gebhart/patrepeval huggingface dataset:
Processing and transport to the vacuole of a precursor to sweet potato sporamin in transformed tobacco cell line BY-2 (1993)

Sporamin, a vacuolar storage protein of tuberous roots of sweet potato, is synthesized by membrane-bound polysomes as a precursor which contains a 16 amino acids-long propeptide that follows the N-terminal signal peptide. A precursor to sporamin. expressed in transformed cells of tobacco suspension-cultured cell line BY-2, was sequentially processed from the N-terminus and correctly targeted to the vacuole. Two sequential post-translational processings of the prosporamin produced the vacuolar form of sporamin which was three amino acids longer than authentic sporamin from sweet potato
A New, Durable Antimicrobial Finish for Textiles (2005)

AEM 5700 Antimicrobial (3-trimethoxysilylpropyldimethyloctadecyl ammonium chloride)+ imparts a durable, antimicrobial finish to textiles. The finish protects the fabric against bacteria and fungi, which cause deterioration. It also inhibits the growth of odor-causing bacteria in in vitro tests. In vivo organoleptic tests confirm the practicality of this concept under actual use conditions on socks.
A Scalable Architecture for Automatic Service Composition (2012)

This paper addresses automatic service composition (ASC) as a means to create new value-added services dynamically and automatically from existing services in service-oriented architecture and cloud computing environments. Manually composing services for relatively static applications has been successful, but automatically composing services requires advances in the semantics of processes and an architectural framework that can capture all stages of an application's lifecycle. A framework for ASC involves four stages: planning an execution workflow, discovering services from a registry, selecting the best candidate services, and executing the selected services. This four-stage architecture is the most widely used to describe ASC, but it is still abstract and incomplete in terms of scalable goal composition, property transformation for seamless automatic composition, and integration architecture. We present a workflow orchestration to enable nested multilevel composition for achieving scalability. We add to the four-stage composition framework a transformation method for abstract composition properties. A general model for the composition architecture is described herein and a complete and detailed composition framework is introduced using our model. Our ASC architecture achieves improved seamlessness and scalability in the integrated framework. The ASC architecture is analyzed and evaluated to show its efficacy.
The time-resolved kinetics of superhelical DNA cleavage by BamHI restriction endonuclease. (1990)

The kinetics of the cleavage of superhelical plasmid DNA (pBR322) by the restriction endonuclease, BamHI, have been analyzed in terms a compartmental model consistent with the chemistry first proposed by Rubin and Modrich (Rubin, R. A., and Modrich, P. (1978) Nucleic Acids Res. 5, 2991-2997) for analysis of the kinetics of the restriction endonuclease, EcoRI. The model was defined in terms of two compartments representing DNA substrate (bound and free), two compartments representing nicked intermediate (bound and free), one compartment representing linear product, and one compartment for free enzyme. A simultaneous analysis of concentration changes over time of the three DNA forms (superhelical, nicked, and linear) at six different enzyme concentrations was undertaken employing this compartmental model using SAAM (Simulation Analysis And Modeling) software. Results showed that rate constants characterizing the association of enzyme with superhelical DNA (6.0 x 10(5) M-1 s-1) and nicked DNA (2.8 x 10(5) M-1 s-1) were similar in magnitude and rate constants characterizing cleavage of the first (1.2 x 10(-2) s-1) and second phosphodiester bonds (3.1 x 10(-2) s-1) were also similar. The analysis yields a kinetically determined equilibrium constant of 12.9 nM for the dissociation of nicked intermediate from the enzyme. The rate constant describing the release of the nicked intermediate from the enzyme has a value of 3.7 x 10(-3) s-1. By comparing the value of this release rate constant to the value of the constant describing the second cleavage event, it can be determined that only 10% of the nicked intermediate bound to the enzyme is released as free nicked DNA and that 90% of the nicked intermediate is processed to the linear form without being released. Hence, most of the DNA is cleaved as the result of a single enzyme-DNA recognition event. No steady state assumptions were made in the analysis. The approach was to directly solve the differential equations which described the kinetic processes using an interactive method. This study demonstrates the usefulness of this approach for the analysis of kinetics of protein-DNA interactions for the restriction endonucleases.
HepG2 cell LDL receptor activity and the accumulation of apolipoprotein B and E in response to docosahexaenoic acid and cholesterol. (1992)

