gebhart/patrepeval huggingface dataset:
Acetone in breath and blood. (1977)

The of decaying apples on the breath of patients with severe diabetes was first r orded in 1798 by John Rollo in his classic monograph Cases of the Diabetes Mellitus.1 In 1857 Petters identified the odor producing substance as acetone2 and in the Bradshawe lecture to the Royal College of Physicians of London in 1886 Dreschfeld stated that the odor of acetone on the breath was a characteristic feature of diabetic coma.3 4 Quantitative methods for measuring acetone were developed in Germany in 1897 by Geelmuyden5 and Nebelthau6 and by 1898 Muller had described a technique suitable for measuring acetone in the breath of patients with diabetes.7 Significant methodological advances were made by Scott-Wilson,8 Marriott9 and by Folin and Denisl° 11 and in 1920 Hubbard12 and Widmark13 successfully measured the concentration of acetone in the breath of normal humans. These chemical methods were insensitive and required tedious procedures for concentrating the sample prior to analysis. Nevertheless mar of these early papers made substantial contributions to our unders.anding of acetone excretion in human breath. 14,15 In 1964 gas chromatography with flame ionization detection was applied to breath acetone measurements by Leveyt6 and by Stewart and Boettner.'7 Breath could be analyzed directly and the rapidity, specificity, sensitivity and economy of the test meant that clinical application was no longer limited by technical or practical difficulties. Since 1964 several groups of investigators have applied breath acetone measurements to clinical problems'25 but factors such as age, weight, sex, diet, exercise, stress, and diseases other than diabetes that might alter the breath acetone concentration have not been systematically studied. Furthermore standardized methodology has not been employed and the results have not been reported in a comprehensive form. This has made comparative interpretation of new data difficult and has
[Nanometer silver dressing alleviates pain after circumcision]. (2011)

Nanometer silver dressing can significantly alleviate postoperative pain of circumcision, and is particularly applicable to such moist parts as the perineum, genitals, and urethra.
Tachykininergic mediation of viscerosensitive responses to acute inflammation in rats: role of CGRP (1997)

Tachykinins, colocalized with calcitonin gene-related peptides (CGRP) in sensory afferents, are involved in viscerosensitive responses. We investigated the role of tachykinins and CGRP in both nociceptive and visceromotor responses to inflammation. Visceral pain was assessed by abdominal muscle contractions. Gastric emptying was evaluated after gavage with reconstituted milk containing 51Cr-labeled sodium chromate. Acetic acid or 9% NaCl was injected intraperitoneally before the meal. RP-67580, SR-48968, human CGRP [hCGRP-(8-37)], or their vehicles were injected before acetic acid or saline. RP-67580, SR-48968, or their vehicles were injected before CGRP and the meal. GR-73632 or GR-76349 was injected before the meal. Acetic acids inhibited gastric emptying and increased the number of abdominal contractions. RP-67580 reduced the inhibition of gastric emptying without affecting the abdominal response. SR-48968 only reduced the acetic acid-induced increase of abdominal contractions. hCGRP-(8-37) reduced both responses induced by acetic acid. CGRP mimicked the effects of acetic acid. RP-67580 abolished CGRP-induced gastric emptying inhibition, whereas SR-48968 only diminished visceral pain. GR-73632 reduced gastric emptying, and GR-64349 increased abdominal response. In inflammation, neurokinin receptors (NK1 and NK2) mediate the gastric emptying inhibition and visceral pain, respectively. These responses involve a release of CGRP.
Glycosaminoglycan-mediated leuserpin-2/thrombin interaction. Structure-function relationships. (1990)

