gebhart/patrepeval huggingface dataset:
Protein-bound choline is released from the pneumococcal autolytic enzyme during adsorption of the enzyme to cell wall particles (1990)

The inactive precursor form of the pneumococcal autolytic enzyme cloned in Escherichia coli was isolated by affinity chromatography on Sepharose-linked choline. The enzyme was recovered in an electrophoretically pure and activated form by elution from the affinity column with radioactive choline solution. When radioactive choline was used for elutions, the enzyme protein isolated contained protein-bound choline, at approximately 1 mol of choline per mol of enzyme protein, indicating the presence of a single choline recognition site. Radioactive choline remained bound to the enzyme protein during dialysis, precipitation by trichloroacetic acid or ammonium sulfate, and during gel filtration, but not during sodium dodecyl sulfate-polyacrylamide gel electrophoresis. Incubation of the choline-labeled autolysin with pneumococcal cell walls at 0 degrees C resulted in the adsorption of the enzyme to the wall particles and a simultaneous release of free choline from the enzyme protein. It is suggested that the choline molecules that became bound to the enzyme protein during the activation of autolysin are expelled from the choline-binding site and replaced by choline residues from the wall teichoic acid as the autolysin molecules adsorb to their insoluble substrate before the onset of enzymatic wall hydrolysis.
On the performance of TCP over throughput-optimal CSMA (2011)

An interesting distributed throughput-optimal CSMA MAC protocol, called adaptive CSMA, was proposed recently to schedule any strictly feasible rates inside the capacity region. Of particular interest is the fact that the adaptive CSMA can achieve a system utility arbitrarily close to that is achievable under a central scheduler. However, a specially designed transport-layer rate controller is needed for this result. An outstanding question is whether TCP Reno (one of the most mature versions of TCP) is compatible with adaptive CSMA and can achieve the same result. The answer to this question will determine how close to practical deployment adaptive CSMA is. Our answer is yes and no. First, we observe that running TCP Reno directly over adaptive CSMA results in severe starvation problems. Effectively, its performance is no better than that of TCP Reno over legacy CSMA (IEEE 802.11), and the potentials of adaptive CSMA cannot be realized. We then propose a multi-connection TCP solution with active queue management and prove that it can work with adaptive CSMA to achieve optimal utility. NS-2 simulations demonstrate that our solution can alleviate starvation and achieve fair and efficient rate allocation. We remark that multi-connection TCP can be implemented at either application or transport layer. Application-layer implementation requires no kernel modification, making the solution readily deployable in networks running adaptive CSMA. Our results show that adaptive CSMA can work well with only light-weight TCP modifications, bringing it a step closer to practicality.
Control of differentiation of a mammary cell line by lipids. (1980)

A rat mammary cell line (LA7) undergoes spontaneous differentiation into domes due to production of specific inducers by the cells. Some of these inducers may be lipids, and we show that lipids regulate this differentiation as both inducers and inhibitors. One inhibitor is the tumor promoter tetradecanoyl-13 phorbol 12-acetate. The inducers are saturated fatty acids of two groups: butyric acid and acids with chain lengths from C13 to C16, especially myristic acid (C14). Other inducers are myristoyl and palmitoyl lysolecithins, myristic acid methyl ester, and two cationic detergents with a tetradecenyl chain. We propose that the lipids with a C14-C16 alkyl chain affect differentiation by recognition specific receptors through their alkyl chains and that the effects obtained depend on the head groups. These lipids may be physiological regulators in the mammary gland.
Phospholipase D Is Essential for Keratocyte-like Migration of NBT-II Cells (2008)

NBT-II cells on collagen-coated substrates move rapidly and persistently, maintaining a semi-circular shape with a large lamellipodium, in a manner similar to fish keratocytes. The inhibitor of phospholipase D (PLD), n-butanol, completely blocked the migration and disturbed the characteristic localization of actin along the edge of lamellipodia. To investigate the functional difference between the two isozymes of PLD (PLD1 and PLD2), we transfected NBT-II cells with vectors expressing shRNA to deplete PLD1 or PLD2. Depletion of both PLD1 and 2 by RNA interference reduced the velocity of the migration, but depletion of PLD2 inhibited motility more severely than that of PLD1. Furthermore, GFP-PLD2 was localized to the protruding regions of lamellipodia in migrating cells. Thus, PLD is essential for the maintenance of keratocyte-like locomotion of NBT-II cells, presumably by regulating the actin cytoskeleton.
Non-planar calibration phantoms for optical coherence tomography (2018)