In the present study, the accumulation of apolipoproteins (apo) A-I, B, and E in culture medium was measured after 0, 3, 6, 12, and 24 h of incubation with 150 microM docosahexaenoic acid complexed to 75 microM bovine serum albumin (BSA-22:6), either in the presence or absence of 50 micrograms/ml cholesterol and 4 micrograms/ml 25-hydroxycholesterol (C/25-OH). HepG2 cells incubated with BSA + C/25-OH for 24 h accumulated approximately 2.0-fold greater apoE and B as compared to BSA-treated cells. Moreover, HepG2 cell apoB accumulation after 24 h of BSA-22:6 treatment was approximately 2.0-fold greater than apoB accumulation from cells treated with BSA alone. When BSA-22:6 and C/25-OH were both included in the incubation, apoB accumulation was approximately 5.0-fold greater than BSA-treated cells. Comparative studies using BSA-18:1 were carried out for 24 h and showed similar levels of apoA-I, B, and E accumulation in culture medium as compared to BSA-22:6-treated cells. In addition, apoA-I, B, and E mRNA abundance were found to be unaffected by type of fatty acid treatment or length of incubation, averaging 48.2 +/- 7.5, 222 +/- 33.6, and 17.1 +/- 0.7 pg mRNA/micrograms RNA (mean +/- SEM), respectively. As the accumulation of apoB and apoE in culture medium may be modified by HepG2 cell LDL receptor expression, LDL receptor mRNA abundance and LDL receptor activity were quantified at various times over the course of the study. By 6 h of BSA + C/25-OH treatment, LDL receptor mRNA was reduced approximately 2.3-fold, while receptor activity was reduced approximately 1.5-fold, as compared to BSA controls. In an experiment designed to determine uptake of HepG2 cell lipoproteins, 3H-labeled apoB-containing lipoproteins derived from HepG2 cells were prepared. The 3H-labeled lipoproteins were 1.25-fold more likely to be removed from the media of HepG2 cells treated with BSA than from cells treated with BSA + C/25-OH. From these results, we postulate that HepG2 cell LDL receptor activity mediates the removal of apoB, E-containing lipoproteins from culture medium and contributes to the lower accumulation of apoB and E observed in culture medium from cells treated with BSA as compared to cells treated with C/25-OH.
TH‐E‐BRB‐07: Treatment Planning Performance of High Intensity Flattening‐Filter‐ Free Beams for Head‐And‐Neck Cancer: IMRT versus VMAT (2011)

Purpose: To evaluate the performance of high‐intensity flattening‐filter‐free (FFF) beams in terms of planning efficiency and dosimetric merits for head‐ and‐neck cancers treated with IMRT and VMAT techniques. Methods: Ten patients with Stage III–IV squamous cell carcinoma of the head and neck were planned with fixed‐field IMRT and VMAT using 6MV flattened, 6MV FFF and 10MV FFF beams. Seven equi‐spaced fields and two axial arcs were used for IMRT and RapidArc, respectively. Prescription doses to the primary and nodal targets were, respectively, 70 and 54 Gy over 35 fractions. Identical dose constraints are used for IMRT and RapidArc plans. Planning times and plan qualities were assessed for IMRT versus RapidArc with flattened and FFF beams. Results: Target doses showed moderately better uniformity and conformity in IMRT plans than in RapidArc plans. While IMRT plans also exhibited some superiority in OAR sparing compared to RapidArc, the improvement is not clinically significant for most patients. The mean time for a single planning iteration was 15.7 minutes for IMRT and 55.0 minutes for RapidArc using an Eclipse workstation with 2.27 GHz Dual Quad‐Core CPUs. The average MU is 682 for RapidArc and 2636 for IMRT. The average MUs for IMRT plans varied greatly among 6MV flattened, 6MV FFF and 10 MV FFF beams requiring 1513, 2580 and 3816 MU, respectively. In RapidArc plans, however, this variation is less than 20% for the three beams. Conclusions: Both IMRT and RapidArc produced clinically acceptable treatment plans with flattened and FFF beams for head‐and‐neck cancers. Fixed‐field IMRT plans showed moderate dosimetric advantage over RapidArc plans but required almost four times the MU. Among IMRT plans, FFF beams required 2–3 times the MU of flattened beams.
Laser beam filtering by refractive or diffractive microstructures (2005)

