gebhart/patrepeval huggingface dataset:
Failure of peritoneal irrigation with heparin during pelvic operations upon young women to reduce adhesions. (1988)

Prevention of intraperitoneal fibrin formation has attracted attention in attempting to limit development of peritoneal adhesions. Operations on the pelvis for infertility were performed upon 92 patients, in all of whom the exposed peritoneal serosa was irrigated throughout with warm isotonic Ringer's lactate solution. In 44 randomly assigned patients, heparin 5,000 International units per liter was added to the irrigating solution. Forty-eight patients received no heparin. Laparoscopy was carried out in all patients within 12 days of operation in order to diagnose and treat pelvic adhesions. Analysis of adhesion improvement scores in relation to initial adhesion scores showed that no significant benefit was obtained from the use of heparin. The probability that an important beneficial effect of heparin was missed in the study was slight (p less than 0.03, 1-tailed). It is concluded that the use of heparin to irrigate the peritoneal serosa during elective operations upon the pelvis has no important action in reducing the development of peritoneal adhesions.
The Antitumor Activity of Meisoindigo against Human Colorectal Cancer HT-29 Cells<i>In Vitro</i>and<i>In Vivo</i> (2008)

The study was conducted to examine the antitumor activity of meisoindigo on HT-29 cells in vitro and in vivo. The cytotoxicity of meisoindigo was evaluated by MTT assay. The related genes and proteins were inspected with RT-PCR and western blot assay respectively, and the effects of meisoindigo on the cell cycle were analyzed by flow cytometry. The efficacy of meisoindigo in vivo was evaluated in an HT-29 cell xenograft nude mice model. The results show that meisoindigo effectively inhibits HT-29 cell proliferation (IC(50) 4.3 mmol/L), arrests HT-29 cells in G2/ M phase and induces HT-29 cell apoptosis. The downstream genes and proteins of GSK-3beta(ser(9)) expression level decrease. Meisoindigo significantly inhibits the HT-29 xenograft tumors growth at the dose of 100 mg/kg. The mechanism of meisoindigo activity against HT-29 cells may be related to its inhibition of glycogen synthase kinase-3beta, GSK-3beta(ser(9)) phosphorylation in Wnt signaling pathway. These findings indicate the potential value of meisoindigo for the treatment of colorectal cancer.
The Effects of Seaweed Secondary Metabolites on Biofouling (2002)

Antifouling activity is one poorly investigated property of seaweed natural products. To determine, in the field, whether seaweeds contain chemicals able to influence the settlement of fouling organisms, crude organic extracts from Stypopodium zonale, Dictyota menstrualis (Phaeophyceae) and Laurencia obtusa (Rhodophyceae) were incorporated at natural volumetric concentrations, into hard stable gels that served as substrata for fouling in the experiments. Fouling organisms settled at a significantly higher rate on plates treated with S. zonale extracts than on control gels, while settlement was strongly inhibited on gels containing L. obtusa extracts. Fouling on gels treated with the D. menstrualis extract was not significantly different from the fouling found on control gels. The findings suggest that the broad antifouling properties of the crude extract of L. obtusa inhibit the settlement of fouling as well as hinder the development of settled fouling species, thereby reducing the richness of species. The results imply that L. obtusa possibly harbours powerful agents that can be explored for the development of antifouling technology.
Thrombin and Phenotypic Modulation of the Endothelium (2003)

Thrombin signaling in the endothelium is linked to multiple phenotypic changes, including alterations in permeability, vasomotor tone, and leukocyte trafficking. The thrombin signal is transduced, at least in part, at the level of gene transcription. In this review, we focus on the role of thrombin signaling and transcriptional networks in mediating downstream gene expression and endothelial phenotype. In addition, we report the results of DNA microarrays in control and thrombin-treated endothelial cells. We conclude that (1) thrombin induces the upregulation and downregulation of multiple genes in the endothelium, (2) thrombin-mediated gene expression involves a multitude of transcription factors, and (3) future breakthroughs in the field will depend on a better understanding of the spatial and temporal dynamics of these transcriptional networks.
Surface Proteins and Exotoxins Are Required for the Pathogenesis of<i>Staphylococcus aureus</i>Pneumonia (2006)