Optical coherence tomography (OCT) is increasingly used in areas such as ophthalmology and contact lens metrology. However, in such cases, image distortion can occur due to the non-planar nature of the measured sample. Postprocessing algorithms can be implemented to correct this distortion. Here we present an OCT phantom designed to confirm the validity of post-processing algorithms used for measuring curved surfaces. A multi-purpose OCT phantom has been created within a fused silica plano-convex lens using the direct femtosecond laser writing technique. This phantom can be used to calibrate and quantitatively assess the performance (e.g. resolution, sensitivity and distortion) of OCT systems and associated post-processing algorithms for curved structures such as lenses. This novel OCT phantom has been characterized using an optical microscope and OCT systems.
Nanostructured ZnFe2O4 as Anode Material for Lithium-Ion Batteries: Ionic Liquid-Assisted Synthesis and Performance Evaluation with Special Emphasis on Comparative Metal Dissolution (2016)

In this work, a ZnFe2O4 anode material was successfully synthesized by a novel ionic liquid-assisted synthesis method followed by a carbon coating procedure. The as-prepared ZnFe2O4 particles demonstrate a relatively homogeneous particle size distribution with particle diameters ranging from 40 to 80 nm. This material, which is well known to offer an interesting combination of an alloying and conversion mechanism, is capable of accommodating nine equivalents of lithium per unit formula, resulting in a high specific capacity (≥ 1,000 mAh g-1). The resulting composite anode material displayed a stable capacity of ca. 1,091 mAh g-1 for 190 cycles at a medium de-lithiation potential of 1.7 V and at a charge/discharge rate of 1C. Furthermore, the material displays an excellent high rate capability up to 20C, displaying a reversible capacity of still 216 mAh g-1. Studies on Fe and Zn losses of the ZnFe2O4 active material by dissolution in the electrolyte were performed and compared to those of silicon-, germanium- and tin-based high-capacity anode materials. In conclusion, ion dissolution from metal containing anode materials should not be underestimated in view of its impact on the overall cell performance and cycling stability.
The Mechanisms and Prognostic Significance of Seminal Vesicle Involvement by Prostate Cancer (1993)

To assess the mechanisms and prognostic significance of seminal vesicle involvement (SVI) by prostatic adenocarcinoma, we analyzed 312 radical prostatectomy specimens obtained from patients with T1-T3 prostate cancer. Detailed pathological examination demonstrated three patterns of SVI. Type I involvement was direct spread along the ejaculatory duct complex into the seminal vesicles. Type II involvement was spread outside of the prostate, through the capsule, and then into the seminal vesicle. Type III involvement was characterized by the finding of isolated deposits of cancer in the seminal vesicle with no contiguous primary cancer in the prostate. We found SVI in 64 patients (21%), who have been followed for a mean of 31 months (range 1-101). A defining criterion for progression was clinically apparent local or distant recurrence or a postoperative serum prostate specific antigen (PSA) > or = 0.4 ng/ml (Hybritech). Type I SVI was found in 17 (26%), Type II in 21 (33%), and Type III in 8 (13%) cases. In 18 patients (28%), the pattern of SVI appeared to be a combination of types I and II (categorized as Type I+II). Type III (isolated metastasis) SVI was associated with significantly smaller cancers (median, 3.13 vs. 6.7 cc; p < 0.0005) and fewer positive margins (0 vs. 32%; p = 0.05) than in other types. Type II SVI, with direct extension through the capsule, was associated with a significantly higher risk of lymph node metastasis (8 vs. 33%; p < 0.05). When patients with lymph node metastases were excluded, there was a trend toward a more favorable prognosis (p = 0.09) for patients with type III SVI than with other types. Overall, patients with type III SVI had a progression-free survival rate similar to that of 83 patients with extracapsular extension without SVI. We conclude that the prognostic significance of SVI may not be uniformly ominous; instead, it may depend on the specific mechanism of involvement and the pathologic features of the primary tumor.
Permafrost Weakening as a Potential Impact of Climatic Warming (2010)

