gebhart/patrepeval huggingface dataset:
Effects of liposomal antisense oligonucleotides on mRNA and protein levels of the HPV 16 E7 oncogene. (1996)

Despite the known association of human papillomavirus (HPV) infection with cervical cancer there is no specific antiviral treatment for HPV infection. Antisense oligode-oxynucleotides (AS-ODNs) may offer an effective way to treat HPV infections as the stability and delivery have been improved using modified ODNs or carrier systems. In this study we investigated the effects of liposomal AS-ODNs (0.1, 1 and 5 microM) on HPV 16 E7 mRNA and protein levels in CaSki cells. We used cationic liposomes (10 microM) containing dimethyldioctadecylammonium bromide (DDAB) or 2,3-dioleyloxy-N-[2(sperminecar-boxamido)ethyl]-N, N-dimethyl-1-propanaminium trifluoroacetate (DOSPA). Both these liposomes had dioleoylphosphatidyl-ethanolamine (DOPE) as a helper lipid. The target of the AS-ODNs was E7 protein because it is the one of the two oncoproteins of HPV 16. Only liposomal AS-ODNs which were targeted to the initiation codon of E7, had an effect on E7 mRNA expression; two shorter transcripts were detected, suggesting that RNase H degradation was activated. Liposomal random ODN or liposomal ODN targeted downstream from the initiation site of E7 did not affect the mRNA pattern. However, no change was found in the E7 protein levels detected by immunoprecipitation. Further studies showed that AS-ODNs inhibited the translation of E7 mRNA in a rabbit reticulocyte lysate assay. This data, together with the changes in mRNA levels, proved that the AS-ODNs reached the target mRNA. One possible explanation for the unchanged protein level of E7 in CaSki cells might be that immunoprecipitation is not sensitive enough to detect minor changes in protein levels. However, further progress is still needed in the field of carrier systems and modifications of AS-ODNs before non-sequence specific effects can be avoided.
Synthesis of New Mannich Bases of Arylpyridazinones as Analgesic and Antiinflammatory Agents. (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
Activity Levels in Mothers and Their Preschool Children (2014)

Physical activity levels in mothers and their 4-year-old children are directly associated, with associations at different activity intensities influenced by temporal and demographic factors. Influences on maternal physical activity levels also differ by activity intensity. Providing targeted interventions for mothers of young children may increase both groups' activity.
Reduced adhesion of blood cells to biodegradable polymers by introducing phosphorylcholine moieties (2003)

Aliphatic polyesters are believed to be good biocompatible polymers for tissue engineering because of their biodegradability and nontoxicity of the degradated products. However, it is necessary to reduce the nonspecific protein adsorption for the application of biodegradable polymers to drug delivery systems or antiadhesive membranes. We hypothesized that novel biodegradable polymers could be synthesized by introducing phosphorylcholine moieties into aliphatic polyesters. The L-lactide was polymerized in the presence of L-alpha-glycelophosphorylcholine (LGPC) using stannous octate as the catalyst. The molecular weight and crystallinity of poly(L-lactide) (PLLA)-based phospholipid polymers (PLLA-PC) decreased with an increase in the composition of the LGPC unit in the PLLA-PC. The hydrolysis of the PLLA-PC was evaluated by soaking the polymer membranes in a phosphate buffer solution. The rate of weight loss was increased with increasing the LGPC units in PLLA-PC. The surface analysis of the membranes using an X-ray photoelectron microscope showed the composition of phosphorylcoline groups on the surface. The amount of adsorbed protein and adherent blood cell on the polymer surface was decreased with introducing LGPC unit. PLLA-PC is a promising biodegradable polymer having blood compatibility and antiadhesive property.
Application and optimization of the perfectly matched layer boundary condition for geophysical simulations (2000)

The perfectly matched layer (PML) absorbing boundary condition has been used for a wide range of applications since its introduction in 1994. Most of these applications have used the PML in a uniform air-filled zone around a nonair scatterer. This paper describes the application of the PML to a geophysical prospecting problem where the PML is applied in a conductive host material containing the scatterer. The conductivity profile is optimized using parameter estimation. © 2000 John Wiley & Sons, Inc. Microwave Opt Technol Lett 25: 253–255, 2000.
Anderson localization of matter waves in tailored disordered potentials (2012)

