gebhart/patrepeval huggingface dataset:
Mutational Analysis of Deinococcus radiodurans Bacteriophytochrome Reveals Key Amino Acids Necessary for the Photochromicity and Proton Exchange Cycle of Phytochromes (2008)

The ability of phytochromes (Phy) to act as photointerconvertible light switches in plants and microorganisms depends on key interactions between the bilin chromophore and the apoprotein that promote bilin attachment and photointerconversion between the spectrally distinct red light-absorbing Pr conformer and far red light-absorbing Pfr conformer. Using structurally guided site-directed mutagenesis combined with several spectroscopic methods, we examined the roles of conserved amino acids within the bilin-binding domain of Deinococcus radiodurans bacteriophytochrome with respect to chromophore ligation and Pr/Pfr photoconversion. Incorporation of biliverdin IXalpha (BV), its structure in the Pr state, and its ability to photoisomerize to the first photocycle intermediate are insensitive to most single mutations, implying that these properties are robust with respect to small structural/electrostatic alterations in the binding pocket. In contrast, photoconversion to Pfr is highly sensitive to the chromophore environment. Many of the variants form spectrally bleached Meta-type intermediates in red light that do not relax to Pfr. Particularly important are Asp-207 and His-260, which are invariant within the Phy superfamily and participate in a unique hydrogen bond matrix involving the A, B, and C pyrrole ring nitrogens of BV and their associated pyrrole water. Resonance Raman spectroscopy demonstrates that substitutions of these residues disrupt the Pr to Pfr protonation cycle of BV with the chromophore locked in a deprotonated Meta-R(c)-like photoconversion intermediate after red light irradiation. Collectively, the data show that a number of contacts contribute to the unique photochromicity of Phy-type photoreceptors. These include residues that fix the bilin in the pocket, coordinate the pyrrole water, and possibly promote the proton exchange cycle during photoconversion.
Chemical structure and physical properties of cyclic olefin copolymers (IUPAC Technical Report) (2005)

Abstract Cyclic olefin copolymers comprise a new class of polymeric materials showing properties of high glass-transition temperature, optical clarity, low shrinkage, low moisture absorption, and low birefringence. There are several types of cyclic olefin copolymers based on different types of cyclic monomers and polymerization methods. In this work, we have analyzed the chemical structure of the currently commercialized cyclic olefin copolymers by 13 C NMR, and investigated their glass-transition temperatures and surface characteristics. It was observed that the glass-transition temperature, T g , of cyclic olefin copolymers depended on the bulkiness of the main chain, and the number of rings had an important role in increasing the bulkiness of cyclic olefin copolymers. Cyclic olefin copolymers with polar substituents such as ester or ether groups showed high surface energy per area and peel strength.
[Cerebral edema with hyperammonemia in valpromide poisoning. Manifestation in an adult, of a partial deficit in type I carbamylphosphate synthetase]. (1988)

A case of cerebral oedema developed during an apparently common attempted suicide with valpromide is reported. The most conspicuous biochemical abnormality was hyperammonaemia. The oedema proved refractory to the standard medical treatment of intracranial hypertension, and decompressive craniectomy was performed with only minor sequelae. The cerebral oedema cum hyperammonaemia syndrome led to the discovery, in this hitherto asymptomatic adult subject, of a 50 per cent deficiency in type a carbamyl phosphate synthetase liver activity. By completing such a deficiency, valproate may produce an extremely serious syndrome resembling the neonatal encephalopathy due to complete enzyme deficiencies in the urea cycle. All valpromide or valproate intoxications probably are cerebral oedemas with hyperammonaemia akin ti Reye's syndrome. All accidents of this type occurring during treatment or poisoning with valproate should be investigated for urea cycle enzyme abnormalities.
Molecular Mechanism to Maintain Stem Cell Renewal of ES Cells. (2001)