A model of Staphylococcus aureus-induced pneumonia in adult, immunocompetent C57BL/6J mice is described. This model closely mimics the clinical and pathological features of pneumonia in human patients. Using this system, we defined a role for S. aureus strain Newman surface proteins and secreted exotoxins in pneumonia-related mortality.
Acetyl zingerone: An efficacious multifunctional ingredient for continued protection against ongoing DNA damage in melanocytes after sun exposure ends (2019)

These results designate AZ as a new type of multifunctional ingredient with strong potential to extend photoprotection of traditional sunscreens and daily skincare products over the first few hours after sun exposure ends.
Feasibility Study of Deep Neural Network for Heart Rate Estimation from Wearable Photoplethysmography and Acceleration Signals (2019)

Heart rate (HR) estimation using wearable reflectance-type photoplethysmographic (PPG) signals is challenging due to low signal-to-noise ratio (SNR). Especially during intensive exercise, motion artifacts (MAs) overwhelm PPG signals in an unpredictable way. To overcome the issue, an acceleration signal as a reference signal has been adopted by simultaneously measuring with PPG signal. However, MAs are frequently uncorrelated with accelerometer signals under various activities. In this paper, we present a learning-based framework for HR estimation. The proposed framework is based on the deep neural network (DNN). For the feasibility study, we presented a simple network with two fully connected layers. We first extracted power spectra from the measured PPG signal and the acceleration signal. The two power spectra were then used for the input layer in the network. In addition, to inform the PPG signal quality, we added the acceleration signal intensity for the input layer. The proposed simple DNN network was trained for 10 epochs in IEEE Signal Processing Cup 2015 (ISPC) dataset (n=23). Subsequently, the trained network provided low mean absolute error (MAE) of 2.31 bpm in the ISPC dataset. We further tested the network on the new BAMI dataset (n=5), and found that it provided 4.72 bpm of MAE. On the other hand, the MAE without the learning frame was 15.73 bpm. In this study, we found that the simple DNN technique is effective. More training issues were also discussed.
Using elastic nets for correspondence in range data (2002)

The process of establishing correspondence between feature points is an integral part of dynamic image analysis. A robust new method to obtain correspondences between range data across image frames is presented. The method is based on the concept of elastic nets. Elastic nets are used to cast correspondence as an optimization problem. This formulation is then used to obtain approximations to the motion parameters under the assumption of rigidity. These parameters can be used to recover correspondence. Experimental results on synthesized data are presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Changing the substrate specificity of a chitooligosaccharide oxidase from <i>Fusarium graminearum</i> by model‐inspired site‐directed mutagenesis (2007)

Chitooligosaccharide oxidase (ChitO) catalyzes the oxidation of C1 hydroxyl moieties on chitooligosaccharides and in this way displays a different substrate preference as compared to other known oligosaccharide oxidases. ChitO was identified in the genome of Fusarium graminearum and a structural model revealed that one active site residue (Q268) was likely to be involved in the recognition of the N-acetyl moiety on the chitooligosaccharide substrates. The substrate specificity of wild type ChitO and the Q268R mutant were examined and confirmed that Q268 is indeed involved in N-acetyl recognition.
Bruker Biotyper Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry System for Identification of Nocardia, Rhodococcus, Kocuria, Gordonia, Tsukamurella, and Listeria Species (2014)