Lateral intensity fluctuations of laser beams can be removed by spatial frequency filtering using a pinhole. Beams with a high divergence have a very small and narrow focus, therefore the pinhole must be both very small and thin. Conventional pinholes, based on absorption or reflection of the unwanted parts of the beam, have several limitations in this case. Their disadvantages can be overcome by a new kind of pinholes that are based on microstructures. They are characterized by a higher laser damage threshold, only limited by the bulk material, and a constant visibility of the beam, making the adjustment process of the pinhole a lot easier. The microstructures can be circular, binary gratings working mainly in a diffractive way, as we described earlier. This paper will summarize and update the results for this diffractive, dielectric pinholes and introduce a new idea of using cone-like structures, working mainly in a refractive way. We present the design, fabrication and characterization of pinholes, realized with both of these new concepts and we asses their performance and their limitations.
Vacuum/Compression Valving (VCV) Using Parrafin-Wax on a Centrifugal Microfluidic CD Platform (2013)

This paper introduces novel vacuum/compression valves (VCVs) utilizing paraffin wax. A VCV is implemented by sealing the venting channel/hole with wax plugs (for normally-closed valve), or to be sealed by wax (for normally-open valve), and is activated by localized heating on the CD surface. We demonstrate that the VCV provides the advantages of avoiding unnecessary heating of the sample/reagents in the diagnostic process, allowing for vacuum sealing of the CD, and clear separation of the paraffin wax from the sample/reagents in the microfluidic process. As a proof of concept, the microfluidic processes of liquid flow switching and liquid metering is demonstrated with the VCV. Results show that the VCV lowers the required spinning frequency to perform the microfluidic processes with high accuracy and ease of control.
Therapeutic Effects of Cold-Pressed Perilla Oil Mainly Consisting of Linolenic acid, Oleic Acid and Linoleic Acid on UV-Induced Photoaging in NHDF Cells and SKH-1 Hairless Mice (2020)

Positive physiological benefits of several plant oils on the UV-induced photoaging have been reported in some cell lines and model mice, but perilla oil collected from the seeds of <i>Perilla</i> <i>frutescens</i> <i>L.</i> has not been investigated in this context. To study the therapeutic effects of cold-pressed perilla oil (CPO) on UV-induced photoaging in vitro and in vivo, UV-induced cellular damage and cutaneous photoaging were assessed in normal human dermal fibroblasts (NHDFs) and HR-1 hairless mice. CPO contained five major fatty acids including linolenic acid (64.11%), oleic acid (16.34%), linoleic acid (11.87%), palmitic acid (5.06%), and stearic acid (2.48%). UV-induced reductions in NHDF cell viability, ROS production, SOD activity, and G2/M cell cycle arrest were remarkably improved in UV + CPO treated NHDF cells as compared with UV + Vehicle treated controls. Also, UV-induced increases in MMP-1 protein and galactosidase levels were remarkably suppressed by CPO. In UV-radiated hairless mice, topical application of CPO inhibited an increase in wrinkle formation, transepidermal water loss (TEWL), erythema value, hydration and melanin index on dorsal skin of UVB-irradiated hairless mice. CPO was observed to similarly suppress UV-induced increases in epidermal thickness, mast cell numbers, and galactosidase and MMP-3 mRNA levels. These results suggest CPO has therapeutic potential in terms of protecting against skin photoaging by regulating skin morphology, histopathology and oxidative status.
Asymmetric induction in nitrone cycloadditions: a total synthesis of acivicin by double asymmetric induction (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAsymmetric induction in nitrone cycloadditions: a total synthesis of acivicin by double asymmetric inductionShadreck Mzengeza and Ralph Allen WhitneyCite this: J. Org. Chem. 1988, 53, 17, 4074–4081Publication Date (Print):August 1, 1988Publication History Published online1 May 2002Published inissue 1 August 1988https://pubs.acs.org/doi/10.1021/jo00252a035https://doi.org/10.1021/jo00252a035research-articleACS PublicationsRequest reuse permissionsArticle Views685Altmetric-Citations67LEARN 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
Identification of naturally processed human ovarian peptides recognized by tumor-associated CD8+ cytotoxic T lymphocytes. (1997)