Embryonic stem (ES) cells are pluripotent cells directly derived from early stage embryos that retain the ability to differentiate into all cell types. This unique feature is the basis of various applications of ES cell technology such as in vitro models of mammalian development, germline transgenesis to make knockout mice, and a generic source for cell therapy in regenerative medicine. To achieve success in these applications, the pluripotency of ES cells has to be kept stable during long-term culture in vitro, leading to the necessity of determining the molecular basis for maintaining ES self-renewal. This paper summarizes the recent progress in this area, focusing mainly on the LIF signaling pathway and the transcription factor Oct-3/4. Although it is still unclear how these components works together, a model is presented here that provides a plan to solve this problem.
Comparative manufacture and cell-based delivery of antiretroviral nanoformulations (2011)

Nanoformulations of crystalline indinavir, ritonavir, atazanavir, and efavirenz were manufactured by wet milling, homogenization or sonication with a variety of excipients. The chemical, biological, immune, virological, and toxicological properties of these formulations were compared using an established monocyte-derived macrophage scoring indicator system. Measurements of drug uptake, retention, release, and antiretroviral activity demonstrated differences amongst preparation methods. Interestingly, for drug cell targeting and antiretroviral responses the most significant difference among the particles was the drug itself. We posit that the choice of drug and formulation composition may ultimately affect clinical utility.
Detection and Localization of Stator Resistance Dissymmetry Based on Multiple Reference Frame Controllers in Multiphase Induction Motor Drives (2012)

Multiphase drives are receiving increasing attention by the research community in high-power applications. In this paper, the behavior of multiphase induction machines with an odd number of phases is investigated under the assumption that the resistances of the stator winding are unbalanced owing to poor connections. A high-resistance connection can cause overheating and supply voltage unbalance, which may reduce the efficiency and increase the fire hazard. The main contribution of this paper is a control scheme that can detect the stator resistance unbalance, that can localize the faulty phase, and, at the same time, that can keep the drive behavior unchanged, both in transient and steady-state operating conditions. The control scheme is based on an analytical model that shows the effect of the unbalance on the current components related to the high-order spatial harmonics of the air-gap magnetic field. The theoretical analysis and the feasibility of the control scheme are confirmed by experimental tests.
Response of Human Trabecular Meshwork Cells to Topographic Cues on the Nanoscale Level (2008)

Nanopatterned surfaces containing biomimetic length scale features clearly influenced cellular behavior of HTM cells. Increased mRNA and protein levels of myocilin were observed when cells were grown on 400-nm pitch surfaces, suggesting that the reduction of myocilin mRNA when cells are plated onto flat tissue culture plastic is an artifact of a nonphysiologic culture environment that lacks appropriate topographic cues.
Image deblurring using inertial measurement sensors (2010)

We present a deblurring algorithm that uses a hardware attachment coupled with a natural image prior to deblur images from consumer cameras. Our approach uses a combination of inexpensive gyroscopes and accelerometers in an energy optimization framework to estimate a blur function from the camera's acceleration and angular velocity during an exposure. We solve for the camera motion at a high sampling rate during an exposure and infer the latent image using a joint optimization. Our method is completely automatic, handles per-pixel, spatially-varying blur, and out-performs the current leading image-based methods. Our experiments show that it handles large kernels -- up to at least 100 pixels, with a typical size of 30 pixels. We also present a method to perform "ground-truth" measurements of camera motion blur. We use this method to validate our hardware and deconvolution approach. To the best of our knowledge, this is the first work that uses 6 DOF inertial sensors for dense, per-pixel spatially-varying image deblurring and the first work to gather dense ground-truth measurements for camera-shake blur.
Development of histone deacetylase inhibitors for cancer treatment (2007)

