gebhart/patrepeval huggingface dataset:
Physicochemical Characterization and Toxicity of Decursin and Their Derivatives from <i>Angelica gigas</i> (2012)

Angelica gigas NAKAI is used to treat dysmenorrhea, amenorrhea, menopause, abdominal pain, injuries, migraine, and arthritis. The present study provided a physicochemical and toxicological characterization of compounds in A. gigas NAKAI (decursin, decursinol angelate, diketone decursin, ether decursin, epoxide decursin and oxim decursin). Diketone decursin (173.16 μg/mL) and epoxide decursin (122.12 μg/mL) exhibited >100 μg/mL kinetic solubility after applying nephelometry, suggesting a highly soluble compound. The Student’s t-test revealed significant differences in the pKa ranges of the compounds by automatic titration from capillary electrophoresis (p<0.05). Diketone decursin, epoxide decursin and oxim decursin might be formulated into an oral dosage form (log P: 0-3) by an automatic titration analysis. A parallel artificial membrane permeability assay demonstrated permeability coefficients of <10 x 10⁻⁶ cm/s for all of the compounds, suggesting poor permeability. Ether decursin exhibited a toxic effect after being applied to mouse (NIH 3T3, EC₅₀: 57.9 μM) and human (HT-29, EC₅₀: 36.1 μM; Hep-G2, EC₅₀: 4.92 μM) cells. Additionally, epoxide and oxim decursin were toxic through acute oral toxicity (four and three deaths of Institute of Cancer Research (ICR) mice) and mutation toxicity testing by applying Salmonella typhimurium cells with and without S9. Although diketone decursin exhibited less permeability, it is potentially valuable pharmacological compound that should be investigated.
Abstract 4774: Identification and characterization of colon cancer associated antigens which would be key therapeutic targets in the prevention of disease relapse or progression (2010)

Abstract Introduction: Colon cancer (CRC) is an immunogenic tumor and adaptive immunity may play a role in inhibiting disease relapse. A vaccine which could boost cellular immunity in CRC patients would prevent disease recurrence. However, there have been few defined immunogenic proteins, implicated in driving the malignant phenotype, that have been identified as vaccine candidates. Our group has shown that overexpressed tumor associated proteins, abundant in the cancer state but expressed at basal levels in normal cells, can be immunogenic. We hypothesized that ideal candidate antigens would be ones already validated as prognostic markers in multivariate analysis. Methods: We performed a directed literature review using search words e.g. colon cancer, prognosis, biomarker to identify such proteins in CRC. We selected a panel of eight proteins based on (1) incidence of expression, (2) independent predictor of poor prognosis and (3) early disease recurrence, and (4) known biologic function in CRC pathogenesis. Using our algorithm program we identified peptides predicted to be high affinity binders across multiple HLA DR alleles; characteristics shown to be associated with native epitopes of self tumor antigens. We synthesized the 19 peptides that were predicted to be the highest binders. We evaluated the potential immunogencity of the peptides with 1. IFN-g ELISPOT assays using PBMC's from CRC patients and controls and 2. specific IgG antibody response with ELISA using serum from CRC patients and controls. We quantitated antigen gene expression using qPCR in cell lines representing microsatellite unstable (MSI), chromosome unstable (CIN) CpG island methylator phenotype (CIMP) CRC. Summary: The eight proteins are: CDC25B, COX-2, EBAG9, EGFR, Fascin-1, IGF-1R, PRL-3 and VCP. For all candidate antigens there was a greater IFN-g response in CRC patients than in controls; for three proteins, this difference reached statistical significance (CDC25B p=.013, COX-2 p=.013, PRL-3 p=.018). For ELISA positive response, the cut-off point was set at values of the mean of control serum plus two standard deviations. All six proteins were positive. All seven antigen genes were overexpressed relative to normal colon. Conclusions: 1. biologically relevant CRC associated proteins can be identified that are associated with prognosis and potentially expressed in the majority of colorectal cancers, 2. epitopes predicted to bind multiple DR alleles, derived from candidate antigens, elicit T cell responses that are greater in CRC patients than in normal controls, 3. there was an overexpression of candidate genes across three different CRC phenotypes, and 4. these antigens may represent novel immunologic targets for CRC. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 4774.
Real-time Semi-Global Matching on the CPU (2010)

