gebhart/patrepeval huggingface dataset:
Factors influencing exit of substances from cerebrospinal fluid into deep cervical lymph of the rabbit. (1983)

Experiments have been made to determine the main route by which radio-iodinated albumin reaches deep cervical lymph from cerebrospinal fluid (c.s.f.) in the anaesthetized rabbit. Other factors, influencing drainage through this pathway, have been investigated. After single injection of [125I]albumin into a lateral ventricle of control rabbits, a mean of 14.8% of the radioactivity lost from brain-c.s.f. was recovered during 6 hr in the lymph of the cannulated jugular trunk of one side. Injection of kaolin into the olfactory fossa or sealing of the cribriform plate with cyanoacrylate glue reduced the recovery of [125I]albumin to 3.3% and 1.9% respectively at 2-3 weeks after the procedure designed to block the cribriform plate. This confirms the traditional view that the major connexions between c.s.f. and deep cervical lymph is via prolongations of subarachnoid space around the olfactory nerves, leading into the interstitial spaces of the nasal submucosa. The dense lymphatic plexus in this tissue is known to drain into the retropharyngeal (deep cervical) lymph nodes. Constant infusion of artificial c.s.f. into a lateral ventricle at 10 microliters/min or 30 microliters/min, in order to approximately double or quadruple flow through the system respectively, decreased the recovery of intraventricular [125I]albumin to 8.1% and 6.9% respectively. It also appeared that the increased c.s.f. pressures induced forced relatively more radioactivity from inside the skull into the c.s.f. spaces of the spinal cord. Maintaining the rabbit prone but at 20 degrees from the horizontal caused recoveries of [125I]albumin in lymph of 17.6% (head-up position and 6.6% (head-down). The amounts of radioactivity in nose and spinal cord markedly increased and decreased respectively in the head-down position. They changed in the opposite directions in the head-up position. The amounts of [51Cr]EDTA, [125I]metrizamide and [14C]inulin in deep cervical lymph were negligible after intraventricular injection. Estimations of the ratio of [51Cr]EDTA/[125I]albumin in various tissues on the pathway into lymph, together with measurements of arterio-venous fluxes across the retropharyngeal nodes, indicate that [51Cr]EDTA passed from c.s.f./lymph into blood within both the nose and the lymph nodes.
Melanoma cells constitutively release an anchor-positive soluble form of protectin (sCD59) that retains functional activities in homologous complement-mediated cytotoxicity. (1997)

Protectin (CD59), a glycosylphosphatidylinositol-anchored cell membrane glycoprotein, is differentially expressed on melanocytic cells and represents the main restriction factor of C-mediated lysis of melanoma cells. In this study, we report that CD59-positive melanoma cells constitutively release a soluble form of CD59 (sCD59), and that its levels directly correlate (r = 0.926; P < 0.05) with the amount of membrane-bound CD59. SDS-PAGE analysis showed that the molecular components of sCD59 are similar to those of cellular CD59 expressed by melanoma cells. Melanoma-released sCD59 is anchor positive since it inserts into cell membranes of homologous cells that transiently increase their expression of CD59. Moreover, sCD59 is functional: it blocks the binding of the anti-CD59 mAb YTH53.1 to melanoma cells and reverses its effects on C-mediated lysis. In fact, preincubation of mAb YTH53.1 with scalar doses of conditioned media of CD59-positive but not of CD59-negative melanoma cells reduced significantly (P < 0.05), and in a dose-dependent fashion, the enhancement of C-mediated lysis of anti-GD3-sensitized melanoma cells induced by the masking of cellular CD59 by mAb YTH53.1. Altogether, these data demonstrate that CD59-positive human melanoma cells release a soluble form of CD59 that is structurally similar to cellular CD59, retains its anchoring ability, is functional, and may impair the effectiveness of clinical approaches to humoral immunotherapy for human melanoma.
VAMP8 is a vesicle SNARE that regulates mucin secretion in airway goblet cells (2011)