Histone deacetylase (HDAC) inhibitors are an exciting new addition to the arsenal of cancer therapeutics. The inhibition of HDAC enzymes by HDAC inhibitors shifts the balance between the deacetylation activity of HDAC enzymes and the acetylation activity of histone acetyltransferases, resulting in hyperacetylation of core histones. Exposure of cancer cells to HDAC inhibitors has been associated with a multitude of molecular and biological effects, ranging from transcriptional control, chromatin plasticity, protein–DNA interaction to cellular differentiation, growth arrest and apoptosis. In addition to the antitumor effects seen with HDAC inhibitors alone, these compounds may also potentiate cytotoxic agents or synergize with other targeted anticancer agents. The exact mechanism by which HDAC inhibitors cause cell death is still unclear and the specific roles of individual HDAC enzymes as therapeutic targets has not been established. However, emerging evidence suggests that the effects of HDAC inhibitors on tumor cells may not only depend on the specificity and selectivity of the HDAC inhibitor, but also on the expression patterns of HDAC enzymes in the tumor tissue. In this review, the recent advances in the understanding and clinical development of HDAC inhibitors, as well as their current role in cancer therapy, will be discussed.
Molecules mediating adhesion of T and B cells, monocytes and granulocytes to vascular endothelial cells. (1988)

Leucocytes interact with vascular endothelial cells (EC), and adhesion between these two cell types in vitro is modulated by phorbol ester. Monocytes were found to display the highest basal adhesion to EC, followed by Epstein-Barr virus-immortalized normal B cells (EBV-B), T cells and granulocytes. Phorbol ester treatment increased the adhesion of all types of leucocytes, except monocytes. In the presence of this compound, monoclonal antibody 60.3 to GP90 (CD18, a leucocyte-adhesion protein which is non-covalently associated to either GP160, GP155, or GP130) was found to inhibit the adhesion of the four types of leucocytes to a considerable extent, while anti-lymphocyte function-associated antigen-1 (LFA-1) antibody to GP160 (CD11a) inhibited the adhesion of T and B cells only. Antibody 60.1 to GP155 (CD11b) had a major inhibitory activity exclusively on granulocytes, while antibody LB-2, which recognizes a distinct adhesion molecule (GP84) and, in contrast to the previous antibodies, reacts with EC, mainly inhibited adhesion of EBV-B and did not increase the inhibition obtained with antibody 60.3 alone. Fab fragments of antibody 60.3 inhibited leucocyte adhesion more efficiently, in either the absence or presence of phorbol ester, than the intact antibody molecule. It is concluded the GP90, either alone or associated to the larger glycoproteins, mediates the adhesion in all types of leucocytes, while GP84 mediates the adhesion of the activated B cells.
Nonsteroidal Anti-inflammatory Drugs and Cyclooxygenase-2 Inhibitors for Primary Prevention of Colorectal Cancer: A Systematic Review Prepared for the U.S. Preventive Services Task Force (2007)

Cyclooxygenase-2 inhibitors and NSAIDs reduce the incidence of colonic adenomas. Nonsteroidal anti-inflammatory drugs also reduce the incidence of CRC. However, these agents are associated with important cardiovascular events and gastrointestinal harms. The balance of benefits to risk does not favor chemoprevention in average-risk individuals.
Extremity Amputations in Meningococcemia-Induced Purpura Fulminans (1992)

Six children with meningococcemia-induced purpura fulminans were followed. Five of the six required amputations of 14 limb segments. Eight of these amputations required revisions to higher levels.
Catalytic upgrading of pyrolysis oil (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCatalytic upgrading of pyrolysis oilRamesh K. Sharma and Narendra N. BakhshiCite this: Energy Fuels 1993, 7, 2, 306–314Publication Date (Print):March 1, 1993Publication History Published online1 May 2002Published inissue 1 March 1993https://pubs.acs.org/doi/10.1021/ef00038a022https://doi.org/10.1021/ef00038a022research-articleACS PublicationsRequest reuse permissionsArticle Views1880Altmetric-Citations166LEARN 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 Other access optionsGet e-Alertsclose Get e-Alerts
Evaluation of Topical Cyclosporine for the Treatment of Dry Eye Disease (2008)

Topical cyclosporine shows beneficial effects in all categories of dry eye disease. Symptomatic improvement was greatest in the mild group and the best results in improvement of disease signs were in patients with severe dry eye disease.
Visible Colloidal Nanocrystal Silicon Light-Emitting Diode (2011)