We show that, in contrast to immediate intuition, Anderson localization of noninteracting particles induced by a disordered potential in free space can increase (i.e., the localization length can decrease) when the particle energy increases, for appropriately tailored disorder correlations. We predict the effect in one, two, and three dimensions, and propose a simple method to observe it using ultracold atoms placed in optical disorder. The increase of localization with the particle energy can serve to discriminate quantum versus classical localization.
Shield For Flexible Pipe (1995)

Guazatine is a potent inhibitor of polyamine oxidase (PAO) activity. In agriculture, guazatine is used as non-systemic contact fungicide efficient in the protection of cereals and citrus fruits against disease. The composition of guazatine is complex, mainly constituted by a mixture of synthetic guanidated polyamines (polyaminoguanidines). Here, we have studied the effects from exposure to guazatine in the weed Arabidopsis thaliana. We report that micromolar concentrations of guazatine are sufficient to inhibit growth of Arabidopsis seedlings and induce chlorosis, whereas germination is barely affected. We observed the occurrence of quantitative variation in the response to guazatine between 107 randomly chosen Arabidopsis accessions. This enabled us to undertake genome-wide association (GWA) mapping that identified a locus on chromosome one associated with guazatine tolerance. CHLOROPHYLLASE 1 (CLH1) within this locus was studied as candidate gene, together with its paralog (CLH2). The analysis of independent clh1-2, clh1-3, clh2-3, clh2-2, and double clh1-2 clh2-3 mutant alleles indicated that CLH1 and/or CLH2 loss-of-function or expression down-regulation promote guazatine tolerance in Arabidopsis. We report a natural mechanism by which Arabidopsis populations can overcome toxicity by the fungicide guazatine.
Analysis of the Regulation of the Molecular Chaperone Hsp26 by Temperature-induced Dissociation (2004)

Small heat shock proteins (sHsps) are molecular chaperones that efficiently bind non-native proteins. All members of this family investigated so far are oligomeric complexes. For Hsp26, an sHsp from the cytosol of Saccharomyces cerevisiae, it has been shown that at elevated temperatures the 24-subunit complex dissociates into dimers. This dissociation seems to be required for the efficient interaction with unfolding proteins that results in the formation of large, regular complexes comprising Hsp26 and the non-native proteins. To gain insight into the molecular mechanism of this chaperone, we analyzed the dynamics and stability of the two oligomeric forms of Hsp 26 (i.e. the 24-mer and the dimer) in comparison to a construct lacking the N-terminal domain (Hsp26DeltaN). Furthermore, we determined the stabilities of complexes between Hsp26 and non-native proteins. We show that the temperature-induced dissociation of Hsp26 into dimers is a completely reversible process that involves only a small change in energy. The unfolding of the dissociated Hsp26 dimer or Hsp26DeltaN, which is a dimer, requires a much higher energy. Because Hsp26DeltaN was inactive as a chaperone, these results imply that the N-terminal domain is of critical importance for both the association of Hsp26 with non-native proteins and the formation of large oligomeric complexes. Interestingly, complexes of Hsp26 with non-native proteins are significantly stabilized against dissociation compared with Hsp26 complexes. Taken together, our findings suggest that the quaternary structure of Hsp26 is determined by two elements, (i) weak, regulatory interactions required to form the shell of 24 subunits and (ii) a strong and stable dimerization of the C-terminal domain.
[Morphological alteration and desintegration of dane particles after exposure with "Gigasept". A first methological attempt for the evaluation of the virucidal efficacy of a chemical disinfectant against hepatitisvirus B ( author's transl)]. (1977)