We evaluated whether the Bruker Biotyper matrix-associated laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) system provides accurate species-level identifications of 147 isolates of aerobically growing Gram-positive rods (GPRs). The bacterial isolates included Nocardia (n = 74), Listeria (n = 39), Kocuria (n = 15), Rhodococcus (n = 10), Gordonia (n = 7), and Tsukamurella (n = 2) species, which had all been identified by conventional methods, molecular methods, or both. In total, 89.7% of Listeria monocytogenes, 80% of Rhodococcus species, 26.7% of Kocuria species, and 14.9% of Nocardia species (n = 11, all N. nova and N. otitidiscaviarum) were correctly identified to the species level (score values, ≥ 2.0). A clustering analysis of spectra generated by the Bruker Biotyper identified six clusters of Nocardia species, i.e., cluster 1 (N. cyriacigeorgica), cluster 2 (N. brasiliensis), cluster 3 (N. farcinica), cluster 4 (N. puris), cluster 5 (N. asiatica), and cluster 6 (N. beijingensis), based on the six peaks generated by ClinProTools with the genetic algorithm, i.e., m/z 2,774.477 (cluster 1), m/z 5,389.792 (cluster 2), m/z 6,505.720 (cluster 3), m/z 5,428.795 (cluster 4), m/z 6,525.326 (cluster 5), and m/z 16,085.216 (cluster 6). Two clusters of L. monocytogenes spectra were also found according to the five peaks, i.e., m/z 5,594.85, m/z 6,184.39, and m/z 11,187.31, for cluster 1 (serotype 1/2a) and m/z 5,601.21 and m/z 11,199.33 for cluster 2 (serotypes 1/2b and 4b). The Bruker Biotyper system was unable to accurately identify Nocardia (except for N. nova and N. otitidiscaviarum), Tsukamurella, or Gordonia species. Continuous expansion of the MALDI-TOF MS databases to include more GPRs is necessary.
Grape seed extract reduces oxidative stress and fibrosis in experimental biliary obstruction (2007)

These results suggest that GSE protects the liver from oxidative damage following bile duct ligation in rats. This effect possibly involves the inhibition of neutrophil infiltration and lipid peroxidation; thus, restoration of oxidant and antioxidant status in the tissue.
Culture and identification of a “Deltamicron” SARS-CoV-2 in a three cases cluster in southern France (2022)

ABSTRACT Multiple SARS-CoV-2 variants have successively, or concommitantly spread worldwide since summer 2020. A few co-infections with different variants were reported and genetic recombinations, common among coronaviruses, were reported or suspected based on co-detection of signature mutations of different variants in a given genome. Here we report three infections in southern France with a Delta 21J/AY.4-Omicron 21K/BA.1 “Deltamicron” recombinant. The hybrid genome harbors signature mutations of the two lineages, supported by a mean sequencing depth of 1,163-1,421 reads and mean nucleotide diversity of 0.1-0.6%. It is composed of the near full-length spike gene (from codons 156-179) of an Omicron 21K/BA.1 variant in a Delta 21J/AY.4 lineage backbone. Importantly, we cultured an isolate of this recombinant and sequenced its genome. It was observed by scanning electron microscopy. As it is misidentified with current variant screening qPCR, we designed and implemented for routine diagnosis a specific duplex qPCR. Finally, structural analysis of the recombinant spike suggested its hybrid content could optimize viral binding to the host cell membrane. These findings prompt further studies of the virological, epidemiological, and clinical features of this recombinant.
Chromatin proteomic profiling reveals novel proteins associated with histone-marked genomic regions (2015)

More than a thousand proteins are thought to contribute to mammalian chromatin and its regulation, but our understanding of the genomic occupancy and function of most of these proteins is limited. Here we describe an approach, which we call "chromatin proteomic profiling," to identify proteins associated with genomic regions marked by specifically modified histones. We used ChIP-MS to identify proteins associated with genomic regions marked by histones modified at specific lysine residues, including H3K27ac, H3K4me3, H3K79me2, H3K36me3, H3K9me3, and H4K20me3, in ES cells. We identified 332 known and 114 novel proteins associated with these histone-marked genomic segments. Many of the novel candidates have been implicated in various diseases, and their chromatin association may provide clues to disease mechanisms. More than 100 histone modifications have been described, so similar chromatin proteomic profiling studies should prove to be valuable for identifying many additional chromatin-associated proteins in a broad spectrum of cell types.
The development of an intelligent aid for blind and old people (2013)

Vision is the most important part of human life as most of the information human being gets is via sight from the environment. Designing devices for the blind is more difficult than many researchers and inventors expect. It is thus important to learn from past research and development in this field for the blind and old age people to fully understand their needs and requirements before creating any aid for them. The aim of this paper is to develop the intelligent aid to help and to make them feel independent and to walk more confidently. It works by giving users adequate warning of obstacles ahead of them in their path and at head height.
Isolation of a melanolytic fungus and its hydrolytic activity on melanin (1995)