Among the top-performing stereo algorithms on the Middlebury Stereo Database, Semi-Global Matching (SGM) is commonly regarded as the most efficient algorithm. Consequently, real-time implementations of the algorithm for graphics hardware (GPU) and reconfigurable hardware (FPGA) exist. However, the computation time on general purpose PCs is still more than a second. In this paper, a real-time SGM implementation on a general purpose PC is introduced. Parallelization and image subsampling is used while ensuring the full disparity resolution for small disparities. This approach is especially beneficial for robotic and driver assistance systems. The system is able to compute 640x320 image pairs at more than 14Hz, leaving also computational resources for subsequent processing such as free space computation or object detection. The algorithmic approach is portable to multi-core embedded processors.
ssDNA degradation along capillary electrophoresis process using a Tris buffer (2017)

Tris-Acetate buffer is currently used in the selection and the characterization of ssDNA by capillary electrophoresis (CE). By applying high voltage, the migration of ionic species into the capillary generates a current that induces water electrolysis. This phenomenon is followed by the modification of the pH and the production of Tris derivatives. By injecting ten times by capillary electrophoresis ssDNA (50 nM), the whole oligonucleotide was degraded. In this paper, we will show that the Tris buffer in the running vials is modified along the electrophoretic process by electrochemical reactions. We also observed that the composition of the metal ions changes in the running buffer vials. This phenomenon, never described in CE, is important for fluorescent ssDNA analysis using Tris buffer. The oligonucleotides are degraded by electrochemically synthesized species (present in the running Tris vials) until it disappears, even if the separation buffer in the capillary is clean. To address these issues, we propose to use a sodium phosphate buffer that we demonstrate to be electrochemically inactive.
Kernel-based adaptive image sampling (2015)

This paper presents an adaptive progressive image acquisition algorithm based on the concept of kernel construction. The algorithm takes the conventional route of blind progressive sampling to sample and reconstruct the ground truth image in an iterative manner. During each iteration, an equivalent kernel is built for each unsampled pixel to capture the spatial structure of its local neighborhood. The kernel is normalized by the estimated sample strength in the local area and used as the projection of the influence of this unsampled pixel to the consequent sampling procedure. The sampling priority of a candidate unsampled pixel is the sum of such projections from other unsampled pixels in the local area. Pixel locations with the highest priority are sampled in the next iteration. The algorithm does not require to pre-process or compress the ground truth image and therefore can be used in various situations where such procedure is not possible. The experiments show that the proposed algorithm is able to capture the local structure of images to achieve a better reconstruction quality than that of the existing methods.
A new serrated snare for improved tissue capture during endoscopic snare resection (2010)

Endoscopic snare resection of gastrointestinal polyps and neoplasm is a standard procedure in interventional endoscopy. Due to technical and procedural improvements the removal of large sessile polyps can be achieved by endoscopic mucosal resection either in one single specimen or by piecemeal resection. In this experimental study a new snare with special teeth attached to the distal part of the wire loop was evaluated and compared to a conventional snare. Seventy artificial sessile tumors were created in a standardized manner in a porcine ex vivo colon. Thirty-five polyps were resected with the new serrated snare, whilst the other 35 polyps were removed using an identical snare without teeth. The weight measurement of the resected polyps showed that when using the new serrated snare 31% more tissue could be removed with a single snare resection in comparison with the conventional snare without teeth (mean 454 mg vs. 347 mg, +/-202 mg vs. +/-165 mg). The teeth obviously increased the effectiveness of snare resection by avoiding the accidental loss of entrapped tissue from the loop. The new snare hopes to faciliate the removal of flat polyps and to reduce the number of specimens during piecemeal resection to a minimum, allowing a better histopathological assessment.
Fluvoxamine in the treatment of body dysmorphic disorder (dysmorphophobia) (1996)