Identification of naturally processed peptides recognized by tumorspecific CTLs may lead to epitope-specific tumor vaccines. Because these epitopes may be expressed differently on epithelial tumors and may differ in their ability to induce CTL in vivo, we have isolated the HLA-A2-peptide complexes by immunoaffinity from an established ovarian tumor line transfected with and expressing HLA-A2 gene. High-performance liquid chromatography-fractionated peptides were used to reconstitute epitopes recognized on HLA-A2 by three HLA-A2+ CD8+ CTL lines. These lines recognized at least three of the same groups of fractions (designated SKOV3.A, -B, and -C) but showed differences in the pattern of recognition of other fractions. To gain insight in the epitope distribution by freshly isolated ovarian tumors, we compared the recognition of peaks SKOV3.B and -C with the corresponding peaks from an ovarian tumor (OVA-6) that expressed similar levels of HLA-A2, using one of these lines (CTL-OVA-5) as indicator. CTL-OVA-5 recognized a large number of epitopes from peaks B and C rechromatographed on more resolving high-performance liquid chromatography gradient. Although a number of peaks appeared to be coincident on both SKOV3 and OVA-6, an even higher number appeared either not to overlap or to overlap only partially. These findings, which represent the first analysis of the epitopes presented by a patient tumor, suggest that the use of tumor line-derived peptides for vaccination may require selection of the epitopes corresponding to the ones presented by freshly isolated human tumors.
Compression Braking for Longitudinal Control of Commercial Heavy Vehicles (2001)

In this report, we develop a detailed crank angle based diesel engine model and a low order engine torque model for a Class 8 commercial heavy vehicle (CHV) as well as longitudinal control algorithms that coordinate the variable compression brake mechanism with service brakes and gear ratios. In particular, we have developed a detailed crank angle based simulation model for a six cylinder, 350Hp diesel engine equipped with a compression brake.
Complete murine cDNA sequence, genomic structure, and tissue expression of the high mobility group protein HMG-I(Y). (1988)

A cDNA coding for the non-histone chromosomal protein HMG-I, or its isoform HMG-Y, was isolated from a murine Friend cell library using synthetic oligonucleotide hybridization probes. Sequence analysis showed that the 1670-base pair full length cDNA insert consists of a 201-base pair, G/C-rich (74%), 5'-untranslated region, a 288-base pair amino acid coding sequence, and an unusually long 1182-base pair 3'-untranslated region. The deduced 96-residue amino acid coding sequence of the murine HMG-I(Y) cDNA is very similar to the reported amino acid sequence of human HMG-I, except that it lacks 11 internal amino acids reported in the human protein. Based on Southern blot hybridization analysis of genomic DNA, there appear to be fewer than five copies of HMG-I(Y) genes in the haploid murine genome. These murine HMG-I(Y) genes contain a large (at least 890 base pairs) exon that includes most, or all, of the 3'-untranslated region; whereas the much shorter 5'-untranslated region and amino acid coding sequences are interrupted by at least one intron. A single size class (approximately 1700 nucleotides in murine cells and 2000 nucleotides in human cells) of HMG-I(Y) mRNAs was detected at high levels in total RNA extracts from rapidly dividing, transformed cells, but to a lesser extent, or not at all, in extracts from slowly or non-dividing cells.
Laser-induced autofluorescence of human arteries. (1988)

A new technique for imaging the intimal surface of arteries through optic fibers has been devised. With the aid of an optical multichannel analyzer, we recorded in real time fluorescence spectra during excitation of the arterial surface with an argon ion laser. Spectral parameters were used to detect atherosclerotic plaques and to discriminate normal tissue from lipid rich and calcified atheromas. By digitizing relative intensity values and the ratios of the peak at 550 nm to that at 520 nm into a gray scale, we generated pseudocolor maps of the arterial wall of 10 human aortas. Specific color distributions were congruent with the distribution of calcified tissue visualized by soft x-ray radiography and the distribution of lipid delineated by staining with Sudan IV. Thus, bidimensional maps obtained by laser spectroscopy can be used to identify the presence and composition of atherosclerotic lesions. Fluorescence imaging may prove to be an important application of laser techniques for the diagnosis and treatment of atherosclerosis.
HVEM ultrastructural analysis of mouse fungiform taste buds, cell types, and associated synapses (1993)

