigms were twice as long as the conventional TBS protocols. Conventional facilitatory iTBS converted into inhibitory when it was applied for twice as long, while the normally inhibitory cTBS became facilitatory when the stimulation duration was doubled. Our results show that TBS-induced plasticity cannot be deliberately enhanced simply by prolonging TBS protocols. Instead, when stimulating too long, after-effects will be reversed. This finding supplements findings at the short end of the stimulation duration range, where it was shown that conventional cTBS is excitatory in the first half and switches to inhibition only after the full length protocol. It is relevant for clinical applications for which an ongoing need for further protocol improvement is imminent.
Dendrimers, a New Class of Candidate Topical Microbicides with Activity against Herpes Simplex Virus Infection (2000)

Dendrimers are large highly branched macromolecules synthesized from a polyfunctional core. They have shown a variety of biological properties, including, in some instances, antiviral activity. In this study, five dendrimers were evaluated for in vitro activity against herpes simplex virus (HSV) types 1 and 2 by cytopathic effect (CPE) inhibition and plaque reduction (PR) assay in human foreskin fibroblast cells. All of the compounds were active against both virus types in the CPE inhibition assay, in which drug was added to the cells prior to the addition of virus. Antiviral activity was reduced or lost in the PR assays, in which the cells were incubated with the virus before the drug was added. The prophylactic efficacy suggested that the dendrimers might have potential as topical microbicides, products intended to be applied to the vaginal or rectal mucosa to protect against sexually transmitted infections. Three dendrimers were evaluated for this application against genital HSV infection in mice. Two of the compounds, BRI-2999 and BRI-6741, significantly reduced infection rates when 15 microl of a 100-mg/ml solution was administered immediately prior to intravaginal challenge, and the most effective compound, BRI-2999, provided significant protection even when applied 30 min before challenge. This is the first report of microbicidal activity by dendrimers in vivo.
Enabling Industrial Biocatalytic Processes by Application of Silicone‐Coated Enzyme Preparations (2011)

Abstract Composite particles of the commercial lipase preparation NZ435 and silicone ( silcoat‐ NZ435) have recently been described as promising biocatalysts for synthetic use. In this study, their actual potential for enhanced performance in industrial applications was evaluated, focusing on scenarios where carrier disintegration and catalyst leaching constitute key limitations. All three investigated model reactions, the syntheses of myristyl myristate, poly(ethylene glycol) 400‐coconut fatty acid monoester and ethylene oxide and propylene oxide copolymer (EO/PO)‐oleic acid diester, were considerably improved in terms of the maximal number of reaction cycles performed with the same batch of catalyst, and consequently in terms of the obtainable product amount. The total turnover numbers (TTN) increased by a factor up to 50, making the realization of this type of reactions in an industrial process more feasible. The utility of silcoat‐ NZ435 for stereoselective transformations was demonstrated with the enantioselective acylation of 1‐phenylethanol with vinyl butyrate, in which full retention of the excellent stereoselectivity of native NZ435 was observed. Moreover, it was demonstrated for the first time that the methodology by which silcoat‐ catalysts are obtained can be successfully transferred to alternative carriers and enzymes (e.g., protease, esterase and laccase), opening a broad field for the implementation and advancement of biocatalysis in industrial processes.
Codes Correcting a Burst of Deletions or Insertions (2016)

This paper studies codes that correct bursts of deletions. Namely, a code will be called a b-burst-correcting code if it can correct a deletion of any b consecutive bits. While the lower bound on the redundancy of such codes was shown by Levenshtein to be asymptotically log(n) + b - 1, the redundancy of the best code construction by Cheng et al. is b(log(n/b + 1)). In this paper we close on this gap and provide codes with redundancy at most log(n) + (b - 1) log(log(n)) + b - log(b). We also extend the burst deletion model to two more cases: 1. a deletion burst of at most b consecutive bits and 2. a deletion burst of size at most b (not necessarily consecutive). We extend our code construction for the first case and study the second case for b = 3, 4. The equivalent models for insertions are also studied and are shown to be equivalent to correcting the corresponding burst of deletions.
Identification by in Vitro Mutagenesis of the Interaction of Two Segments of C2MstC1, a Chimera of Cytochromes P450 2C2 and P450 2C1 (1995)

