gebhart/patrepeval huggingface dataset:
525. Mutants of phiC31 Integrase with Increased Efficiency and Specificity (2006)

The site-specific integrase from bacteriophage phiC31, catalyzes precise, unidirectional recombination between two 30-40 bp sequences, a phage attachment site (attP) and a bacterial attachment site (attB). In mammalian cells, phiC31 integrase can recombine its own sites and can also integrate plasmids with the attB site into native sequences that bear partial identity to attP, referred to as pseudo attP sites. The enzyme recognizes a hierarchy of such sites and, in cell lines, appears to have several hundred potential integration sites, though most integration events occur at a subset of preferred sites. For the purpose of gene therapy, it appears desirable to obtain integration at only one or a small set of safe, well-expressed locations in the genome. In a previous study we demonstrated that by using a genetic screening assay in E. coli, we could create mutant forms of phiC31 integrase with enhanced preference for a pre-existing favored integration site in the human genome. However, this enzyme displayed a low overall integration efficiency. To create phiC31 integrase mutants with enhanced functionality, we devised a screen in mammalian cells to identify mutants with increased recombination efficiency at the attP site. We isolated a collection of such mutants, and combination of several of them led to the identification of an enzyme that mediated the majority of integration events at a single location, at a pre-integrated attP site. This enzyme may be useful for the rapid creation of cell lines with integration at a fixed location. The study also provided proof-of-principle for creation of integrases highly specific for endogenous sequences, a project is underway in the lab. Other mutants from the screen showed an elevated integration frequency at endogenous pseudo attP sites and are being tested in animals as improved gene therapy tools. We have also undertaken the structural characterization of phiC31 integrase. The location of the DNA-binding domain is being investigated by creating deletion mutants and examining them for att site binding with gel mobility shift assays. The increased efficiency and specificity attainable via mutagenesis and protein design will further enhance the utility of phiC31 integrase as a valuable tool in gene therapy. Michele P Calos is a co-founder and consultant for Poetic Genetics, LLC, which has licensed the phiC31 integrase technology.
Palladium-catalyzed reactions in the synthesis of 3- and 4-substituted indoles. 4. (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPalladium-catalyzed reactions in the synthesis of 3- and 4-substituted indoles. 4.Louis S. Hegedus, Michael R. Sestrick, Eric T. Michaelson, and Peter J. HarringtonCite this: J. Org. Chem. 1989, 54, 17, 4141–4146Publication Date (Print):August 1, 1989Publication History Published online1 May 2002Published inissue 1 August 1989https://pubs.acs.org/doi/10.1021/jo00278a029https://doi.org/10.1021/jo00278a029research-articleACS PublicationsRequest reuse permissionsArticle Views587Altmetric-Citations68LEARN 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
Glucagon Responses to Arginine in Chronic Pancreatitis: Possible Pathogenic Significance in Diabetes (1974)

The effect of aiginine infusion on pancreatic glucagon, insulin and glucose was studied in fourteen patients with chronic ‘alcoholic’ pancreatitis and seven control patients. There appeared to be two types of pancreatitis, one with concomitant decrease in glucagon and insulin secretion and the other with severe insulinopenia and relative hyperglucagonemia. The bihormonal derangement mimics abnormalities that occur with genetic diabetes. The relative hypersecretion of glucagon in chronic pancreatitis may be a consequence of insulinopenia rather than a primary abnormality.
Impact of preoperative hysteroscopy on outcomes of peritoneal cytology in patients with endometrial cancer (2019)

目的 : 子宮体癌の腹腔細胞診陽性の背景因子を明らかにし, 子宮鏡検査が腹腔細胞診陽性に与える影響を検討することを目的とした.
Optimal Design of Inductors Based on Homothetic Shape and using Geometric Programming (2019)