Fifteen consecutive patients with a DSM-III-R diagnosis of body dysmorphic disorder (BDD) were included in a 10-week open clinical trial of fluvoxamine. Treatment began at 100 mg/day fluvoxamine and was increased to a maximum of 300 mg/day or until intolerable side effects developed or a complete or nearly complete resolution of symptoms occurred. At baseline and at weeks 2, 6 and 10, patients completed the Hopkins Symptoms Check-List (HSCL-90) and a specific rating scale for BDD symptoms (BDDSS), and clinicians completed a Clinical Global Improvement Scale. Twelve of the 15 patients completed the trial. Of the three patients who did not complete the study, one improved moderately during the placebo phase, one showed a marked worsening of the depressive symptoms during the wash-out phase and one showed adverse side effects, such as nausea and diarrhoea, after the first week of treatment and was unable to continue the trial. After 10 weeks, of the 12 remaining patients, 10 were considered to be markedly improved, one minimally improved and one unchanged. Several outcome measures showed a significant improvement from baseline to week 10. Our findings suggest that fluvoxamine may be effective in the treatment of BDD. Double-blind studies will be required to investigate these findings further.
Dietary Supplements Reduce the Cataractogenic Potential of Proton and HZE-Particle Radiation in Mice (2010)

Abstract The present study was undertaken to investigate the ability of dietary supplements to reduce the formation and severity of cataracts in mice irradiated with high-energy protons or iron ions, which are important components of the radiation encountered by astronauts during space travel. The mice were exposed to proton or iron-ion radiation and fed with a control diet or diets supplemented with the soybean-derived protease inhibitor, Bowman-Birk inhibitor (BBI), in the form of BBI Concentrate (BBIC) or an antioxidant formulation [containing l-selenomethionine (SeM), N-acetyl cysteine (NAC), ascorbic acid, co-enzyme Q10, alpha-lipoic acid and vitamin E succinate] both before and after the radiation exposure. At approximately 2 years after the radiation exposure, the animals were killed humanely and lenses were harvested and characterized using an established classification system that assigns discrete scores based on the severity of the lens opacifications. The results showed that exposure to 1 GeV/nucleon proton (3 Gy) or iron-ion (50 cGy) radiation significantly increased the cataract prevalence and severity in CBA/J mice to levels above the baseline levels of age-induced cataract formation in this mouse strain. Treatment with BBIC or the antioxidant formulation significantly reduced the prevalence and severity of the lens opacifications in the mice exposed to iron-ion radiation. Treatment with BBIC or the antioxidant formulation also decreased the severity of the lens opacifications in the mice exposed to proton radiation; however, the decrease did not reach statistical significance. These results indicate that BBIC and the antioxidant formulation evaluated in this study could be useful for protecting astronauts against space radiation-induced cataracts during or after long-term manned space missions.
Capacity analysis of an OFDM-based two-way relaying AF-PNC-PLC systems (2016)

A major challenge for researchers in Smart Grid, is how to supply robust and efficient communication since PLC channel is a fading channel whose characteristics vary considerably over long distances and at high frequencies. To overcome these constraints Cooperative communication and Network coding have been demonstrated to be effective. Consequently in this paper, we consider a two-way relaying network in which orthogonal frequency division multiplexing (OFDM) is employed for the source 1-to-source 2, the source 1-to-relay and the relay-to-source 2 links where the relay node performs Amplify and Forward (AF) protocol. We consider a conventional bi directional relaying schema (AF-PLC) and we compare it to a schema in which we include Physical Network Coding (AF-PNC-PLC) for different number of time slots dedicated to exchange data messages between two source nodes S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> and S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> with the assistance of the relay node R. We also evaluate the channel capacity for OFDM-based two-way relaying AF-PLC and AF-PNC-PLC systems without/with cooperative diversity. Moreover, we provide a solution based on sub-carrier pairing technique to further improve the channel capacity.
Chemoselektive Fluoreszenzstudien am Subtilisin und “Thiosubtilisin” (1985)

Chemoselective Fluorescence Studies with Subtilisin and “Thiosubtilisin” The serine hydroxy group in the active site of subtilisin is selectively “phosphylated” 3) . This is demonstrated using the fluorescent phosphinic fluoride 1 . “Thiosubtilisin” does not react with 1 but with the SH‐selective and fluorescent vinyl sulfone 2 .
<title>X-ray capillary optics: history of development and present status</title> (2000)

