gebhart/patrepeval huggingface dataset:
The Ubiquitin-Proteasome Pathway and Serine Kinase Activity Modulate Adenomatous Polyposis Coli Protein-mediated Regulation of β-Catenin-Lymphocyte Enhancer-binding Factor Signaling (1999)

The tumor suppressor function of the adenomatous polyposis coli protein (APC) depends, in part, on its ability to bind and regulate the multifunctional protein, beta-catenin. beta-Catenin binds the high mobility group box transcription factors, lymphocyte enhancer-binding factor (LEF) and T-cell factor, to directly regulate gene transcription. Using LEF reporter assays we find that APC-mediated down-regulation of beta-catenin-LEF signaling is reversed by proteasomal inhibitors in a dose-dependent manner. APC down-regulates signaling induced by wild type beta-catenin but not by the non-ubiquitinatable S37A mutant, beta-catenin. Bisindoylmaleimide-type protein kinase C inhibitors, which prevent beta-catenin ubiquitination, decrease the ability of APC to down-regulate beta-catenin-LEF signaling. All these effects on LEF signaling are paralleled by changes in beta-catenin protein levels. Lithium, an inhibitor of glycogen synthase kinase-3beta, does not alter the ability of APC to down-regulate beta-catenin protein and beta-catenin-LEF signaling in the colon cancer cells that were tested. These results point to a role for beta-catenin ubiquitination, proteasomal degradation, and potentially a serine kinase other than glycogen synthase kinase-3beta in the tumor-suppressive actions of APC.
The use of low-level light for hair growth: Part I (2009)

LLLT may be a promising treatment option for patients who do not respond to either finasteride or minoxidil, and who do not want to undergo hair transplantation. This technology appears to work better for some people than for others. Factors predicting who will most benefit are yet to be determined. Larger, longer-term placebo-controlled studies are needed to confirm these findings, and demonstrate statistical significance, or refute them altogether.
Concomitant Induction of CD4+ and CD8+ T Cell Responses in Volunteers Immunized with <i>Salmonella enterica</i> Serovar Typhi Strain CVD 908-htrA (2003)

Type 1 cell-mediated immunity might play an important role in protection from typhoid fever. We evaluated whether immunization with Salmonella enterica serovar Typhi (S. Typhi) strain CVD 908-htrA (a Delta aroC Delta aroD Delta htrA mutant), a leading live oral typhoid vaccine candidate, elicits specific CD4(+) and CD8(+) S. Typhi immune responses. Potent CTL responses and IFN-gamma secretion by CD8(+) T cells were detected following immunization with CVD 908-htrA in high (4.5 x 10(8) CFU) and low (5 x 10(7) CFU) dosages. S. Typhi-specific CTL were observed in six of eight vaccinees (four high and two low dose) after immunization. Mean increases in the frequency of IFN-gamma spot-forming cells (SFC) in the presence of S. Typhi-infected targets were 221 +/- 41 SFC/10(6) PBMC and 233 +/- 87 SFC/10(6) PBMC, in the high and low dose groups, respectively. Strong CD4(+) T cell responses were also observed. Increases in the IFN-gamma production to soluble S. Typhi flagella (STF) occurred in 82 and 38% of the volunteers who received the high and low doses, respectively. Robust correlations were observed between volunteers that responded with IFN-gamma SFC to stimulation with S. Typhi-infected cells and IFN-gamma released in response to stimulation with STF Ags (r = 0.822, p < 0.001) and between CTL and IFN-gamma production to STF (r = 0.818, p = 0.013). These data demonstrating the concomitant induction of both CD4- and CD8-mediated CMI are consistent with a significant role for type 1 immunity in controlling typhoid infection and support the continuing evaluation of CVD 908-htrA as a typhoid vaccine candidate.
Molecularly Imprinted TiO<sub>2</sub>-Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry for Selectively Detecting α-Cyclodextrin (2004)