We herein demonstrate visible electroluminescence from colloidal silicon in the form of a hybrid silicon quantum dot-organic light emitting diode. The silicon quantum dot emission arises from quantum confinement, and thus nanocrystal size tunable visible electroluminescence from our devices is highlighted. An external quantum efficiency of 0.7% was obtained at a drive voltage where device electroluminescence is dominated by silicon quantum dot emission. The characteristics of our devices depend strongly on the organic transport layers employed as well as on the choice of solvent from which the Si quantum dots are cast.
Wettability and Topography of Phospholipid DPPC Multilayers Deposited by Spin-Coating on Glass, Silicon, and Mica Slides (2007)

The surface free energy of 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC) layers deposited on glass, silicon, or mica by the spin-coating method was estimated. For this purpose, the advancing and receding contact angles of water, formamide, and diiodomethane were measured, and then two concepts of the interfacial interactions were applied. In the contact angle hysteresis approach, the apparent total surface free energy is calculated from the advancing and receding contact angles of the probe liquids, and in the Lifshitz-van der Waals/acid-base approach, the total surface free energy is calculated from previously determined components of the energy, that is, the apolar Lifshitz-van der Waals and the polar electron-donor and electron-acceptor, which are calculated from the advancing contact angles of the probe liquids alone. Comparison of the results obtained using these two approaches provided more information about changes in the hydrophobic/hydrophilic character of the DPPC layers and, simultaneously, a verification of the approaches. Moreover, the roughness and topography of the investigated layers were also examined by atomic force microscopy measurements. The hydrophilic character of the DPPC layers decreased if up to 0.5 mg of DPPC/mL was used to deposit on the substrates by the spin-coating method. Then it increased and leveled off if up to 2-2.5 mg of DPPC/mL was used. The changes in the energy were correlated with the changes in topography of the surfaces.
Imido/Oxo Exchange between Osmium and Tantalum as a Route to Os(NAr)2R2 and OsO(NAr)R2 Complexes (NAr = N-2,6-i-Pr2C6H3; R = CH2CMe3, CH2CMe2Ph, CH2SiMe3) and Attempts To Induce .alpha.-Hydrogen Abstraction To Give Alkylidene Complexes (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTImido/Oxo Exchange between Osmium and Tantalum as a Route to Os(NAr)2R2 and OsO(NAr)R2 Complexes (NAr = N-2,6-i-Pr2C6H3; R = CH2CMe3, CH2CMe2Ph, CH2SiMe3) and Attempts To Induce .alpha.-Hydrogen Abstraction To Give Alkylidene ComplexesAnne M. LaPointe, Richard R. Schrock, and W. M. DavisCite this: Organometallics 1995, 14, 6, 2699–2703Publication Date (Print):June 1, 1995Publication History Published online1 May 2002Published inissue 1 June 1995https://pubs.acs.org/doi/10.1021/om00006a016https://doi.org/10.1021/om00006a016research-articleACS PublicationsRequest reuse permissionsArticle Views194Altmetric-Citations16LEARN 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 Other access optionsGet e-AlertscloseSupporting Info (2)»Supporting Information Supporting Information Get e-Alerts
Efficacy of Targretin on methylnitrosourea-induced mammary cancers: prevention and therapy dose-response curves and effects on proliferation and apoptosis (2004)