In our screening program for microorganisms capable of producing hydrolytic activity on melanin, a fungal strain has been isolated from a soil sample and morphologically identified as an Acrostaphylus sp. designated as strain NDMC-101. Its production of the melanolytic activity is remarkably affected by the divalent cations. Among the divalent cations tested, magnesium exhibits the most positive effect on the production of the melanolytic activity at its optimal concentration (13 mM) in submerged liquid culture and on agar. Furthermore, this fungal strain can utilize melanin as a nitrogen source for supporting its growth.
Mercury-Based Cuprate High-Transition Temperature Grain-Boundary Junctions and SQUIDs Operating Above 110 Kelvin (1994)

The superconducting transport characteristics of HgBa(2) CaCu(2)O(6+delta) (Hg-1212) films and grain-boundary junctions grown on (100)-oriented SrTiO(3) bicrystal substrates have been investigated. The films exhibit a zero-resistance temperature of approximately 120 kelvin and sustain large critical current densities, with values as high as 10(6) amperes per square centimeter at around 100 kelvin. On the other hand, the grain boundaries behave as weak links, with substantially lower critical currents, as is observed for other cuprate superconductors. A reduction of three orders of magnitude in critical current was observed for transport across a 36.8 degrees grain boundary. The current-voltage characteristics of bridges across such a grain boundary show weak-link behavior qualitatively resembling that of a resistively shunted junction. Single-level direct-current superconducting quantum interference devices (SQUIDs) have been fabricated with such bicrystal junctions. These SQUIDs show clear periodic voltage modulations when subjected to applied magnetic fields. The SQUIDs operate at temperatures as high as 111.8 kelvin, which makes them attractive for operation in portable sensors and devices that utilize nonconventional cooling methods.
Seeing Black and White (2006)

1. Introduction 2. The Classic Period 3. The Katz Period 4. The Gestalt Period 5. The Contrast Period 6. The Computational Period 7. Computational Models 8. Illumination Perception 9. The Anchoring Problem 10. Errors in Lightness 11. An Anchoring Model of Errors 12. Theories of Lightness 13. Concluding Thoughts Glossary Bibliography
Identification and characterization of a novel linkage isomerization in the reaction of trans-diamminedichloroplatinum(II) with 5'-d(TCTACGCGTTCT) (1990)

The oligonucleotide 5'-d(TCTACGCGTTCT) reacts with trans-diamminedichloroplatinum(II) to yield primarily trans-[Pt(NH3)2[d(TCTACGCGTTCT)-N7-G(6),N7-G(8)]], containing the desired trans-[Pt(NH3)2[d(GCG)]] 1,3-cross-link. A key element of the platination reaction is the use of low pH to suppress coordination at A(4). The product was fully characterized by pH-dependent NMR titrations, enzymatic degradation analysis, and 195Pt NMR spectroscopy. Interestingly, the 1,3-cross-linked adduct is unstable at neutral pH, rearranging unexpectedly to form the linkage isomer trans-[Pt(NH3)2[d-(TCTACGCGTTCT)-N3-C(5),N7-G(8)]]. This rearrangement product is more stable than the initially formed isomer and could be characterized by pH-dependent NMR titrations, enzymatic degradation analysis, liquid secondary ion mass spectrometric analysis of an enzymatically digested fragment, 195Pt NMR spectroscopy, and modified Maxam-Gilbert footprinting experiments. By contrast, the 1,3-intrastrand cross-linked isomer rearranges during the course of both pH titration and enzymatic degradation experiments to form the 1,4-adduct. The equilibrium constant for this rearrangement is approximately 3, favoring the 1,4-adduct. Kinetic studies of the linkage isomerization reaction reveal t1/2 values for the first-order disappearance of the 1,3-intrastrand cross-linked isomer ranging from 129 (at 30 degrees C) to 3.6 h (at 62 degrees C), with activation parameters delta H not equal to = 91 +/- 2 kJ/mol and delta S not equal to = -58 +/- 8 J/(mol.K). Mechanistic implications of these kinetic results as well as the general relevance of this linkage isomerization reaction to platinum-DNA chemistry are briefly discussed.
Advanced glycation end products mediated cellular and molecular events in the pathology of diabetic nephropathy (2016)