This study describes a new means to conduct molecular recognition-based analysis using mass spectrometry. Taking advantage of the unique characteristic of the absorption capacity of the TiO(2) sol-gel material in the UV region, a TiO(2) sol-gel-deposited thin film was employed as the sample substrate to assist in UV laser desorption/ionization of analytes. Sol-gels are polymeric materials that are easy to prepare and modify at low temperatures. Molecularly imprinted TiO(2) sol-gels were generated for molecular recognition-based analysis. alpha-Cyclodextrin (CD) was selected as the template molecule and doped into TiO(2) in a sol-gel reaction. The molecularly imprinted TiO(2) sol was spin-coated on a glass slide, and appropriate template cavities in the TiO(2) sol-gel material were formed after the template molecules were removed. We demonstrate that this modified glass slide can be used to select alpha-CD from a sample solution containing equal amounts of alpha-, beta-, and gamma-CD (50 ppb each, 18 mL); alpha-CD was directly detected from the modified glass slide by matrix-assisted laser desorption/ionization mass spectrometry without the addition of extra matrix. This approach provides a new detection method for molecular recognition-based analysis.
Serum uric acid levels and risk for vascular diseases in patients with metabolic syndrome. (2007)

Elevated SUA levels are strongly associated with the metabolic syndrome, yet are not an independent risk factor for vascular disease in patients with the metabolic syndrome. In patients without the metabolic syndrome, elevated SUA levels are associated with increased risk for vascular disease.
Effect of seven new vasoactive immunoconjugates on the enhancement of monoclonal antibody uptake in tumors (1994)

These studies indicate that pretreatment with vasoactive immunoconjugates may improve monoclonal antibody uptake in tumors significantly and thereby increase the therapeutic index of monoclonal antibody-directed immunotherapy.
A COMPARATIVE STUDY OF GLUCONOLACTONE VERSUS BENZOYL PEROXIDE IN THE TREATMENT OF ACNE (1992)

Alpha hydroxy acids (AHA's) or "fruit acids" are a special group of organic acids found in many natural foods. They have been described in the literature for the treatment of a number of conditions in which abnormal keratinization consistently contributes to pathogenesis. These include the icthyoses, warts, psoriasis, eczema and acne. We have performed a double-blind clinical trial on 150 patients to evaluate the efficacy and skin tolerance of the alpha hydroxy acid gluconolactone 14% in solution (Nuvoderm lotion) in the treatment of mild to moderate acne when compared with its vehicle (placebo) and 5% benzoyl peroxide lotion. The results of this study showed that both gluconolactone and benzoyl peroxide had a significant effect in improving patients' acne by reducing the number of lesions (inflamed and non-inflamed). Furthermore, fewer side-effects were experienced by patients treated with gluconolactone when compared with benzoyl peroxide.
The Effect of Insulin Treatment on Insulin Secretion and Insulin Action in Type II Diabetes Mellitus (1985)

We have studied the effects of 3 wk of continuous subcutaneous insulin infusion (CSII) on endogenous insulin secretion and action in a group of 14 type II diabetic subjects with a mean (+/-SEM) fasting glucose level of 286 +/- 17 mg/dl. Normal basal and postprandial glucose levels were achieved during insulin therapy at the expense of marked peripheral hyperinsulinemia. During the week of posttreatment evaluation, the subjects maintained a mean fasting glucose level of 155 +/- 11 mg/dl off insulin therapy, indicating a persistent improvement in carbohydrate homeostasis. Adipocyte insulin binding and in vivo insulin dose-response curves for glucose disposal using the euglycemic clamp technique were measured before and after therapy to assess the effect on receptor and postreceptor insulin action. Adipocyte insulin binding did not change. The insulin dose-response curve for overall glucose disposal remained right-shifted compared with age-matched controls, but the mean maximal glucose disposal rate increased by 74% from 160 +/- 14 to 278 +/- 18 mg/m2/min (P less than 0.0005). The effect of insulin treatment on basal hepatic glucose output was also assessed; the mean rate was initially elevated at 159 +/- 8 mg/m2/min but fell to 90 +/- 5 mg/m2/min in the posttreatment period (P less than 0.001), a value similar to that in control subjects. Endogenous insulin secretion was assessed in detail and found to be improved after exogenous insulin therapy. Mean 24-h integrated serum insulin and C-peptide concentrations were increased from 21,377 +/- 2766 to 35,584 +/- 4549 microU/ml/min (P less than 0.01) and from 1653 +/- 215 to 2112 +/- 188 pmol/ml/min (P less than 0.05), respectively, despite lower glycemia. Second-phase insulin response to an intravenous (i.v.) glucose challenge was enhanced from 170 +/- 53 to 1022 +/- 376 microU/ml/min (P less than 0.025), although first-phase response remained minimal. Finally, the mean insulin and C-peptide responses to an i.v. glucagon pulse were unchanged in the posttreatment period, but when glucose levels were increased by exogenous glucose infusion to approximate the levels observed before therapy and the glucagon pulse repeated, responses were markedly enhanced. Simple and multivariate correlation analysis showed that only measures of basal hepatic glucose output and the magnitude of the postbinding defect in the untreated state could be related to the respective fasting glucose levels in individual subjects.(ABSTRACT TRUNCATED AT 400 WORDS)
PTRAJ and CPPTRAJ: Software for Processing and Analysis of Molecular Dynamics Trajectory Data (2013)