A test system based on morphological alterations and desintegration of hepatitis virus B (HBV) is presented for the approximative evaluation of the virucidal efficacy of a chemical disinfectant. Dane particles, supposed to be the infectious entity of HBV, were partially purified by a trap and a rate zonal ultracentrifugation from serum samples of a patient with chronic hepatitis undergoing an immune suppressive treatment because of leukemia. "Gigasept" on the basis of succine dialdehyd and formaldehyd served as disinfectant for this investigation. In one experiment partially purified Dane particles were exposed to the action of a 5% solution of "Gigasept" on electron microscopic grids. Morphological alterations resulting in derounding, break up of the outer membrane, spiral uncoiling as well as asymmetric enlargement of the space between the outer membrane and the core of the HBV was observed after 2 mins. After 15 mins, the HBV were diffusely stained with loss of the characteristic substructure and became polygonal. The decrease of the number of the particles was proportional to the length of the contact time with the disinfectant. In a second series equal volumes of a 5% solution of "Gigasept" and of a HBV containing serum were in contact for 2 hours, with consecutive purification and morphological characterization of the HBV. The sedimentation of the HBs antigenicity differed from the control. A part of the Dane particles was diffusely stained and lost its substructure. Moreover empty particles in the range of the HBc antigen were found. Another part of Dane particles, however, was morphologically unchanged. The relation of intact and non intact particles could possibly serve as parameter for the HBV virucidy.-Thermo inactivation (3 mins, +98 degrees C) of the HBV in a serum was undertaken for comparison.
Plasma Exchange in Critically Ill COVID-19 Patients (2020)

Introduction: The spectrum of coronavirus disease 2019 (COVID-19) ranges from asymptomatic infection to respiratory failure and death of patients. Severely affected patients may develop a cytokine storm-like clinical syndrome with multi-organ failure and a mortality rate of up to 90%. Case Description: Here we report on five COVID-19 patients with a median age of 67 years who were treated at the intensive care unit due to respiratory failure. Prophylactic antibiotic, antimycotic, and antiviral/immunomodulatory therapy was initiated in all patients upon admission. During the course of the disease, patients developed circulatory shock and persistent fever together with increased interleukin 6-levels compatible with the cytokine storm-like clinical syndrome. In addition, all patients had multi-organ failure with acute respiratory-distress syndrome (ARDS, 4 severe, 1 moderate) and acute kidney injury of at least KDIGO stage 2. A single PE with a median of 3.39 L of fresh frozen plasma was initiated in all patients followed by one additional treatment in patients 1, 3, and 5. During the PE, striking reduction of inflammatory markers C-reactive protein (-47%, P=0.0078) and interleukin 6 (-74%, P=0.0078), as well as significant reduction of ferritin (-49%, P=0.0078), LDH (-41%, P=0.0078), and D-Dimer (-47%, P=0.016) were observed. Due to circulatory shock, four patients received vasopressor treatment at the start of the PE that could be substantially reduced during treatment (-71%, P=0.031). Biochemical and clinical improvement continued over the following days together with an increase in the oxygenation index in 4 out of 5 patients. These improvements were achieved with only 1 to 2 PE, which might be a possible indication of a direct pathophysiological influence of PE on the COVID-19-associated cytokine storm-like clinical syndrome. Three of the 5 most critically ill patients are alive, while a 71-year-old male and a 76-year-old female patient died after the therapy was limited due to persistent severe ARDS. Discussion: PE improved inflammation, microcirculatory clot formation, and hypotension, thereby improving clinical outcomes. Further studies to test whether (repeated) PE can alter the course of critically ill COVID-19 patients are clearly indicated.
Supplementary Figure 7 from NAC1 Is an Actin-Binding Protein That Is Essential for Effective Cytokinesis in Cancer Cells (2023)

&lt;p&gt;PDF file - 76K, Supporting data of quantitative binding assay&lt;/p&gt;
The relationship between tumor necrosis factor and human immunodeficiency virus gene expression in lymphoid tissue (1997)

In tissue culture models of chronic human immunodeficiency virus type 1 (HIV-1) infection, cytokines such as tumor necrosis factor alpha (TNF-alpha) activate viral gene expression. We sought evidence that TNF-alpha might similarly regulate viral gene expression in vivo in the major lymphoid tissue (LT) reservoir. We used in situ hybridization, quantitative image analysis, and double-label techniques to compare cytokine and HIV-1 RNA levels in sections of tonsil and lymph node tissues obtained from individuals in early and later stages of HIV-1 infection. The levels of TNF-alpha gene expression in LT from HIV-1-infected an uninfected individuals were indistinguishable, and we found no correlation between TNF-alpha gene expression in LT and the level of HIV-1 gene expression in LT. There is thus little evidence that in vivo TNF-alpha significantly influences HIV production in LT.
An Interoperability Framework for Sensor and UMTS Networks (2007)