Mucin secretion is an innate defence mechanism, which is noxiously upregulated in obstructive lung diseases (e.g. chronic obstructive pulmonary disease (COPD), cystic fibrosis and asthma). Mucin granule exocytosis is regulated by specific protein complexes, but the SNARE exocytotic core has not been defined in airway goblet cells. In this study, we identify VAMP8 as one of the SNAREs regulating mucin granule exocytosis. VAMP8 mRNA was present in human airway and lung epithelial cells, and deep-sequencing and expression analyses of airway epithelial cells revealed that VAMP8 transcripts were expressed at 10 times higher levels than other VAMP mRNAs. In human airway epithelial cell cultures and freshly excised tissues, VAMP8 immunolocalised mainly to goblet cell mucin granules. The function of VAMP8 in airway mucin secretion was tested by RNA interference techniques. Both VAMP8 short interfering RNAs (siRNAs) and short hairpin RNAs (shRNAs) reduced mucin secretion induced by PAR agonists, neutrophil elastase and ATP in two airway epithelial cell culture models. Notably, basal (non-agonist elicited) mucin secretion was also reduced in these experiments. VAMP8 knockdown was also effective in decreasing mucin secretion in airway epithelial cell cultures with induced mucous metaplasia/mucin hypersecretion. Unlike VAMP8 silencing, knockdown of VAMP2 or VAMP3 did not affect mucin secretion. Importantly, in VAMP8 knock-out (KO) mice with IL-13-induced mucous metaplasia, mucin content in the bronchoalveolar lavage (BAL) and ATP-stimulated mucin secretion in the trachea were reduced compared to WT-matched littermates. Our data indicate that VAMP8 is an essential SNARE in airway mucin granule exocytosis. Reduction of VAMP8 activity/expression may provide a novel therapeutic target to ameliorate airway mucus obstruction in lung diseases.
[Study on genotoxicity of aldicarb and methomyl]. (2010)

Genotoxicity of aldicarb and methomyl was explored. The aldicarb and methomyl were diluted by the deionized water respectively, and then five concentrations of aldicarb were generated as 0.002, 0.02, 0.2, 2, 20 microg/L, methomyl as 0.02, 0.2, 2, 20, 200 microg/L. The micronucleus of carp erythrocyte was counted by micronucleus test. The mutation of bacteria was assessed by Ames test. The DNA damage of human lymphocytes was tested by comet assay. The genotoxicity of aldicarb and methomyl was estimated by the three toxicology tests mentioned above. The results showed that, in the micronucleus test, both any concentration of two pesticides were not able to induce higher frequency of micronucleus in carp erythrocyte (p > 0.05). Under condition of metabolic inactivation, although the number of colony with back mutation in any concentration of two pesticides did not exceed the double number of those with spontaneous mutation, the revertants of TA97 strains in the aldicarb 2-20 microg/L and the methomyl 20-200 microg/L were (129.17 +/- 17.00), (129.50 +/- 18.28), (109.83 +/- 10.80) and (114.17 +/- 9.37) entries/plate, respectively, they were significantly greater than those in spontaneous mutation (p < 0.05, p < 0.01). In the methomyl 200 microg/L group, the revertants of TA100 and TA102 strains were (147.83 +/- 23.29) and (275.83 +/- 20.63) entries/plate, respectively, they are significantly higher than that of the control group under condition of metabolic activation (p < 0.05). In comet assay, both the high concentration groups of aldicarb and methomyl resulted in different degrees of DNA damage of human peripheral blood lymphocytes. Compared with deionized water group, all of three indexes of comet assay in the aldicarb 20 microg/L groups and the methomyl 200 microg/L groups were significantly higher (p < 0.01). Despite that both aldicarb and methomyl did not results in damaging chromosome carp erythrocyte and producing apparent mutagenicity, the effect of mutagenicity and DNA damage in human lymphocytes were observed in high concentration groups of both aldicarb and methomyl. Water polluted by aldicarb and methomyl may have the potential adverse effects on the environment and human health.
Inhibition of Wee1 Sensitizes Cancer Cells to Antimetabolite Chemotherapeutics <i>In Vitro</i> and <i>In Vivo</i> , Independent of p53 Functionality (2013)