We describe PTRAJ and its successor CPPTRAJ, two complementary, portable, and freely available computer programs for the analysis and processing of time series of three-dimensional atomic positions (i.e., coordinate trajectories) and the data therein derived. Common tools include the ability to manipulate the data to convert among trajectory formats, process groups of trajectories generated with ensemble methods (e.g., replica exchange molecular dynamics), image with periodic boundary conditions, create average structures, strip subsets of the system, and perform calculations such as RMS fitting, measuring distances, B-factors, radii of gyration, radial distribution functions, and time correlations, among other actions and analyses. Both the PTRAJ and CPPTRAJ programs and source code are freely available under the GNU General Public License version 3 and are currently distributed within the AmberTools 12 suite of support programs that make up part of the Amber package of computer programs (see http://ambermd.org ). This overview describes the general design, features, and history of these two programs, as well as algorithmic improvements and new features available in CPPTRAJ.
High-rate directional deep dry etching for bulk silicon micromachining (1995)

Cryogenic reactive ion etching (RIE) of silicon using SF6 gas and a multilayer Ni/Al mask has been studied and high-rate, directional deep etching was demonstrated. The temperature of the cathode wafer stage was controlled at a low temperature (-60 degrees C) and a magnetic field was applied to enhance the plasma density. A high flow rate (1 sccm) of the etching gas and low pressure (0.5 Pa) produced by high-speed exhausting were effective for high-rate etching and directional etching. A trade-off of the RF power density was necessary between the etching rate and the etching selectivity to the mask with selectivity improving at higher etch rates. The system could be used to etch through a silicon wafer of 200 mu m in thickness. An etching rate of 0.8 mu m min-1 and vertical walls as thin as 20 mu m were obtained in the through wafer etching. On the other hand, the etching rate was reduced in narrow deep grooves. This etching method is effective in fabricating three-dimensional silicon microstructures with high aspect ratio.
Membrane Activity and Transfection Ability of Amphipathic Polycations as a Function of Alkyl Group Size (2005)

Cationic membrane disruptive peptides such as melittin would appear to have attributes necessary for DNA delivery: DNA binding via electrostatic interactions and membrane lysis to enable cytoplasmic delivery. However, the relatively small overall charge of membrane disruptive peptides results in weak interactions with DNA. As a model of cationic membrane disruptive peptides, amphiphilic polyvinyl ethers were synthesized. The number of positively charged groups incorporated into these polymers is substantially greater than membrane-active peptides, which enables these polymers to form stable complexes with DNA. By varying the length of the hydrophobic groups incorporated into the polymer from one to four carbons, the dependence of membrane activity on side chain length was established. The ability of these polymers to transfect DNA in tissue culture was tested, and it was found that transfection efficiency is dependent upon the membrane disruptive activity of the polymer. Comparison of melittin and synthetic polymers suggests that transfection and toxicity appear to be dependent upon their affinity for DNA. This demonstration of relationships among membrane lysis, transfection, DNA binding, and polymer side-chain composition establishes a new class of transfection reagents and may guide in the design of polymers and formulations that will enable efficient in vivo transfection.
Elastomeric Materials for Acoustical Applications (1989)