The efficiency and power density of a converter are two major characteristics but they are antagonists so the designer has to find a tade-off between them. This is generally formulated as a multi-objective optimization problem giving a pareto front, and it can be encoutered at the system level, at subsystem level or even at the component level. In general the formulation needs to be different at each level because optimization algorithms are not robust enough and cannot guarantee convergence on large scale problems. This paper proposes a design method for inductors, using a mathematical formalism known as Geometric Programming (GP) that gives strong guarantees of convergence whatever the size of the problem. The design model describes objective and constraint functions using monomials and posynomials to comply with GP rules and works with homothetic shapes. A first formulation using continuous parameters allows selecting the region of operation and provides a good estimate of attainable size and losses, then a second formulation shows how to truncate parameters that need to be discrete values to obtain feasible objects (integer number of turns, discrete core size,) and account for non linear permeability. An evaluation case is presented to test the performance of the proposed algorithm. Last, a finite element analysis is included to account for some non linearities such as fringing and proximity effects, and improve the design accuracy. Because of the GP formulation, it should be possible in future work to use such an inductor model for sub-system level optimization (for example 2nd or 4th order filter) and still guarantee convergence towards a global optimum.
Characterization of CaCO3 ground by a Multiring Media Mill. (1995)

新しく開発したマルチリング媒体型超微粉砕装置を用い重質炭酸カルシウムの粉砕において所定のメジアン粒径を得るための回転速度と粉砕時間の関係を表す経験式が得られた.さらに, 砕成物の化学的性質の変化を調べるため, 粉砕直後のスラリーのpH値を測定し, その水素イオン濃度から, 見掛けの溶解度の変化速度kを求めた.同時に砕成物をX線回折ピークの積分幅より格子不整の程度を見積もった.その結果, 回転速度の違いによるk値の差異は砕成物の結晶構造の乱れの度合いに関係し, メカノケミカル効果が要因の一つであることがわかった.また, 粉砕による比表面積の増大とメカノケミカル効果の増大の速度は必ずしも同様の変化を示すとは限らないことも明らかとなった.
The Biological Connection Markup Language: a SBGN-compliant format for visualization, filtering and analysis of biological pathways (2011)

The XML schema and the BCML software suite are freely available under the LGPL for download at http://bcml.dc-atlas.net. They are implemented in Java and supported on MS Windows, Linux and OS X.
Simultaneous Achievement of High Efficiency and Long Lifetime in Deep Blue Phosphorescent Organic Light‐Emitting Diodes (2019)

Abstract High triplet energy exciplex hosts are developed using new electron transport type hosts with triphenylsilyl blocking groups to obtain high solid state triplet energy and exciplex triplet energy. Two triphenyltriazine derived hosts, 2‐phenyl‐4,6‐bis(4‐(triphenylsilyl)phenyl)‐1,3,5‐triazine (pSiTrz) and 2‐phenyl‐4,6‐bis(3‐(triphenylsilyl)phenyl)‐1,3,5‐triazine (mSiTrz), are synthesized as the high triplet energy hosts with electron transport properties. The two hosts show high triplet energy over 2.90 eV both in solution and solid film, and afford high triplet energy over 2.90 eV in the mixed hosts with a hole transport type 2,2′‐di(9H‐carbazol‐9‐yl)‐1,1′‐biphenyl (oCBP) host. The doping of a deep blue phosphorescent emitter in the mixed host oCBP:mSiTrz achieves high external quantum efficiency over 20% with a color coordinate of (0.14, 0.16) and device lifetime of longer than 1000 h at 100 cd m ‐2 . This is the first demonstration of simultaneous achievement over 20% external quantum efficiency (EQE) and 1000 h lifetime in the deep blue organic light‐emitting diodes with a x + y color coordinate value below 0.30.
Organorhenium(VII) and Organomolybdenum(VI) Oxides: Syntheses and Application in Olefin Epoxidation (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
Mechanical Rotor Model for Fluorinated Terphenyl Liquid Crystals (2004)

A mechanical model is established to explain phase behaviors and thermal properties of liquid crystals (LCs). We postulate that LC phases are micro-machine systems consisting of an ensemble of molecular rotors. The phenomena of the thermal stability of phase and polymorphism are interpreted in terms of mechanics that involve basic parameters such as center of gravity ( G ), moment of inertia ( I A ), eccentricity ( ε ) and mass deviation along the molecular axis (δ). A novel concept of “slim isomer” and “fat isomer” for the fluorinated LC system is proposed. Furthermore, the parameter ω c , critical rotational velocity around the long molecular axis is adopted to analyze the thermal stability at the critical point. It is determined that the value of ω c is a key parameter for the characterization of each homologous series.
A macromodelling approach for simulation of vlsi circuits (computer-aided design) (1986)