A hybrid cytochrome P450, C2MstC1, with 306 N-terminal amino acids derived from cytochrome P450 2C2 sequence and 184 C-terminal amino acids from cytochrome P450 2C1 acquires a novel progesterone 21-hydroxylase activity which is absent in the parent enzymes. Extension of the cytochrome P450 2C2 sequence to residue 382 reduced progesterone hydroxylase activity to 5% of that of C2MstC1, while further extension to residue 411 or 462 increased activity back to about 30 or 40%, respectively. In the chimera with cytochrome P450 2C2 sequence to residue 382, substitution of cytochrome P450 2C1 amino acids at positions 368, 369, and 374 increased progesterone hydroxylase activity to a level equivalent to that of C2MstC1. In the chimera with cytochrome P450 2C2 sequence extending to residue 411, substitutions of P450 2C1 amino acids at positions 386 and 388, in addition those at 368, 369, and 374, were required to obtain activities equivalent to that of C2MstC1, which suggests an interaction between these two regions. The lauric acid hydroxylase activities of all chimeras and mutant cytochromes P450 differed by 2-fold or less, demonstrating that the changes in progesterone hydroxylase activity reflected altered interactions with the substrate. Alignment of cytochrome P450 2C1 sequence with cytochromes P450cam, P450BM-3, and P450terp predicts that residues 368/369 and 386/388 are in adjacent antiparallel strands of the same beta-sheet, in agreement with the experimental data suggesting an interaction between these two regions.
Overproduction of N.EPSILON.-(Carboxymethyl)lysine-Induced Neovascularization in Cultured Choroidal Explant of Aged Rat (2007)

N(epsilon)-(carboxymethyl)lysine (CML) adduct, a major structure of advanced glycation end product, facilitated production of immature microvessels from choroidal explant cultured in fibrin gel. The present study was investigated an action of endogenous CML adduct on neovascularization of cultured choroidal explants of aged Wistar rats with 9 months of age. The number of microvessels budded from explants was counted under optical microscope and used as an index of in vitro neovascularization. Aged choroidal explants increased the neovascularization in an age-dependent manner. Anti-CML antibody decreased age-facilitated neovascularization as well as CML-human serum albumin (HSA)-facilitated neovascularization. Both the aged explant and CML-HSA-treated explant significantly released vascular endothelial growth factor (VEGF), tumor necrosis factor (TNF) alpha and platelet-derived growth factor (PDGF)-B during the culture period. The release of TNF alpha and PDGF-B was earlier than that of VEGF from the aged explants. The antibodies against these factors decreased the CML-facilitated and age-facilitated neovascularization in the choroidal explants. The inhibitory capacity of anti-TNF alpha antibody was greater than those of anti-VEGF and anti-PDGF-B antibodies. In conclusion, endogenous CML adduct overproduced the neovascularization of the aged choroidal explant. The CML adduct releases TNF alpha which might induce the production and release of VEGF for the abnormal choroidal neovascularization in the patients of age-related macular degeneration.
Nek4 Status Differentially Alters Sensitivity to Distinct Microtubule Poisons (2010)

Microtubule poisons are widely used in cancer treatment, but the factors determining the relative efficacy of different drugs in this class remain obscure. In this study, we identified the NIMA kinase Nek4 in a genetic screen for mediators of the response to Taxol, a chemotherapeutic agent that stabilizes microtubules. After Taxol treatment, Nek4 promoted microtubule outgrowth, whereas Nek4 deficiency impaired G(2)-M arrest and decreased formation of mitotic-like asters. In contrast, Nek4 deficiency sensitized cells to vincristine, which destabilizes microtubules. Therefore, Nek4 deficiency may either antagonize or agonize the effects of microtubule poisons, depending on how they affect microtubule polymerization. Of note, Nek4 gene maps to a commonly deleted locus in non-small cell lung cancer. Thus, Nek4 deletion in this disease may rationalize the use of particular types of microtubule poisons for lung cancer therapy.
Induction of a Novel Cellular Homolog of Interleukin-10, AK155, by Transformation of T Lymphocytes with Herpesvirus Saimiri (2000)