A background discussion of polymer viscoelasticity is given. Methods of polymer characterization are discussed. Factors in the compounding and vulcanization of elastomeric materials which affect end-product performance are also discussed. General information and cure systems are discussed for a number of different classes of rubber materials. Dynamic mechanical properties of a number of elastomeric materials are graphically presented. Compounding recipes and cure conditions are included, as well as the static physical properties. References to standard test methods (ASTM) are included where applicable. Indices containing names of suppliers of elastomeric materials and adhesives, as well as generic and trade-name cross-indexing, are also incorporated into this work. Additionally, an appendix on acoustical coupling fluids is included. This lists many of the fluids currently in use. Physical properties of interest, such as dielectric constant and electrical resistivity, as well as thermodynamic properties (where available) are included. Keywords: Adhesion; Butyl rubber; Chlorobutyl rubbers; Ethylene-propylene-diene-monomer; Fluorocarbon rubber; Natural rubber; Neoprenes; Acrylonitrile rubber; Polyurethanes.
Modeling of additive effects on the electroplating of a through‐hole (1990)

Abstract A mathematical model of copper plating of a through‐hole is developed which relates uniformity of deposition to bulk electrolyte composition, applied potential difference, aspect ratio, through‐hole diameter, and deposition kinetics. The electrochemical transport equations governing plating in a through‐hole are solved assuming that the fluid within the through‐hole is stagnant. Conditions for uniform plating are determined both for Butler‐Volmer kinetics considering the effects of dissociation of bisulfate ions in the electrolytic solution and for kinetics limited by complexation of cupric ions with an adsorbed neutral additive species.
Optical fiber magnetic field sensors with TbDyFe magnetostrictive thin films as sensing materials (2009)

Different from usually-used bulk magnetostrictive materials, magnetostrictive TbDyFe thin films were firstly proposed as sensing materials for fiber-optic magnetic field sensing characterization. By magnetron sputtering process, TbDyFe thin films were deposited on etched side circle of a fiber Bragg Grating (FBG) as sensing element. There exists more than 45pm change of FBG wavelength when magnet field increase up to 50 mT. The response to magnetic field is reversible, and could be applicable for magnetic and current sensing.
Aromatic Amination/Imination Approach to Chiral Benzimidazoles (2002)

The powerful Buchwald-Hartwig amination was utilized for the construction of the benzimidazole nucleus with the substituted nitrogen atom bearing a chiral substituent. A successive amination/imination was followed by an acid-catalyzed ring closure step to give the benzimidazole ring. The products were deprotonated and acylated at the C2 position and could be alkylated on nitrogen to give chiral benzimidazolium salts.
Genetic Diversity among Enterococcus faecalis (2007)

Enterococcus faecalis, a ubiquitous member of mammalian gastrointestinal flora, is a leading cause of nosocomial infections and a growing public health concern. The enterococci responsible for these infections are often resistant to multiple antibiotics and have become notorious for their ability to acquire and disseminate antibiotic resistances. In the current study, we examined genetic relationships among 106 strains of E. faecalis isolated over the past 100 years, including strains identified for their diversity and used historically for serotyping, strains that have been adapted for laboratory use, and isolates from previously described E. faecalis infection outbreaks. This collection also includes isolates first characterized as having novel plasmids, virulence traits, antibiotic resistances, and pathogenicity island (PAI) components. We evaluated variation in factors contributing to pathogenicity, including toxin production, antibiotic resistance, polymorphism in the capsule (cps) operon, pathogenicity island (PAI) gene content, and other accessory factors. This information was correlated with multi-locus sequence typing (MLST) data, which was used to define genetic lineages. Our findings show that virulence and antibiotic resistance traits can be found within many diverse lineages of E. faecalis. However, lineages have emerged that have caused infection outbreaks globally, in which several new antibiotic resistances have entered the species, and in which virulence traits have converged. Comparing genomic hybridization profiles, using a microarray, of strains identified by MLST as spanning the diversity of the species, allowed us to identify the core E. faecalis genome as consisting of an estimated 2057 unique genes.
Automatic skin enhancement with visible and near-infrared image fusion (2010)