This paper contributes to this effort by introducing a new framework for moving data from a sink to the user at a low cost and power, using the Universal Mobile Telecommunication System (UMTS), which is standard for the Third Generation Mobile System (3G). Much of the research on sensor networks focuses on issues such as power consumption, self-organization, routing, and communication between sensors and the sink. On the other hand, there is little research on facilitating communication between a sink and the user. The integration of the mobile network infrastructure and sensor networks will reduce the cost of building new infrastructure and enable the large-scale deployment of sensor networks.
Enantioselective Synthesis of Axially Chiral Biaryls by the Pd-Catalyzed Suzuki−Miyaura Reaction: Substrate Scope and Quantum Mechanical Investigations (2010)

We report efficient syntheses of axially chiral biaryl amides in yields ranging from 80-92%, and with enantioselectivity in the range 88-94% ee employing an asymmetric Suzuki-Miyaura process with Pd(OAc)(2) and KenPhos as ligand. These studies demonstrate that electron-rich and electron-deficient o-halobenzamides can be efficiently coupled with 2-methyl-1-naphthylboronic acid and 2-ethoxy-1-naphthylboronic acid. The yields and selectivities of the reactions are independent of the nature of halogen substituent on the benzamide coupling partner. Our investigations demonstrate that axially chiral heterocyclic and biphenyl compounds can also be synthesized with this methodology. We also report computational studies used to determine the origin of stereoselectivity during the selectivity-determining reductive elimination step of the related coupling of tolyl boronic acid with naphthylphosphonate bromide that was reported in a previous publication (J. Am. Chem. Soc. 2000, 122, 12051-12052). These studies indicate that the stereoselectivity arises from a combination of weak -(C)H..O interactions as well as steric interactions between the tolyl and naphthylphosphonate addends in the transition state for C-C coupling.
Fatty Aldehyde Dehydrogenase Multigene Family Involved in the Assimilation of n-Alkanes in Yarrowia lipolytica (2014)

In the n-alkane assimilating yeast Yarrowia lipolytica, n-alkanes are oxidized to fatty acids via fatty alcohols and fatty aldehydes, after which they are utilized as carbon sources. Here, we show that four genes (HFD1-HFD4) encoding fatty aldehyde dehydrogenases (FALDHs) are involved in the metabolism of n-alkanes in Y. lipolytica. A mutant, in which all of four HFD genes are deleted (Δhfd1-4 strain), could not grow on n-alkanes of 12-18 carbons; however, the expression of one of those HFD genes restored its growth on n-alkanes. Production of Hfd2Ap or Hfd2Bp, translation products of transcript variants generated from HFD2 by the absence or presence of splicing, also supported the growth of the Δhfd1-4 strain on n-alkanes. The FALDH activity in the extract of the wild-type strain was increased when cells were incubated in the presence of n-decane, whereas this elevation in FALDH activity by n-decane was not observed in Δhfd1-4 strain extract. Substantial FALDH activities were detected in the extracts of Escherichia coli cells expressing the HFD genes. Fluorescent microscopic observation suggests that Hfd3p and Hfd2Bp are localized predominantly in the peroxisome, whereas Hfd1p and Hfd2Ap are localized in both the endoplasmic reticulum and the peroxisome. These results suggest that the HFD multigene family is responsible for the oxidation of fatty aldehydes to fatty acids in the metabolism of n-alkanes, and raise the possibility that Hfd proteins have diversified by gene multiplication and RNA splicing to efficiently assimilate or detoxify fatty aldehydes in Y. lipolytica.
The Stereoselective Preparation of Fluorinated Dienes via Stille-Liebeskind Cross-Coupling Reactions (2002)

Readily prepared fluorinated vinylstannane reagents stereoselectively undergo Stille-Liebeskind cross-coupling reactions with vinyl halides (including fluorine-containing vinyl halides) with Pd(PPh 3 ) 4 /CuI catalysis.
Navigation Doppler Lidar Performance at High Speed and Long Range (2020)