Suberoylanilide hydroxamic acid (SAHA), a famous histone deacetylase (HDAC) inhibitor, has been utilized in clinical treatment for cutaneous T-cell lymphoma. Previously, the mechanisms underlying SAHA anti-tumor activity mainly focused on acetylome. However, the characteristics of SAHA in terms of other protein posttranslational modifications (PTMs) and the crosstalk between various modifications are poorly understood. Our previous work revealed that SAHA had anti-tumor activity in nasopharyngeal carcinoma (NPC) cells as well. Here, we reported the profiles of global proteome, acetylome, and phosphoproteome of 5-8 F cells upon SAHA induction and the crosstalk between these data sets. Overall, we detected and quantified 6,491 proteins, 2,456 phosphorylated proteins, and 228 acetylated proteins in response to SAHA treatment in 5-8 F cells. In addition, we identified 46 proteins exhibiting both acetylation and phosphorylation, such as WSTF and LMNA. With the aid of intensive bioinformatics analyses, multiple cellular processes and signaling pathways involved in tumorigenesis were clustered, including glycolysis, EGFR signaling, and Myc signaling pathways. Taken together, this study highlighted the interconnectivity of acetylation and phosphorylation signaling networks and suggested that SAHA-mediated HDAC inhibition may alter both acetylation and phosphorylation of viral proteins. Subsequently, cellular signaling pathways were reprogrammed and contributed to anti-tumor effects of SAHA in NPC cells.
Interacting with a Sensor Network (2002)

We develop distributed algorithms for sensor networks that respond by directing a target (robot or human) through a region. The sensor network models the event levels sensed across a geographical area, adapts to changes, and guides a moving object incrementally across the network. We describe a device we call a Flashlight for interacting with the sensor field. This interaction includes collecting navigation information from the sensors in the local neighborhood, activating and deactivating specified areas of the sensor network, and detecting events in the sensor network. We report on hardware experiments using a physical sensor network consisting of Mote sensors.
Effect of E23G/K, F36V, N37T, E119D, and E199G polymerase acidic protein substitutions on the replication and baloxavir susceptibility of influenza B viruses (2022)

Baloxavir marboxil (baloxavir) is a highly effective, single-dose influenza therapeutic. Identification of molecular markers in the target polymerase acidic (PA) protein that can diminish baloxavir efficacy is an ongoing goal of the scientific community. In this study, we generated recombinant Victoria-lineage and Yamagata-lineage influenza B viruses (IBVs) containing 6 substitutions (E23G/K, F36V, N37T, E119D, and E199G) spanning the endonuclease domain of the PA. Although 5 of these PA substitutions negatively impacted in vitro polymerase activity and replication kinetics, particularly in the Victoria-lineage IBV background, viruses with E119D exhibited activity levels comparable to those of wild-type viruses. Moreover, only E119D moderately decreased the susceptibility of IBVs to baloxavir (resulting in ∼2.0-fold to 2.6-fold elevated EC<sub>50</sub>s); viruses with the other substitutions exhibited normal drug inhibition. These results show that E119D may reduce the baloxavir susceptibility of IBVs without compromising their replicative fitness. Overall, this study expands the molecular landscape of PA substitutions potentially affecting baloxavir efficacy against IBV.
Optimization Material Distribution methodology: Some electromagnetic examples (2015)

Abstract—In this paper, a new approach towards Optimization Material Distribution (OMD) is proposed. The principle behind this approach is to use a surface genetic algorithm to determine material distribution within a fixed Finite Element Computation mesh. The method proves to be highly adaptive to various kinds of electromagnetic actuator optimization approaches. Several optimal electromagnetic examples are presented.
Detection of Pyocyanin Using a New Biodegradable SERS Biosensor Fabricated Using Gold Coated Zein Nanostructures Further Decorated with Gold Nanoparticles (2019)