Inhibition of Wee1 is emerging as a novel therapeutic strategy for cancer, and some data suggest that cells with dysfunctional p53 are more sensitive to Wee1 inhibition combined with conventional chemotherapy than those with functional p53. We and others found that Wee1 inhibition sensitizes leukemia cells to cytarabine. Thus, we sought to determine whether chemosensitization by Wee1 inhibition is dependent on p53 dysfunction and whether combining Wee1 inhibition is tolerable and effective in vivo. Synergistic inhibition of proliferation with a Wee1 inhibitor in clinical development, MK1775, and cytarabine was observed in all acute myelogenous leukemia (AML) cell lines tested, regardless of p53 functionality. Mechanistic studies indicate that inhibition of Wee1 abrogates the S-phase checkpoint and augments apoptosis induced by cytarabine. In AML and lung cancer cell lines, genetic disruption of p53 did not alter the cells' enhanced sensitivity to antimetabolites with Wee1 inhibition. Finally, mice with AML were treated with cytarabine and/or MK1775. The combination of MK1775 and cytarabine was well tolerated in mice and enhanced the antileukemia effects of cytarabine, including survival. Thus, inhibition of Wee1 sensitizes hematologic and solid tumor cell lines to antimetabolite chemotherapeutics, whether p53 is functional or not, suggesting that the use of p53 mutation as a predictive biomarker for response to Wee1 inhibition may be restricted to certain cancers and/or chemotherapeutics. These data provide preclinical justification for testing MK1775 and cytarabine in patients with leukemia.
The Interbull audit project part I - Results of an international survey (2002)

An Interbull project was initiated in 2001 to develop software that could be used to provide a simulation environment for testing and comparing breeding value estimation programmes. A questionnaire, called “Informal Survey Questionnaire” (ISQ) was sent out to eight selected countries to collect information on model specifications, genetic structure and structure of environmental effects in addition to Interbull Bulletin No. 24. The aim of this contribution is an attempt to summarize some of the results from the ISQ and highlight important points that should be considered when generating data according to a country’s specific structure. The results of the survey show distributions of levels across environmental and genetic effects, e.g. calving season, size of herd-calving-years, use of sires and of young bulls and distribution of their daughters across herds, which should be accounted for in the simulation program.
Interface zwischen 2000-Transistoren-Chip und neuronaler Zellkultur (2001)

Anhand eines neuartigen, industriell gefertigten Halbleiter-Chips mit 2000 Sensoren auf der Basis offener Feldeffekttransistoren wird die Anwendbarkeit der Neuron-Silizium-Kopplung auf raumzeitliche Messungen neuronaler Aktivität untersucht. Der Chip wurde in Kooperation mit der Firma Siemens entworfen und im Rahmen der Arbeit weiterentwickelt. Die für die Konzeption eines Multi-Site-Chips kritischen Punkte werden herausgearbeitet und Chips mehrerer aufeinanderfolgender Chargen entsprechend charakterisiert. Kopplungsexperimente an Blutegel- und Schneckenzellen demonstrieren die Grundfunktionalität des Chips. Das erste Multi-Site-Recording erfolgte an einer organotypischen Ratten-Slice-Kultur mit 49 Sensoren.
Improved factor Xa cleavage of fusion proteins containing maltose binding protein. (1995)

The addition of five glycine residues at a position adjacent to the factor Xa cleavage site of a MBP-2C fusion protein, comprising maltose binding protein (MBP) and poliovirus 2C, allowed factor Xa to generate both of the component proteins. If, however, MBP-2C was without the above modification, it was cleaved only at a site located internally within poliovirus 2C, and this protein was not, therefore, generated by factor Xa cleavage. A simple procedure is described that uses PCR for the introduction of five glycines adjacent to the factor Xa recognition site.
Dynamics and stability of a laser system with second-order nonlinearity (1997)

We use a multimode rate-equation model to investigate the stability of a laser system with second-order nonlinearity and compare the results with the literature on intracavity frequency-doubled lasers. The emphasis is on the Hopf bifurcation between the asymptotically stable state and the stable oscillation that occurs with variation of the conversion efficiency from the fundamental frequencies to their sum. This bifurcation results in two simple expressions that describe the stability curve, depending on material and cavity parameters. We also report on an experimental confirmation of the predicted temporal behavior of sum-frequency generation.
Finite Element Study of Transcranial Direct Current Stimulation: customization of models and montages (2013)