NASA is developing a Navigational Doppler LiDAR (NDL) for use in missions involving robotic and human landing scenarios on solar system bodies. The NDL provides unprecedented accuracy in position and velocity measurement for the guidance, navigation and control (GNC) subsystem of a spacecraft. NDL performance has been characterized over different phases of its development through ground tests, helicopter flight tests, and onboard rocket-powered test vehicles, however, none of these tests provided measurements over its full performance envelope. For this reason, a high speed rocket sled test was recently conducted to resolve both range and velocity up to the maximum limits of the NDL. This test campaign was performed at the Supersonic Naval Ordnance Research Tracks (SNORT) facility, Naval Air Weapons Station China Lake, as part of the Safe & Precise Landing and Integrated Capabilities Evolution (SPLICE) project.
Sign-changing solutions for an asymptotically linear Schrödinger equation with deepening potential well (2011)

In this paper, by using variational methods, we obtain the existence of sign-changing solutions for an asymptotically linear Schrdinger equation with deepening potential well.
The role of the first growth factor domain of human factor IXa in binding to platelets and in factor X activation. (1992)

We have recently shown that thrombin-stimulated human platelets have specific, saturable receptors for factor IXa, occupancy of which promotes factor X activation (Ahmad, S. S., Rawala-Sheikh, R., and Walsh, P.N. (1989) J. Biol. Chem. 264, 3244-3251, 20012-20016; Rawala-Sheikh, R., Ahmad, S. S., and Walsh, P. N. (1990) Biochemistry 29, 2606-2611). To study the structural requirements for factor IXa binding to platelets, we have carried out equilibrium binding studies with human factor IXa after replacing the first epidermal growth factor (EGF) domain by the corresponding polypeptide region of factor X (Lin, S.-W., Smith, K. J., Welsch, D., and Stafford, D. W. (1990) J. Biol. Chem. 265, 144-150). The chimeric protein, factor IX(Xegf1), as well as the wild-type, factor IXwt, produced in embryo kidney cells, and factor IX isolated from human plasma were radiolabeled with 125I and activated with factor XIa. Direct binding studies with thrombin-activated platelets showed normal stoichiometry and affinity of binding of factor IXa(Xegf1) (566 sites/platelet, Kd = 0.69 nM) and factor IXawt (590 sites/platelet, Kd = 0.61 nM) in the presence of factor VIIIa (5 units/ml) and factor X (1.5 microM) compared to factor IXaN (558 sites/platelet, Kd = 0.67 nM). The concentration of factor IXaN, factor IXawt, and factor IXa(Xegf1) required for half-maximal rates of factor Xa formation were 0.63, 0.7, and 0.83 nM, indicating that the Kdapp for binding of factor IXa(Xegf1) to the factor X activating complex on activated platelets is normal. These studies suggest either that the EGF-1 domain of factor IXa is not involved in factor IXa binding to platelets or that the EGF-1 domain from factor X when inserted into factor IXa, suffices to promote normal factor IXa binding.
La visualisation interactive d'information~: une piste pour affronter la complexité des données d'identification par spectrométrie de masse~? (2012)

actes de l'atelier PROSPECTOM
Synthesis and degradation of heat shock proteins during development and decay of thermotolerance. (1982)

Morris hepatoma 7777 cells, heat conditioned at 43 degrees for 0.5 hr, become gradually thermoresistant during an incubation at 37 degrees as judged by their ability to form colonies following a second heat challenge. Pulse incorporation of [35S]methionine into proteins at various times after the conditioning treatment and subsequent fractionation of the proteins by polyacrylamide gel electrophoresis indicate that the gradual putative modifications occurring at the cellular level and leading to the thermotolerance state are accompanied by an elevated synthesis above the normal level of a small set of polypeptides with apparent molecular weights of 27,000, 65,000, 68,000, 70,000, 89,000, and 107,000. Both thermotolerance development and protein induction are completed after a 6- to 8-hr period. At the end of this period, thermotolerance is at its maximum level and heat shock protein synthesis is returned to normal. This acquired thermal resistance eventually disappears between 60 and 80 hr following conditioning treatment. In a parallel manner, the heat shock-induced proteins synthesized during the first 4 hr following the conditioning treatment are maintained in the cells at a high level for several hr but become undetectable by 82 hr. The results provide strong circumstantial evidence that heat shock proteins are involved in the acquisition, maintenance, and decay of thermotolerance.