Skin tones, portraits in particular, are of critical importance in photography and video, but a number of factors, such as pigmentation irregularities (e.g., moles, freckles), irritation, roughness, or wrinkles can reduce their appeal. Moreover, such "defects" are oftentimes enhanced by scene lighting conditions.
The collagenous domain of class A scavenger receptors is involved in macrophage adhesion to collagens (2001)

Class A macrophage scavenger receptors (MSRs) have a remarkably broad ligand specificity and are well-known for their roles in atherogenesis and host defense. Recently, we demonstrated that these receptors also recognize and mediate adhesion to denatured forms of type I collagen. In this study, the involvement of the collagenous domain of MSRs in binding to denatured type I collagen was investigated. Transient expression of full-length, native type II MSR in COS-1 cells conferred adhesion to denatured type I collagens, whereas expression of a truncated receptor lacking the distal portion of the collagenous domain did not. Further, a synthetic peptide derived from the collagenous domain was effective in abrogating Mphi adhesion to denatured forms of type I collagen. We also addressed collagen-type specificity by examining MSR affinity for type III and type IV collagens. As with type I collagen, Mphis adhered only to denatured forms of type III collagen. Moreover, the adhesion was mediated by MSRs. In contrast, adhesion to denatured type IV collagen was not shown to be MSR-dependent, but adhesion to the native form was. MSR-mediated adhesion to types III and IV collagens was also shown to be dependent on the collagenous domain. Taken together, these data strongly suggest that the collagenous domain is involved in MSR-mediated adhesion to denatured forms of types I and III collagens and native, but not denatured, type IV collagen.
TCR-Mediated Internalization of Peptide-MHC Complexes Acquired by T Cells (1999)

Peptide-major histocompatibility complex protein complexes (pMHCs) on antigen-presenting cells (APCs) are central to T cell activation. Within minutes of peptide-specific T cells interacting with APCs, pMHCs on APCs formed clusters at the site of T cell contact. Thereafter, these clusters were acquired by T cells and internalized through T cell receptor-mediated endocytosis. During this process, T cells became sensitive to peptide-specific lysis by neighboring T cells (fratricide). This form of immunoregulation could explain the "exhaustion" of T cell responses that is induced by high viral loads and may serve to down-regulate immune responses.
Bright, single-spatial-mode source of frequency non-degenerate, polarization-entangled photon pairs using periodically poled KTP (2004)

We use two perpendicular crystals of periodically-poled KTP to directly generate polarization-entangled photon pairs, the majority of which are emitted into a single Gaussian spatial mode. The signal and idler photons have wavelengths of 810 nm and 1550 nm, respectively, and the photon-pair generation rate is 1.2x107 sec-1 for a pump power of 62 mW. The apparatus is compact, flexible, and easily to use.
Plasma levels of free and acid‐labile hydralazine: Effects of multiple dosing and of procainamide (1978)

The steady‐state plasma levels of unchanged free (H) and its ALC were measured in 6 normal volunteers—3 RA and 3 SA. All subjects received 25 mg H every 6 hr for a total of 12 doses; RA received an additional dose of 50 mg in a similar manner. Peak plasma levels offree H occurred at ½ to 1 hr following drug administration and declined with a t½ of 3.5 to 4.5 hr in both RA and SA. In contrast, ALC levels remained approximately constant over the 8‐hr sampling period. In the SA the mean steady‐state plasma concentration of ALC was 28% of the free H at the 25‐mg dose level. In the RA the percentages were 25 at the 25‐mg dose and 22 at the 50‐mg dose. These results indicate that under steady‐state conditions H is present predominantly in its free form. Administration of H (12 doses; 25 or 50 mg every 6 hr) with PA (every 3 or 4 hr) resulted in no alteration in the plasma levels of either H and its ALC or PA and its acetylated metabolite. This remained true when each phenotype was considered separately. The results from this portion of the study demonstrate that in normal subjects therapeutic plasma levels of neither PA nor H interfere with the acetylation of the other. Possible explanations for the lack of an interaction are presented.