Diabetic nephropathy (DN) is a major cause of morbidity and mortality in diabetic patients and a leading cause of end-stage renal disease (ESRD). Degenerative changes such as glomerular hypertrophy, hyperfiltration, widening of basement membranes, tubulointerstitial fibrosis, glomerulosclerosis and podocytopathy manifest in various degrees of proteinuria in DN. One of the key mechanisms implicated in the pathogenesis of DN is non-enzymatic glycation (NEG). NEG is the irreversible attachment of reducing sugars onto free amino groups of proteins by a series of events, which include the formation of Schiff's base and an Amadori product to yield advanced glycation end products (AGEs). AGE modification of client proteins from the extracellular matrix induces crosslinking, which is often associated with thickening of the basement membrane. AGEs activate several intracellular signaling cascades upon interaction with receptor for AGEs (RAGE), which manifest in aberrant cellular responses such as inflammation, apoptosis and autophagy, whereas other receptors such as AGE-R1, AGE-R3 and scavenger receptors also bind to AGEs and ensue endocytosis and degradation of AGEs. Elevated levels of both serum and tissue AGEs are associated with adverse renal outcome. Increased evidence supports that attenuation of AGE formation and/or inhibition of RAGE activation manifest(s) in improving renal function. This review provides insights of NEG, discusses the cellular and molecular events triggered by AGEs, which manifest in the pathogenesis of DN including renal fibrosis, podocyte epithelial-mesenchymal transition and activation of renin-angiotensin system. Therapies designed to target AGEs, such as inhibitors of AGEs formation and crosslink breakers, are discussed.
Effect based scene manipulation for multimodal VR systems (2010)

Games use high quality graphics and pre-crafted visual and auditive effects to create user experiences. Virtual environments offer new navigation and interaction methods, immersive installations, and haptic and olfactoric output. We introduce an extension to VR systems, which makes it possible to use a wide range of multimodal effects from gaming and VR to be activated and modified on a per object basis at runtime. To access, manipulate, and add effects to the objects of a scene intuitively, our extension realizes an abstract, hierarchical scene concept using multimodal objects. Multiple effects can be added to each object and the parameters of each effect can be manipulated online. Fading of effects and bundling of multiple effects for multiple objects are more advanced features of the system.
Novel chemical permeation enhancers for transdermal drug delivery (2014)

Transdermal drug delivery has been accepted as a potential non-invasive route of drug administration, with advantages of prolonged therapeutic action, decreased side effect, easy use and better patient compliance. However, development of transdermal products is primarily hindered by the low permeability of the skin. To overcome this barrier effect, numerous new chemicals have been synthesized as potential permeation enhancers for transdermal drug delivery. In this review, we presented an overview of the investigations in this field, and further implications on selection or design of suitable permeation enhancers for transdermal drug delivery were also discussed.
3D motion and scene structure estimation with motion dependent distortion of measurement windows (2002)

We present a two stage technique for estimation of rigid body motion and scene structure from monocular image sequences. The robustness of motion recovery is considerably increased by motion dependent distortion of rectangular measurement windows. In the first stage, we estimate a set of candidate motion parameter sets from which the optimum is determined in a second step evaluating motion based image content deformation together with corresponding depth values. Experimental results show that the motion parameter estimation error can be reduced significantly.
Scan–rescan reproducibility of parallel transmission based amide proton transfer imaging of brain tumors (2015)

Parallel transmission-based APT imaging of brain tumors showed good reproducibility.
Integration of a 3 level Cu-SiO/sub 2/ air gap interconnect for sub 0.1 micron CMOS technologies (2001)

Integration of three level of SiO/sub 2/ air gap has been successfully achieved in a complete CMOS copper interconnect scheme. SiO/sub 2/ air gap is demonstrated to be a reliable ultra low k for sub 0.1 /spl mu/m technologies with a well controlled dielectric constant below 2.
Security enhancement for Optimal Strong-Password Authentication protocol (2003)

In 2001, Lin et al. proposed an optimal strong-password authentication protocol called the OSAP protocol. However, Chen and Ku pointed out that it is vulnerable to the stolen-verifier attack. In this paper, we shall propose an improved version of the OSAP protocol to enhance the security.