Transcranial Direct Current Stimulation (tDCS) is a non-invasive neuromodulation technique that applies low amplitude current via electrodes placed on the scalp. Rather than directly eliciting a neuronal response, tDCS is believed to modulate excitability – encouraging or suppressing activity in regions of the brain depending on the polarity of stimulation. The particular application of tDCS is often determined by the electrode configuration and intensity of stimulation. MRI-derived finite element models have been developed to analyze the effect of these parameters allowing novel electrode configurations to be tested in subject specific models. By creating a subject specific model of an obese subject, the effect of fat on tDCS was examined. The inclusion of fat into the model led to an increase in cortical electric field intensity. To further investigate the influence of fat the conductivity was varied from that of skull to that of skin. Cortical electric field intensity did not change monotonically with fat conductivity. It was postulated that this may be due to a shunting effect both when the shell of fat surrounding the skull is too resistive for penetration and when the fat is so conductive as to lead current around rather than through the head. The effect of electrode positioning was then examined in a new 2x1 Hybrid montage utilizing both HD electrodes and sponge pads. Systematically varying the location of both the anode and cathode led to changes in the electric field distribution. This is in contrast to the old heuristic convention of placing the “active” electrode over a region of interest and neglecting the influence of the “return” electrode. Lastly the radial directionality of electric field was examined in a 4x1 ring configuration. Previous models have predicted the spatial focality of the 4x1 ring configuration. Polarity specificity, the ability to selectively apply either anodal or cathodal stimulation, was demonstrated in a 4x1 montage over the motor strip. The customization of models for specific populations and montages provides new avenues for clinical practice.
Machine Learning for an Expert System to Predict Preterm Birth Risk (1994)

The prototype expert system was more accurate than traditional manual techniques in predicting preterm birth.
Second and third-order distortion suppression technique for noise canceling CMOS LNAs (2009)

A technique for simultaneous cancellation of noise, second-order distortion and third-order distortion in CMOS LNAs is presented. The proposed LNA topology consists of a matching stage and two common-source amplifier stages, performing single-ended to differential signal conversion with balanced output. The second and third-order nonlinearity of the individual amplifiers as well as the distortion caused by the interaction between the stages are suppressed to achieve high IIP3. A method for intrinsic cancellation of the second-order interaction is employed to reduce the dependence of the IIP3 on the frequency spacing between the interfering signals in the two-tone test.
Effects of Five Alpha-Blockers on the Hypogastric Nerve Stimulation of the Canine Lower Urinary Tract (1988)

Electrical stimulation of the hypogastric nerve increased both urethral and bladder pressures of anaesthetized male dogs, without affecting cardiovascular parameters. Intravenous injections of prazosin, phentolamine, thymoxamine, phenoxybenzamine and yohimbine inhibited the urethral pressure increase in a dose-dependent manner, but the increase in bladder pressure was not modified by these alpha-blockers.
Synthesis and analgesic activity of novel hydrazide and hydrazine derivatives. (2013)

The uses of non-steroidal anti-inflammatory drugs (NSAIDs) are limited by a variety of side effects. So research on preparing new analgesic agents is important. According to some reports about the analgesic activity of hydrazide and hydrazine derivatives a new series of these compounds were synthesized in order to obtain new analgesic compounds. The final compounds 10a-10e and 15a-15d were prepared by condensation of corresponding hydrazides 7,8 and 11-14 with different aldehydes 9a-9e. The structures of all synthesized compounds were confirmed by means of FT-IR, 1H-NMR and Mass spectra. All compounds were evaluated for their analgesic activities by abdominal constriction test (writhing test). Most of the synthesized compounds induced significant reduction in the writhing response when compared to control and compound 15 was more potent than mefenamic acid in the writhing test.
Extensive Changes in DNA Methylation Patterns Accompany Activation of a Silent T-DNA <i>ipt</i> Gene in <i>Agrobacterium tumefaciens</i>-Transformed Plant Cells (1989)