Various aspects of the chemopreventive and chemotherapeutic properties of the RXR receptor agonist Targretin (LGD 1069) were examined in the methylnitrosourea (MNU)-induced model of mammary cancer. The administration of Targretin at dose levels of 60, 20 or 6.7 mg/kg body wt/day by gavage decreased the number of mammary tumors by 96, 85 and 78%, respectively. When Targretin was administered in the diet at 92 and 275 mg/kg diet cancer multiplicities were reduced by 78 and 92%, respectively. A wider range of dietary doses of Targretin at 15, 50 and 150 mg/kg diet reduced the number of mammary tumors by 38, 55 and 70%, respectively. Treatment of rats with different regimens of Targretin (250 mg/kg diet) yielded cancer multiplicities of 4.3 for non-treated rats, 0.5 for rats treated continuously with Targretin, 2.1 for rats treated with Targretin for 8 weeks followed by 10 weeks of the control diet and 1.6 for rats treated with Targretin alternating 3 days on and 4 days off. Targretin was also examined as a therapeutic agent by treating rats with at least one palpable mammary tumor for 5 weeks. A high dose of Targretin (272 mg/kg diet) caused partial or complete regression of approximately 65% of the cancers over this time period. In contrast, in animals treated with 15 mg Targretin/kg diet only 1 of 12 cancers showed significant regression. Finally, the effect of a limited exposure to Targretin (7 days) on cell proliferation and apoptosis in small mammary tumors was determined. Targretin at 150 mg/kg diet strongly decreased proliferation (75%) and increased apoptosis (300%), while a lower dose of Targretin (15 mg/kg diet, which still prevented 30% of cancers) had no effect on apoptosis but did decrease cell proliferation. Determination of serum IGF1 levels showed that treatment of rats with highly effective doses of Targretin at 272 mg/kg diet or at 60 or 20 mg/kg body wt/day by gavage caused significantly decreased serum IGF1 levels.
Obesity Associated Modulation of miRNA and Co-Regulated Target Transcripts in Human Adipose Tissue of Non-Diabetic Subjects (2016)

Our results indicate that miR-148a-3pmediated regulation of DNMT1 expression may play a mechanistic role in obesity.
Isochronous scheduling and its application to traffic control (2002)

Existing operating systems and communication protocols cannot achieve high quality video data transmission on an Ethernet, because they lack QoS assurance mechanisms for the shared medium. We have developed a kernel called Tactix to investigate new QoS assurance technologies that enable distributed continuous media applications. In this paper we focus on fixed bit rate video data transfer over an Ethernet, and we propose isochronous scheduling and its application to software traffic shaping. Furthermore, we present the results of measuring the service quality achieved by these technologies, which we obtained using ordinary personal computers and a shared mode 100-Mbps Ethernet. These indicate that the technologies enable multiple video streams (up to a total bandwidth of about 60 Mbps) and non-real-time background traffic to coexist on an Ethernet with a very low packet loss ratio and a transmission delay of less than a few milliseconds.
Molecular Cloning, Sequencing, and Expression of Two Late Proteins of Bacteriophage MB78 (1999)

Bacteriophage MB78, a virulent phage of Salmonella typhimurium, does not allow other phages, such as P22 and 9NA, to grow in its presence. A detailed physical map of this phage has been constructed in our laboratory. In an ongoing effort to understand the genetics of this interesting phage, various genes were characterized. Here, we report cloning, sequencing, and expression of two late proteins, coded in a SalI-HindIII fragment (SH9), by using the minicell expression system. Further, we performed a kinetic study of phage proteins by infection the host LT2 cells and compared the proteins produced, with proteins obtained by the minicell expression system. Both sets of proteins run exactly parallel and migrated as 14- and 15-kDa proteins on a polyacrylamide gel. The synthesis of these two proteins started 15 min after infection with MB78 and was prominent after 45 min. One of the proteins exhibited 57% homology to the structural protein of mycobacteriophage L5.
Solid‐phase Microextraction of Insect Epicuticular Hydrocarbons for Gas Chromatographic/Mass Spectrometric Analysis (1997)

A recently developed solvent-free sampling method, solid-phase microextraction, has been employed for sampling the cuticular hydrocarbons from three species of social wasps for GM/MS analysis. Comparison between the gas chromatograms of cuticular hydrocarbons obtained by microextraction and those of hexane-extracted samples from the same specimens shows that solid-phase microextraction is very suitable for sampling insect cuticle hydrocarbons, including those of high molecular weight. Because of its simplicity, this method is very suitable for routine work. © 1997 John Wiley & Sons, Ltd.