Two recently identified structural elements important for glycosaminoglycan-mediated activation of human leuserpin-2 (hLS2) were investigated in detail by functional analysis of variants secreted by transiently transfected COS cells. Highly specific requirements with respect to the nature of the involved amino acids as well as to their spatial arrangements were found to be crucial for efficient activation of hLS2 by dermatan sulfate. In contrast, binding and activation of hLS2 by heparin seem to be determined mainly by the positive charge density of the involved inhibitor segment. A dimeric repeat enriched in acidic amino acids turned out to exert a dual role with respect to structure and function of hLS2. First, in the absence of functional activators the negatively charged dimer interacts intramolecularly with the glycosaminoglycan-binding site. Second, the acidic dimer is instrumental in glycosaminoglycan-mediated activation of hLS2. The monomers constituting the acidic dimer are functionally not equivalent.
Research Review: What we have learned about the causes of eating disorders – a synthesis of sociocultural, psychological, and biological research (2015)

Multiple biopsychosocial influences are implicated in eating disorders and/or disordered eating symptoms and several can now be considered established risk factors. Data suggest that psychological and environmental factors interact with and influence the expression of genetic risk to cause eating pathology. Additional studies that examine risk variables across multiple levels of analysis and that consider specific transactional processes amongst variables are needed to further elucidate the intersection of sociocultural, psychological, and biological influences on eating disorders.
PROPERTIES OF ELECTRICALLY CHARGED AERO-SOLS. TECHNICAL REPORT 12 (1954)

was concluded that the free-fall velocity of an agglomerate is proportional to the two-thirds power of its mass, and when primary particles are not uniform in size and shape, wide variation in agglomerate densities occur. It was also noted that when primary particles have irregular shapes there is a difference in drag diameter of the agglomerate determined from the rising and falling velocities. This is a factor in electrical precipitation of such aerosols. (J.R.D.)
Genetic polymorphisms predicting the outcome of bone marrow transplants (2004)

Analysis of non-histocompatibility leucocyte antigen (HLA) functional genomics, together with conventional risk factors in haematopoietic stem cell transplantation (HSCT) can lead to predicting outcome in HLA-matched sibling transplant recipients. Polymorphisms of cytokine genes including tumour necrosis factor alpha, interleukin-10, interferon gamma and interleukin (IL)-6, associate with more severe acute graft-versus-host disease (aGvHD). Donor genotype for IL-1 receptor antagonist (IL-1Ra) has been associated with reduced aGvHD severity. Other genotypes (patient IL-1Ra, IL-6 and donor IL-1 alpha) have been associated with chronic GvHD, or overall survival (Vitamin D receptor and oestrogen receptor). Polymorphisms within genes associated with host defence/inflammatory responses (mannose binding lectin genes, myeloperoxidase genes and the FC gamma receptors) have been associated with infections. Polymorphisms of pharmacogenes, such as methylenetetrahydrofolate-reductase, have been associated with aGvHD and other post-transplant complications. The NOD2 gene polymorphism, associated with Crohn's disease, has been shown to be associated with risk of gut GvHD. The majority of the studies have been carried out in single centre HLA-matched sibling cohorts and in relatively few matched unrelated donor transplants. This review gives an overall perspective of the current field of non-HLA genetics with regard to HSCT outcome, clinical relevance and potential application of the results to clinical management of HSCT.
The interplay of histone modifications – writers that read (2015)

Histones are subject to a vast array of posttranslational modifications including acetylation, methylation, phosphorylation, and ubiquitylation. The writers of these modifications play important roles in normal development and their mutation or misregulation is linked with both genetic disorders and various cancers. Readers of these marks contain protein domains that allow their recruitment to chromatin. Interestingly, writers often contain domains which can read chromatin marks, allowing the reinforcement of modifications through a positive feedback loop or inhibition of their activity by other modifications. We discuss how such positive reinforcement can result in chromatin states that are robust and can be epigenetically maintained through cell division. We describe the implications of these regulatory systems in relation to modifications including H3K4me3, H3K79me3, and H3K36me3 that are associated with active genes and H3K27me3 and H3K9me3 that have been linked to transcriptional repression. We also review the crosstalk between active and repressive modifications, illustrated by the interplay between the Polycomb and Trithorax histone-modifying proteins, and discuss how this may be important in defining gene expression states during development.
Synthesen und Reaktionen von Pyrazolo[1.5‐a]pyrimidinen, III (1965)