The warming weakening of permafrost strength as a result of different scenarios of climatic warming ranging from 0 to 5°C over the next century has been predicted using a one-dimensional geothermal model. These predictions are based on the results of an intensive geotechnical program carried out in a warm ice-rich silty permafrost in Northern Quebec. The dependency of permafrost strength on temperature was assessed from cone penetration tests performed at regular intervals over a 2-month period during the seasonal warming of the upper permafrost layer in spring 2000. A thermomechanical subroutine taking into account this dependency has been then added to the one-dimensional geothermal model for the simulation of the weakening of permafrost strength as it warms. A warming rate of 0.02°C/year over the next century leads on a slow decrease in permafrost strength corresponding to a relative loss of strength of about 50%. For a warming rate of 0.05°C/year, the strength weakening is much more pronounced and almost reaches the unfrozen state at the end of the warming period corresponding to a relative loss of 98%.
Probing conformational dynamics in single donor-acceptor synthetic molecules by means of photoinduced reversible electron transfer (2004)

We use single-molecule fluorescence lifetimes to probe dynamics of photoinduced reversible electron transfer occurring between triphenylamine (donor) and perylenediimide (acceptor) in single molecules of a polyphenylenic rigid dendrimer embedded in polystyrene. Here, reversible electron transfer in individual donor-acceptor molecules results in delayed fluorescence that is emitted with a high photon count rate. By monitoring fluorescence decay times on a photon-by-photon basis, we find fluctuations in both forward and reverse electron transfer spanning a broad time range, from milliseconds to seconds. Fluctuations are induced by conformational changes in the dendrimer structure as well by polystyrene chain reorientation. The conformational changes are related to changes in the dihedral angle of adjacent phenyl rings located in the dendritic branch near the donor transferring the charge, a torsional motion that results in millisecond fluctuations in the "through-bond" donor-acceptor electronic coupling. Polymer chain reorientation leads to changes in the local polarity experienced by the donors and to changes in the solvation of the charge-separated state. As a result, switching between different donor moieties within the same single molecule becomes possible and induces fluctuations in decay time on a time scale of seconds.
LP27: INTRAOPERATIVE DECISION-MAKING IN AUTOLOGOUS BREAST RECONSTRUCTION: EVALUATION OF ZONAL PERFUSION IN DIEP AND MSTRAM FLAPS USING ACOMBINED LASER DOPPLER SPECTROPHOTOMETRY SYSTEM (2010)

Plastic and Reconstructive Surgery: August 2010 - Volume 126 - Issue 2 - p 723 doi: 10.1097/01.prs.0000387222.68400.be
N,N'-dibromo-5,5-dimethylhydantoin and N-bromosuccinimide, chemical sources of singlet molecular oxygen: Observation of singlet oxygen with ultra-sensitive near-infrared chemiluminescence spectroscopy. (1990)

N, N'-Dibromo-5, 5-dimethylhydantoin and N-bromosuccinimide were found to be versatile and commercially available synthetic reagents for generating singlet molecular oxygen in organic solvents under mild conditions. Detection was by an ultra-sensitive near-IR chemiluminescence spectrometer designed and constructed in our laboratory.
Increased long-term mortality in women with high left ventricular ejection fraction: data from the CONFIRM (COronary CT Angiography EvaluatioN For Clinical Outcomes: An InteRnational Multicenter) long-term registry (2019)

https://clinicaltrials.gov/ct2/show/NCT01443637.
Aviscumine, a recombinant ribosomal inhibitor, increases the antitumor activity of natural killer cells (2017)