In this paper, a biodegradable gold coated zein film surface enhanced Raman spectroscopy (SERS) platform, with gold nanoparticles (AuNPs) deposited on the surface to further enhance the Raman signal, was used to detect pyocyanin (PYO), the toxin secreted by Pseudomonas aeruginosa. An inverted pyramid structure imprinted on a zein film and gold coated during the transfer process was further improved with the deposition and fixing of gold nanoparticles, which resulted in enhancement of the SERS signal by approximately a decade. This new platform served as a lab-on-a-chip sensor to enable the sensitive and rapid detection of PYO in drinking water. The size, distribution, and morphology of the zein film nanostructures including the presence and distribution of gold nanoparticles were characterized by scanning electron microscopy (SEM). The new zein-based platform has the advantage of being largely biodegradable compared with commercial silicon- or glass-based platforms. The limit of detection for PYO using the newly developed zein-based SERS sensor platform was calculated as 25 μM, considerably lower than the concentration of PYO in the blood of people with cystic fibrosis which has been reported to be 70 μM.
Characterization of a Binary Output Resistance-to-Voltage Read Circuit for Sensing Magnetic Tunnel Junctions (2017)

The majority of circuits used to sense magnetic tunnel junction devices are clocked (i.e., a clock signal triggers a read operation). However, there are applications in which a continuous read is the desired functionality. We characterize a binary output resistance-to-voltage read circuit designed to continuously sense the state of a magnetic tunnel junction device. It uses a current conveyor architecture, thereby keeping the voltage across the device stable. This allows for greater resilience to load capacitance (e.g., in the device connections). Empirical results measured from a test chip fabricated in a 3M2P 0.5-μm process are presented, including the demonstration of functional correctness, static properties, and dynamic properties.
Novel analgesic ω-conotoxins from the vermivorous cone snail Conus moncuri provide new insights into the evolution of conopeptides (2018)

Abstract Cone snails are a diverse group of predatory marine invertebrates that deploy remarkably complex venoms to rapidly paralyse worm, mollusc or fish prey. ω-Conotoxins are neurotoxic peptides from cone snail venoms that inhibit Ca v 2.2 voltage-gated calcium channel, demonstrating potential for pain management via intrathecal (IT) administration. Here, we isolated and characterized two novel ω-conotoxins, MoVIA and MoVIB from Conus moncuri , the first to be identified in vermivorous (worm-hunting) cone snails. MoVIA and MoVIB potently inhibited human Ca v 2.2 in fluorimetric assays and rat Ca v 2.2 in patch clamp studies, and both potently displaced radiolabeled ω-conotoxin GVIA ( 125 I-GVIA) from human SH-SY5Y cells and fish brain membranes (IC 50 2–9 pM). Intriguingly, an arginine at position 13 in MoVIA and MoVIB replaced the functionally critical tyrosine found in piscivorous ω-conotoxins. To investigate its role, we synthesized MoVIB-[R13Y] and MVIIA-[Y13R]. Interestingly, MVIIA-[Y13R] completely lost Ca v 2.2 activity and MoVIB-[R13Y] had reduced activity, indicating that Arg at position 13 was preferred in these vermivorous ω-conotoxins whereas tyrosine 13 is preferred in piscivorous ω-conotoxins. MoVIB reversed pain behavior in a rat neuropathic pain model, confirming that vermivorous cone snails are a new source of analgesic ω-conotoxins. Given vermivorous cone snails are ancestral to piscivorous species, our findings support the repurposing of defensive venom peptides in the evolution of piscivorous Conidae .
Indonesia's Evolving International Relationships in the Ninth to Early Eleventh Centuries: Evidence from Contemporary Shipwrecks and Epigraphy (2010)

Page range: 15-46
Cortical response after chronic electrical stimulation of canine retina (2004)

Electrical stimulation of the canine retina (in normal and RCD1) is carried out. An electronic retinal prosthetic chip is implanted which contain an implantable stimulator and 16 platinum electrodes disks of 460/spl mu/ diameter placed on the retina. Three dogs were chronically stimulated at 0.05 mC/cm/sup 2/ and 0.1 mC/cm/sup 2/ for 120 days (8-10 hours per day). Bright flash electroretinograms (ERG's) were recorded on the three dogs and found no recordable ERG from a blind dog. After completion of the stimulation protocol cortical subdural electrodes were implanted to record the cortical response for the electrical stimulation of the retina. The aim of this study is to evaluate the electrical evoked cortical responses in normal and blind dogs implanted with subdural electrodes.
O1–02–01: A novel presenilin complex component which modulates gamma– but not epsilon–secretase activity (2006)