Although herpesvirus saimiri-transformed T lymphocytes retain multiple normal T-cell functions, only a few changes have been described. By subtractive hybridization, we have isolated a novel cellular gene, ak155, a sequence homolog of the interleukin-10 gene. Specifically herpesvirus saimiri-transformed T cells overexpress ak155 and secrete the protein into the supernatant. In other T-cell lines and in native peripheral blood cells, but not in B cells, ak155 is transcribed at low levels. AK155 forms homodimers similarly to interleukin-10. As a lymphokine, AK155 may contribute to the transformed phenotype of human T cells after infection by herpesvirus saimiri.
The genetic and immunopathological processes underlying collagen‐induced arthritis (2001)

Animal models of rheumatoid arthritis (RA) have provided substantial insights into basic pathogenic mechanisms of chronic inflammatory arthritis and autoimmune disease in general. Of the variety of models reported, collagen-induced arthritis (CIA) has been the most characterized in terms of both its pathogenesis and its underlying immunological basis. Collagen-induced arthritis has also been the model of choice in terms of testing potential new therapeutic agents for the treatment of human RA. Nevertheless, the complex nature of the balance between T-cell cytokines and the chronic inflammatory processes is only recently becoming clear. This review focuses on these developments, highlighting their implications for our understanding of RA and for the use of CIA as a suitable animal model.
Enzyme immunoassay detection of platelet-derived microparticles and RANTES in acute coronary syndrome (2003)

Platelet-derived microparticles (PDMPs) are produced by platelet activation or physical stimulation under various conditions. To evaluate changes in platelet and chemokine function in patients undergoing percutaneous transluminal coronary angioplasty (PTCA), we measured and compared levels of PDMPs and a C-C chemokine, regulated on activation normally T-cell express and secreted (RANTES), by ELISA. Levels of PDMP and RANTES in patients with acute coronary syndrome were significantly higher than those in the control groups (PDMP: 20.1 +/- 2.9 vs 80.4 +/- 7.3 U/ml, p < 0.001; RANTES: 18.6 +/- 3.7 vs 52.1 +/- 4.6 ng/ml, p < 0.01), but did not differ between the control groups and patients with stable angina. PDMP levels were higher in patients with acute myocardial infarction (AMI) than in patients with unstable angina (PDMP: 115.0 +/- 7.1 vs 63.9 +/- 6.2 U/ml, p < 0.001). There was no difference in the RANTES levels, however, between patients with AMI and patients with unstable angina. PDMP and RANTES levels were significantly decreased after PTCA (PDMP, p < 0.001; RANTES, p < 0.05), but without differences between the two groups. In addition, the level of PDMP was significantly correlated with that of RANTES or soluble CD40 ligand. These findings suggest that PTCA may prevent the development of AMI-associated complications in which activated platelets and RANTES play roles. Our ELISA method appears to be sufficient for monitoring PDMP and RANTES levels after PTCA in patients with acute coronary syndrome.
High-index-core Bragg fibers: dispersion properties (2003)

We study the group-velocity-dispersion properties of a novel type of Bragg fibers. These new structures are cylindrically symmetric microstructured fibers having a high-index core (silica in our case), like in conventional photonic crystal fibers, surrounded by a multilayered cladding, which is formed by a set of alternating layers of silica and a lower refractive-index dielectric. The combination of the unusual geometric dispersion behavior shown by the multilayered structure and the material dispersion corresponding to the silica core allows us to design nearly constant chromatic dispersion profiles. In this work we focus our attention on flattened dispersion fibers in the 0.8 microm wavelength window and even on ultraflattened dispersion structures about the 1.55 microm point. We include configurations owning positive, negative, and nearly-zero dispersion in both wavelength ranges.
The wingless signalling pathway and the patterning of the wing margin in Drosophila (1994)

The margin of the wing of Drosophila is defined and patterned from a stripe of cells expressing the wingless (wg) gene that is established during the third larval instar in the developing wing blade. The expression of the genes cut and achaete in a small domain in the prospective wing margin region reflects the activity of wg and probably mediate its function. Our results indicate that, in the wing margin, the wingless signal requires the activity of at least three genes: armadillo (arm), dishevelled (dsh) and shaggy (sgg) and that the functional relationship between these genes and wg is the same as that which exist during the patterning of the larval epidermis. These observations indicate that arm, dsh and sgg encode elements of a unique 'wingless signalling pathway' that is used several times throughout development.