Aviscumine, a recombinant lectin I, has been identified as an immunomodulatory agent within a new class of ribotoxic stress-inducing anticancer substances that have demonstrated efficacy in phase I/II trials. The aim of the present study was to elucidate the presumed effect of aviscumine on enhancing human natural killer (NK) cell antitumor cytotoxicity. To measure the effect of aviscumine on human NK cell cytotoxicity, chromium-51-release assays against K-562 cells were performed with isolated NK cells from the whole blood of 34 healthy volunteers. Two effector-to-target cell ratios (12.5:1 and 25:1) were used by two independent investigators with a focus on the concentration-dependent effect (0.5 vs. 1 ng/ml aviscumine), reproducibility (first vs. second investigator) and the specificity of the effect by comparison to a heat-inactivated aliquot and interleukin 2 (IL-2) stimulation (10 ng/ml). The mediation of the effect via degranulation was demonstrated by flow cytometric analyses of CD107α expression. Statistics were performed with SPSS using Student's t-tests for normally distributed data. Aviscumine induced a significant and reproducible, concentration-dependent increase in NK cell cytotoxicity (n=22; P<0.01 for both concentrations and ratios), which was also demonstrated when administered in combination with IL-2 (n=12; 12.5:1 ratio, P<0.001; 25:1 ratio, P=0.025) and when compared with the heat-inactivated aliquots (n=12; 12.5:1, P=0.004; 25:1 ratio, P=0.007). The mediation of its effect via interferon γ degranulation was demonstrated by significantly enhanced CD107α expression (n=7; P=0.005). Taken together, the results indicate that aviscumine induced an increase in NK cell anticancer cytotoxicity. These results highlight its clinical potential as an immunostimulatory agent, particularly with regard to combined use with chemotherapeutics or immune checkpoint inhibitors. However, further studies are required.
Difference Limen for the Intensity of a Vowel Sound (1955)

An exploratory experiment to determine just discriminable differences in the intensity of a synthetic vowel sound is described. Results of AB listening tests performed with intra-sample time spacings of 0.5, 1.0, and 1.5 seconds are given. The median value of the DL for vowel intensity obtained from the tests is 1.5 db, and the DL is never less than 1.2 db. Tentative data on the time error for a vowel sound are noted and compared to similar data for pure tones.
Isolation of viable human muscle spindles for electron microscopic and physiologic study (1974)

Abstract Human muscle spindles are isolated from muscle biopsies of Extensor Indicis. A spindle rich portion of muscle is removed, placed into a modified Kreb's solution and microdissected for spindles. Intramuscular nerves and blood vessels provide helpful locating guides. Spindles can be dissected free of extrafusal muscle with an adequate length of nerve for in vitro recording. Another portion of muscle is stretched and placed into a 5% glutaraldehyde fixative in 0.1 M cacodylate buffer. Spindles are dissected free, postfixed, dehydrated, stained, and then studied with the light microscope while in liquid Epon. The equatorial regions are identified, then removed and embedded for examination using the electron microscope. This is the first successful total isolation of viable human spindles. The combined procedures allow correlation of recordings from the primary sensory endings with the fine structure of spindles from normal persons and from patients with neuromuscular disorders.
Sensitivity and specificity of 3-D texture analysis of lung parenchyma is better than 2-D for discrimination of lung pathology in stage 0 COPD (2005)

Lung parenchyma evaluation via multidetector-row CT (MDCT), has significantly altered clinical practice in the early detection of lung disease. Our goal is to enhance our texture-based tissue classification ability to differentiate early pathologic processes by extending our 2-D Adaptive Multiple Feature Method (AMFM) to 3-D AMFM. We performed MDCT on 34 human volunteers in five categories: emphysema in severe Chronic Obstructive Pulmonary Disease (COPD) as EC, emphysema in mild COPD (MC), normal appearing lung in COPD (NC), non-smokers with normal lung function (NN), smokers with normal function (NS). We volumetrically excluded the airway and vessel regions, calculated 24 volumetric texture features for each Volume of Interest (VOI); and used Bayesian rules for discrimination. Leave-one-out and half-half methods were used for testing. Sensitivity, specificity and accuracy were calculated. The accuracy of the leave-one-out method for the four-class classification in the form of 3-D/2-D is: EC: 84.9%/70.7%, MC: 89.8%/82.7%; NC: 87.5.0%/49.6%; NN: 100.0%/60.0%. The accuracy of the leave-one-out method for the two-class classification in the form of 3-D/2-D is: NN: 99.3%/71.6%; NS: 99.7%/74.5%. We conclude that 3-D AMFM analysis of the lung parenchyma improves discrimination compared to 2-D analysis of the same images.
Locating and monitoring emergency responder using a wearable device (2012)