We crossed a male-sterile, Agrobacterium-transformed Nicotiana tabacum plant that contains a silent, hypermethylated T-DNA ipt oncogene with a normal tobacco plant and found that the methylated state of the ipt gene was stably inherited through meiosis in the offspring. However, when tissues of these plants were placed in cell culture, the ipt gene was spontaneously reactivated in a very small fraction of the cells; if 5-azacytidine was added to the culture medium, ipt gene reactivation occurred at high frequency. We analyzed the pattern of DNA methylation in a region spanning the ipt gene in a line that does not express the ipt gene, in five derivatives of this line that reexpressed the ipt gene either spontaneously or after 5-azacytidine treatment, and in tissues of a sibling of this line that reexpressed ipt spontaneously. We found that the ipt locus was highly methylated in the unexpressed state but that spontaneous or 5-azacytidine-induced reexpression always resulted in extensive demethylation of a region including 5' upstream, coding, and 3' downstream regions of the ipt gene. The role of DNA methylation in gene regulation in this system is discussed.
lobSTR: A short tandem repeat profiler for personal genomes (2012)

Short tandem repeats (STRs) have a wide range of applications, including medical genetics, forensics, and genetic genealogy. High-throughput sequencing (HTS) has the potential to profile hundreds of thousands of STR loci. However, mainstream bioinformatics pipelines are inadequate for the task. These pipelines treat STR mapping as gapped alignment, which results in cumbersome processing times and a biased sampling of STR alleles. Here, we present lobSTR, a novel method for profiling STRs in personal genomes. lobSTR harnesses concepts from signal processing and statistical learning to avoid gapped alignment and to address the specific noise patterns in STR calling. The speed and reliability of lobSTR exceed the performance of current mainstream algorithms for STR profiling. We validated lobSTR's accuracy by measuring its consistency in calling STRs from whole-genome sequencing of two biological replicates from the same individual, by tracing Mendelian inheritance patterns in STR alleles in whole-genome sequencing of a HapMap trio, and by comparing lobSTR results to traditional molecular techniques. Encouraged by the speed and accuracy of lobSTR, we used the algorithm to conduct a comprehensive survey of STR variations in a deeply sequenced personal genome. We traced the mutation dynamics of close to 100,000 STR loci and observed more than 50,000 STR variations in a single genome. lobSTR's implementation is an end-to-end solution. The package accepts raw sequencing reads and provides the user with the genotyping results. It is written in C/C++, includes multi-threading capabilities, and is compatible with the BAM format.
The Ultra-High-Vacuum System for the Desy Elelctron-Positron Double Storage Ring “DORIS” (1974)

An electron-positron double storage ring for 2×6 A stored beam at 1,8 BeV and 2×0,9 A at 3 BeV has been built and started operating at DESY, the German Electron Synchrotron. The unique double ring structure of 2×288 m length with 2 experimental crossover points allows also particle research with stored electron-electron beams or–after some proposed changes–with electron-proton beams. The main "vacuum problem" of high current electron-positron storage rings is the high desorption rate by synchrotron radiation. With full stored beams a pressure in the low 10-8 Torr scale it is wanted to get a beam life time of a few hours due to "Bremsstrahlung". The system has been built as a bakeable UHV-system in order to reach a base pressure of 1·10-9 Torr or lower without beam.
Inhibiting TGFβ1 has a protective effect on mouse bone marrow suppression following ionizing radiation exposure in vitro (2013)

Ionizing radiation (IR) causes not only acute tissue damage but also residual bone marrow (BM) suppression. The induction of residual BM injury is primarily attributable to the induction of reactive oxygen species (ROS) pressure in hematopoietic cells. In this study, we examined if SB431542, a transforming growth factor β1 (TGFβ1) inhibitor, can mitigate IR-induced BM suppression in vitro. Our results showed that treatment with SB431542 protected mice bone marrow mononuclear cells (BMMNCs), hematopoietic progenitor cells (HPCs) and hematopoietic stem cells (HSCs) from IR-induced suppression using cell viability assays, clonogenic assays and competitive repopulation assays. Moreover, expression of gene-related ROS production in hematopoietic cells was analyzed. The expression of NOX1, NOX2 and NOX4 was increased in irradiated BMMNCs, and that of NOX2 and NOX4 was reduced by SB431542 treatment. Therefore, the results from this study suggest that SB431542, a TGFβ1 inhibitor, alleviates IR-induced BM suppression at least in part via inhibiting IR-induced NOX2 and NOX4 expression.