History of the x-ray capillary optics is considered. A brief review of the present status of works in this field is presented.
Navigation aids and real-time deformation modeling for open liver surgery (2003)

This contribution presents a novel method for image-guided navigation in oncological liver surgery. It enables the perpetuation of the registration for deeply located intrahepatic structures during the resection. For this purpose, navigation aids localizable by an electro-magnetic tracking system are anchored within the liver. Position and orientation data gained from the navigation aids are used to parameterize a real-time deformation model. This approach enables for the first time the real-time monitoring of target structures also in the depth of the intraoperatively deformed liver. The dynamic behavior of the deformation model has been evaluated with a silicon phantom. First experiments have been carried out with pig livers ex vivo.
Anti-liver kidney microsome antibody recognizes a cytochrome P450 from the IID subfamily. (1988)

Children with autoimmune hepatitis have high serum titers of antibodies directed against a 50-kD protein of rat liver endoplasmic reticulum. Affinity-purified anti-50-kD antibodies were used to screen a rat liver cDNA library in lambda GT-11 expression vector. 12 immunopositive clones were obtained. Crossreactivities between fusion proteins of these clones and the 50-kD protein was demonstrated, and four clones were analyzed by restriction mapping, one of them by nucleotide sequencing. Complete identity was found between the restriction maps of two clones (LKMC1 and LKMC2) and that of the 5' end of the rat cytochrome P450 db2. Sequence of a 608-bp fragment of LKMC1 showed complete homology with the rat P450 db2 form. The restriction map of the other two clones (LKMC3 and LKMC4) was identical to that of rat P450 db1. These results suggest that the antigen recognized by LKMA is a P450 of the IID subfamily.
The metabolic responses of human type I and II muscle fibres during maximal treadmill sprinting. (1994)

1. Muscle biopsy samples were obtained from the vastus lateralis of six healthy volunteers before and after 30 s of treadmill sprinting. A portion of each biopsy sample was used for mixed-fibre metabolite analysis. Single fibres were dissected from the remaining portion of each biopsy and were used for ATP, phosphocreatine (PCr) and glycogen determination. 2. Before exercise, PCr and glycogen contents were higher in type II fibres (79.3 +/- 2.7 and 472 +/- 35 mmol (kg dry matter (DM)-1, respectively) compared with type I fibres (71.3 +/- 3.0 mmol (kg DM)-1, P < 0.01 and 375 +/- 25 mmol (kg DM)-1, P < 0.001, respectively). 3. Peak power output was 885 +/- 66 W and declined by 65 +/- 3% during exercise. Phosphocreatine and glycogen degradation in type II fibres during exercise (74.3 +/- 2.5 and 126.3 +/- 15.8 mmol (kg DM)-1, respectively) was greater than the corresponding degradation in type I fibres (59.1 +/- 2.9 mmol (kg DM)-1, P < 0.001 and 77.0 +/- 14.3 mmol (kg DM)-1, P < 0.01, respectively). The decline in ATP during exercise was similar when comparing fibre types (P > 0.05). 4. Compared with previous studies involving similar durations of maximal cycling exercise, isokinetic knee extension and intermittent isometric contraction, the rates of substrate utilization recorded in type I fibres were extremely high, being close to the rapid rates observed in this fibre type during intense contraction with limb blood flow occluded.
Effect of calcium on histamine release from pleural and peritoneal mast cells induced by catechol. (1986)

Histamine release from rat pleural and peritoneal mast cells induced by catechol (1, 10, 50, 250 microM and 1 mM) has been studied. The dose-response induced by catechol is non-cytotoxic, is not modified by purification of mast cells and is calcium independent. The sensitivity and maximum response to catechol is the same irrespective of the presence or absence of Ca++, except on purified pleural mast cells, that showed a plateau response at 250 microM catechol in the absence of Ca++, and on unpurified peritoneal mast cells which exhibited a lower maximum response equally in the absence of Ca++. The release is induced by catechol at concentrations as low as 50 microM in all cases, and the maximum response is reached at 1 mM.
A survey of physical methods for studying nuclear mechanics and mechanobiology (2021)