When a disaster occurs, activities like search, rescue, recovery, and cleanup are carried out by emergency responders. This paper proposes a new framework for supporting the safety and health of emergency responders by locating their position and monitoring their vital signs using a Wireless Wearable Device. As an initial step towards the development of a wireless wearable tracking and monitoring system for emergency responders, this system uses an iterative localization based scheme, which provides the exact position of each emergency responder, and monitors their vital signs like skin temperature and pulse rate. Any change in the vital signs can be easily sensed and tracked, and could be used to provide warnings when critical events are detected. The system could be used to send early warning alerts and for communication between emergency responders.
Vascular Endothelial Growth Factor Secretion by Nonmyocytes Modulates Connexin-43 Levels in Cardiac Organoids (2012)

We previously showed that the sequential, but not simultaneous, culture of endothelial cells (ECs), fibroblasts (FBs), and cardiomyocytes (CMs) resulted in elongated, beating cardiac organoids. We hypothesized that the expression of Cx43 and contractile function are mediated by vascular endothelial growth factor (VEGF) released by nonmyocytes during the preculture period. Cardiac organoids (~200 μm diameter) were cultivated in microchannels to enable rapid screening. Three experimental groups were formed: (i) Simultaneous Preculture (ECs+FBs for 48 h, followed by CMs), (ii) Sequential Preculture (ECs for 24 h, FBs for 24 h, followed by CMs), and (iii) Simultaneous Triculture (ECs+FBs+CMs). Controls included CMs only, FBs only, and ECs only groups, and preculture with ECs only or FBs only. The highest VEGF levels were found in the Preculture groups [Simultaneous Preculture, 8.9±2.7 ng/(mL·h(-1)); Sequential Preculture, 16.6±3.4 ng/(mL·h(-1))], as compared with Simultaneous Triculture where VEGF was not detectable, as shown by enzyme-linked immunosorbent assay. Analytical flow cytometry showed that VEGFR2 was expressed by ECs (86%±2 VEGFR2+), FBs (44%±1 VEGFR2+), and CMs (49%±2 VEGFR2+), showing that all three cell types were capable of responding to changes in VEGF. Addition of anti-VEGF neutralizing IgG (0.4 μg/mL) to Simultaneous Preculture resulted in 3-fold decrease in Cx43 mRNA and 1.5-fold decrease in Cx43 protein, while Simultaneous Triculture supplemented with VEGF ligand (30 ng/mL) had a threefold increase in Cx43 mRNA and a twofold increase in Cx43 protein. Addition of a small molecule inhibitor of the VEGFR2 receptor (19.4 nM) to Sequential Preculture caused a 1.4-fold decrease in Cx43 mRNA and a 4.1-fold decrease in Cx43 protein. Cx43 was localized within CMs, and not within FBs or ECs. Enriched CM organoids and Sequential Preculture organoids grown in the presence of VEGFR2 inhibitor displayed low levels of Cx43 and poor functional properties. Taken together, these results suggest that endogenous VEGF-VEGFR2 signaling enhanced Cx43 expression and cardiac function in engineered cardiac organoids.
On the detection of solid deposits using gamma ray emission tomography with limited data (2004)

Identifying the location of deposits of gamma emitting materials within storage vessels is of interest in the nuclear industry. A model example is presented involving an idealized cone-shaped deposit of gamma emitting material contained within a vessel. The purpose of this study is to determine whether useful information regarding the gamma emitting deposit can be obtained from a dataset of very limited size and quality. The inverse problem of determining the size and location of the deposit from a very limited number of measurements taken outside the tank is not a straightforward matter. Failure of a Gauss–Newton implementation of the regularized least squares method has led the authors to consider a Markov chain Monte Carlo approach, which gives improved robustness and a credibility region for the estimates that quantifies the reliability of the tomographic reconstruction.
New THZ excitation of planar Goubau line (2008)

Abstract Quite recently, it has been found that conducting wires lying on a flat dielectric substrate can propagate Terahertz (THz) waves in the same way as conducting wires entirely coated with a dielectric (Goubau line). This phenomenon is interesting because it is a basic requirement to fabricate integrated circuits at THz frequencies. The excitation of planar Goubau line (PGL) waves was found to have a very strong Goubau mode on conducting wire. The excitation was made with a coplanar waveguide transition fed with a THz signal obtained from a vector network analyzer. The Goubau mode on PGL was excited with high efficiency (up to 75%.). This is a first step in the design of THz BioMEMS dedicated to living cell investigations. © 2008 Wiley Periodicals, Inc. Microwave Opt Technol Lett 50: 2998–3001, 2008; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.23850