Abstract 2‐Amino‐pyrazolo[1.5‐ a ]pyrimidine werden über 2‐Brom‐pyrazolo[1.5‐ a ]pyrimidine aus den 2‐Hydroxy‐pyrazolo[1.5‐ a ]pyrimidinen synthetisiert und hinsichtlich ihrer chemischen Eigenschaften untersucht.
Prevalence ofStaphylococcus aureusNasal Colonization in the United States, 2001–2002 (2005)

Many persons in the United States are colonized with S. aureus; prevalence rates differ demographically. MRSA colonization prevalence, although low nationally in 2001-2002, may vary with demographic and organism characteristics.
Formally verifying a microprocessor using a simulation methodology (1994)

Formal verification is becoming a useful means of validating designs. We have developed a methodology for formally verifying dataintensive circuits (e.g., processors) with sophisticated timing (e.g., pipelining) against high-level declarative specifications. Previously, formally verifying a microprocessor required the use of an automatic theorem prover, but our technique requires little more than a symbolic simulator. We have formally verified a pre-existing 16-bit CISC microprocessor circuit extracted from the fabricated layout.
Über bicyclische Heterocyclen mit gemeinsamem Stickstoffatom, X. Elektrophile Substitutionen an 7‐Methyl‐2‐phenyl‐imidazo‐[1.2‐a]pyrimidinen (1966)

Abstract Die Nitrosierung und Azokupplung an 7‐Methyl‐2‐phenyl‐imidazo[1.2‐ a ]pyrimidinen ( 1, 2 ) erfolgt in 3‐Stellung. Bei der Nitrierung wird die p ‐Stellung des Phenylkerns bevorzugt; ist diese Position besetzt, findet Substitution in 3‐Stellung statt. Bromierung führt zu 3‐Bromimidazo[1.2‐ a ]pyrimidin‐hydrobromid‐perbromiden ( 12c , 12g ); steht in 5‐Stellung eine Hydroxylgruppe, so erhält man über die 6‐Brom‐ und 3.6‐Dibrom‐Verbindungen 3.6.8‐Tribrom‐imidazo[1.2‐ a ]pyrimidone‐(5) ( 15 ).
Angiogenesis inhibition by minocycline. (1991)

We describe a new inhibitor of angiogenesis, minocycline, a semisynthetic tetracycline antimicrobial with anticollagenase properties. Minocycline was incorporated into controlled release polymers and tested in the rabbit cornea against neovascularization in the presence of the VX2 carcinoma. Inhibition by minocycline was shown to be comparable to that of the combination of heparin and cortisone, a potent inhibitor of angiogenesis. Minocycline decreased tumor-induced angiogenesis by a factor of 4.5, 4.4, and 2.9 at 7, 14, and 21 days, respectively. At the end of the experiment, whereas the corneas with empty polymers had large, invasive, exophytic tumors, none of the corneas with minocycline had such vascular masses. Recently, studies of agents that disrupt collagen synthesis and deposition have yielded several new angiogenesis inhibitors. We suggest that investigation of agents that disrupt collagenolysis may similarly identify other angiogenesis inhibitors and further clarify the mechanisms of angiogenesis.
Activated Wnt/ß-catenin signaling in melanoma is associated with decreased proliferation in patient tumors and a murine melanoma model (2009)

This study demonstrates that in malignant melanoma, elevated levels of nuclear beta-catenin in both primary tumors and metastases correlate with reduced expression of a marker of proliferation and with improved survival, in contrast to colorectal cancer. The reduction in proliferation observed in vivo is recapitulated in B16 murine melanoma cells and in human melanoma cell lines cultured in vitro with either WNT3A or small-molecule activators of beta-catenin signaling. Consistent with these results, B16 melanoma cells expressing WNT3A also exhibit decreased tumor size and decreased metastasis when implanted into mice. Genome-wide transcriptional profiling reveals that WNT3A up-regulates genes implicated in melanocyte differentiation, several of which are down-regulated with melanoma progression. These findings suggest that WNT3A can mediate transcriptional changes in melanoma cells in a manner reminiscent of the known role of Wnt/beta-catenin signaling in normal melanocyte development, thereby altering melanoma cell fate to one that may be less proliferative and potentially less aggressive. Our results may explain the observed loss of nuclear beta-catenin with melanoma progression in human tumors, which could reflect a dysregulation of cellular differentiation through a loss of homeostatic Wnt/beta-catenin signaling.
Structural determination of lipid antigens captured at the CD1d–T-cell receptor interface (2017)