It is increasingly appreciated that the cell nucleus is not only a home for DNA but also a complex material that resists physical deformations and dynamically responds to external mechanical cues. The molecules that confer mechanical properties to nuclei certainly contribute to laminopathies and possibly contribute to cellular mechanotransduction and physical processes in cancer such as metastasis. Studying nuclear mechanics and the downstream biochemical consequences or their modulation requires a suite of complex assays for applying, measuring, and visualizing mechanical forces across diverse length, time, and force scales. Here, we review the current methods in nuclear mechanics and mechanobiology, placing specific emphasis on each of their unique advantages and limitations. Furthermore, we explore important considerations in selecting a new methodology as are demonstrated by recent examples from the literature. We conclude by providing an outlook on the development of new methods and the judicious use of the current techniques for continued exploration into the role of nuclear mechanobiology.
Impact of Body Mass Index on Surgical Outcomes in Radical Total Gastrectomy (2011)

This study suggested that an elevated BMI was significantly associated with increased weight of stomach extirpated en bloc with omentum, which was found to elongate operative times.
Functional analysis of Sox8 during neural crest development inXenopus (2006)

Among the families of transcription factors expressed at the neural plate border, Sox proteins have been shown to regulate multiple aspects of neural crest development. Sox8, Sox9 and Sox10, exhibit overlapping expression domains in neural crest progenitors, and studies in mouse suggest that Sox8 functions redundantly with Sox9 and Sox10 during neural crest development. Here, we show that in Xenopus, Sox8 accumulates at the lateral edges of the neural plate at the mid-gastrula stage; in contrast to its mouse and chick orthologs, Sox8 expression precedes that of Sox9 and Sox10 in neural crest progenitors. Later in development, Sox8 expression persists in migrating cranial crest cells as they populate the pharyngeal arches and in trunk neural crest cells, in a pattern that recapitulates both Sox9 and Sox10 expression domains. Although morpholino-mediated knockdown of Sox8 protein did not prevent the formation of neural crest progenitors, the timing of their induction was severely affected. This delay in neural crest specification had dramatic consequences on the development of multiple lineages of the neural crest. We demonstrate that these defects are due to the inability of neural crest cells to migrate into the periphery, rather than to a deficiency in neural crest progenitors specification and survival. These results indicate that the control of Sox8 expression at the neural plate border is a key process in initiating neural crest formation in Xenopus, and highlight species-specific differences in the relative importance of SoxE proteins during neural crest development.
Purification of anti-MUC1 antibodies by peptide mimotope affinity chromatography using peptides derived from a polyvalent phage display library (2002)

A polyvalent, lytic phage display system (T7Select415-lb) displaying a random peptide library has been investigated for its ability to discover novel mimotopes reactive with the therapeutic monoclonal antibody C595. Sequence analysis of enriched phage lead to the identification of a predominant sequence RNREAPRGKICS, and two other consensus sequences RXXP and RXP. The novel synthetic peptide RNREAPRGKICS was linked to beaded agarose and the performance as a mimotope affinity chromatography matrix evaluated. Antibody purified using the novel matrix was found to be of higher specific reactivity than antibody purified using the conventional epitope matrix (peptide APDTRPAPG). The RNREAPRGKICS peptide binding to C595 demonstrated a higher equilibrium association constant (K-A=0.75 x 10(6)) than the epitope peptide (K-A=0.16 x 10(6)). Circular dichroism showed that the novel peptide had a more highly ordered structure at 4 degrees C and room temperature, than the epitope peptide.
Pathogenicity of Clinical Acinetobacter baumannii Isolates in a Galleria mellonella Host Model According to bla OXA-40 Gene and Epidemiological Outbreak Status (2013)

Clinical studies have suggested that blaOXA-40-positive Acinetobacter baumannii isolates are associated with poor patient outcomes; however, reasons for unfavorable outcomes are difficult to discern in clinical studies. The objective of this study was to assess the virulence of carbapenem-resistant A. baumannii according to blaOXA-40 and epidemiological outbreak status in a Galleria mellonella model. Eight isolates of A. baumannii were studied. Nonoutbreak isolates and blaOXA-40-negative isolates more rapidly killed infected G. mellonella (P < 0.01).