The presenilin proteins (PS1 and PS2) and their interacting partners nicastrin, aph–1 and pen–2 form a series of high molecular weight membrane–bound protein complexes that are necessary for gamma– and epsilon–secretase cleavage of selected Type 1 transmembrane proteins, including the amyloid precursor protein (APP), Notch and cadherins. Modest cleavage activity can be generated by reconstituting these four proteins in yeast and sf9 cells. However, a critical, but unanswered question concerning the biology of the presenilin complexes is how their activity is modulated in terms of substrate specificity and/or relative activities at the gamma– and epsilon–sites. A corollary to this question is whether additional proteins in the presenilin complexes might subsume these putative regulatory functions. The hypothesis that additional proteins might exist in the presenilin complexes is supported by the fact that enzymatically active complexes have a mass that is much greater than the predicted mass for a 1:1:1:1 stoichiometric complex (>650 kDa observed versus ∼220kDa predicted). To address these questions we undertook a search for presenilin–interacting proteins that differentially affected gamma– and epsilon–site cleavage events. We have found that a member of the p24 cargo protein family is a component of presenilin complexes, and differentially regulates gamma–secretase cleavage without affecting epsilon–secretase activity.
Index (2020)

You have accessDiscontinuous Fiber-Reinforced CompositesMar 2020IndexUmesh N. Gandhi, Sebastian Goris, Tim A. Osswald, Yu-Yang SongUmesh N. Gandhi, Sebastian Goris, Tim A. Osswald, Yu-Yang Songhttps://doi.org/10.3139/9781569906958.bmSectionsAboutPDF ToolsAdd to FavoritesDownload CitationTrack CitationsCopy LTI LinkPDF key 'share (en)' returned an object instead of string.FacebookTwitterEmailLinkedIn previous chapter FiguresReferencesRelatedDetails 2020Pages: 461-465Print ISBN: 978-1-56990-694-1eISBN: 978-1-56990-695-8 Copyright & PermissionsCopyright by Carl Hanser Verlag GmbH & Co. KGPDF downloadLoading ...
Deep Integration of GPS/INS Based on a Software Defined Receiver – Implementation and Test Results (2014)

A Global Positioning System (GPS) and Inertial Navigation System (INS) deep integration method (VDI) based on a vector lock loop (VLL) is proposed in this research effort. The work presents a VDI for estimating navigation parameters including position, velocity and time, which is based on a software GPS receiver. Field GPS and INS data are collected from a mountainous environment and processed to evaluate the performance of the proposed VDI. Result shows that the proposed VDI can improve both positioning accuracy and robustness over VLL, conventional scalar lock loop (SLL) and sole INS.
Isolated Liver Perfusion Permits Administration of High Doses of Chemotherapeutic Agents (2001)

Tumor cells are dependent on glutamine metabolism and acivicin, which is a selective glutamine antagonist, has been shown to effectively retard tumor growth in several malignancies. However, systemic treatment with acivicin is associated with significant side effects. The purpose of the present study was to examine whether use of an in vivo isolated liver perfusion model may allow administration of lethal doses of acivicin and compare it to regional infusion of acivicin in the hepatic artery. Five days after tumor inoculation, acivicin was administered by an isolated liver perfusion model or by regional infusion via the hepatic artery. It was found that regional infusion of acivicin (5 and 10 mg/kg) via the hepatic artery caused systemic illness and diarrhea, and all animals in this group died within 3 days. In contrast, we observed no signs of systemic illness, diarrhea or hepatocellular injury in rats receiving isolated liver perfusion with or without acivicin (10 mg/kg) administration. Noteworthy, we found that isolated perfusion with acivicin reduced the glutamine content in liver tumors by 39% compared to perfusion with control medium. In line with this, it was found that isolated perfusion with acivicin (10 mg/kg) inhibited tumor growth in the liver. Taken together, this study suggests that application of the isolated liver perfusion model avoids the toxic and lethal effects of high doses of chemotherapy, herein acivicin, and may provide a useful approach to treat liver tumors in vivo.
ChemInform Abstract: Single and Double Asymmetric Induction in Diels‐Alder Cycloadditions with Chiral Acylnitroso Dienophiles. (1992)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.