We have used high voltage electron microscopy and computer-generated three-dimensional reconstructions from serial sections to elucidate the structure of taste bud cells and their associated synapses in fungiform taste buds of the mouse. Five fungiform taste buds (two of which were serially sectioned) were examined with the high-voltage electron microscope (HVEM). We identified the synaptic connections from taste cells onto sensory nerve fibers and classified the presynaptic taste cells based on previously established ultrastructural criteria. From those data we have distinguished dark, intermediate, and light cells in murine fungiform taste buds. Synapses in murine fungiform taste buds are fewer in number, but contain many more vesicles than synapses in either foliate or circumvallate taste buds. Synapses in mouse circumvallate and foliate taste buds typically contain a few to several synaptic vesicles per section, whereas fungiform synapses may have in excess of 100 vesicles per profile. The significance of these differences in the numbers of synapses and synaptic structure between fungiform and circumvallate/foliate synapses is not known. Based on the small number of synapses observed in fungiform taste buds, we speculate that fungiform taste buds have only a few cells transducing sensory stimuli at any given time. Alternatively, communication of sensory information from the taste receptor cells to the afferent nerve fibers may be mediated by some other mechanism(s) in addition to classical chemical synapses.
Assessment of Liver Fibrosis by Transient Elastography in Persons with Hepatitis C Virus Infection or HIV–Hepatitis C Virus Coinfection (2009)

For most HCV-infected persons, fibrosis stage predicted by elastography is similar to that predicted by examination of a biopsy specimen. Elastography-based measurement of liver stiffness holds promise to expand liver disease screening and monitoring, particularly among injection drug users.
Analysis on the Effects of MOSFET Threshold Voltage Mismatch in CMOS Operational Amplifiers for RF Applications (2006)

CMOS operational amplifiers (op amps) are used in RF circuit blocks as low noise or power amplifiers. One of the critical issues in the performance and operation of these op amps is its threshold voltage (Vth) mismatch between adjacent MOSFET devices. Different Vth values between the op amps' input MOSFETs of the differential stage causes it to deviate in its output specification, which include among others, the AC and DC gain, bandwidth, and most notably, the offset voltage. First order analysis of offset voltage approximation is performed with 30% Vth variation, and the obtained result is verified through a BSIM3 MOSFET model, with parametric sweep SPICE simulation of a 2-stage large gain and bandwidth op amp. The study is found to be crucial in order to develop a technique that could detect Vth variation of transistors, and compensate op amps output specifications accordingly
UV/EB Cure Mechanism for Porous PECVD/SOD Low-k SiCOH Materials (2006)

The mechanism of UV and EB cure processes for porous low-k SiCOH materials was investigated by using experimental results obtained using PECVD and SOD films as well as simulated results. Both UV and EB cures induced dielectric constant change and Young's modulus improvement because Si-OH elimination (moisture removal) and cross-link formation occurred during film shrinkage. Excess UV curing, however, caused defects in the porous SiCOH film, as indicated by ESR analysis. The mechanism discussed in this work is applicable to most UV/EB cure systems and PECVD/SOD SiCOH materials for 45-nm-node Cu interconnects
Quantum Dots As Ultrasensitive Nanoactuators and Sensors of Amyloid Aggregation in Live Cells (2009)

Quantum dots multifunctionalized with the amyloid protein alpha-synuclein act at nanomolar concentrations as very potent inducers of the aggregation of micromolar-millimolar bulk concentrations of the protein in vitro and in cells. Fibrillation in live cells, a process diagnostic of Parkinson's disease, is accelerated up to 15-fold with only approximately 100 nanoparticles. The combination with a tetracysteine-tagged form of alpha-synuclein specific for fluorogenic biarsenicals constitutes a very sensitive system for studying pathological amyloid formation in cells.