Glycolipid antigens recognized by αβ T-cell receptors (TCRs) drive the activation of invariant natural killer T (iNKT) cells, a specialized subset of innate T lymphocytes. Glycolipids with α-linked anomeric carbohydrates have been identified as potent microbial lipid antigens for iNKT cells, and their unusual α-anomeric linkage has been thought to define a "foreign" lipid antigen motif. However, mammals use endogenous lipids to select iNKT cells, and there is compelling evidence for iNKT cell responses in various types of sterile inflammation. The nature of endogenous or environmental lipid antigens encountered by iNKT cells is not well defined. Here, we sought to identify lipid antigens in cow's milk, a prominent part of the human diet. We developed a method to directly capture lipid antigens within CD1d-lipid-TCR complexes, while excluding CD1d bound to nonantigenic lipids, followed by direct biochemical analysis of the lipid antigens trapped at the TCR-CD1d interface. The specific antigens captured by this "TCR trap" method were identified as α-linked monohexosylceramides by mass spectrometry fragmentation patterns that distinguished α- from β-anomeric monohexosylceramides. These data provide direct biochemical evidence for α-linked lipid antigens from a common dietary source.
Vascular Capsule for Telemetric Monitoring of Blood Pressure (2003)

Our in-vitro and in-vivo experiments demonstrate the feasibility of wireless transmission from a capsule with a sufficient resolution of the sensor output signals to determine blood pressure and pulse rate. As long as the vessel diameter is wide enough, arterial fixation of the capsule does not induce thrombotic occlusion of the parent artery. With respect to future clinical applications, further refinements of the transmission technology are needed to extend the transmission distance between capsule and reader antenna. The technology of intelligent implants has further implications, such as monitoring of other physiological parameters, and the design of a control loop, which may be used for therapeutic feedback.
The tyrosyl‐tRNA synthetase from Escherichia coli (1982)

The structural component of the tyrS gene of Escherichia coli, comprising 1269 base pairs, has been fully sequenced by the combined M13/dideoxychain termination approach. The gene has a codon usage pattern which is typical of highly expressed proteins and similar to other Escherichia coli aminoacyl-tRNA synthetase genes. Peptide purification and sequencing has been used to locate the N-terminus and to provide confirmation of 95% of the translated protein sequence. This latter yields on Mr of 47,403 for the Escherichia coli tyrosyl-tRNA synthetase, and reveals considerable homology with the primary structure of the analogous enzyme isolated from Bacillus staerothermophilus.
The Role of Balanced Training and Testing Data Sets for Binary Classifiers in Bioinformatics (2013)

Training and testing of conventional machine learning models on binary classification problems depend on the proportions of the two outcomes in the relevant data sets. This may be especially important in practical terms when real-world applications of the classifier are either highly imbalanced or occur in unknown proportions. Intuitively, it may seem sensible to train machine learning models on data similar to the target data in terms of proportions of the two binary outcomes. However, we show that this is not the case using the example of prediction of deleterious and neutral phenotypes of human missense mutations in human genome data, for which the proportion of the binary outcome is unknown. Our results indicate that using balanced training data (50% neutral and 50% deleterious) results in the highest balanced accuracy (the average of True Positive Rate and True Negative Rate), Matthews correlation coefficient, and area under ROC curves, no matter what the proportions of the two phenotypes are in the testing data. Besides balancing the data by undersampling the majority class, other techniques in machine learning include oversampling the minority class, interpolating minority-class data points and various penalties for misclassifying the minority class. However, these techniques are not commonly used in either the missense phenotype prediction problem or in the prediction of disordered residues in proteins, where the imbalance problem is substantial. The appropriate approach depends on the amount of available data and the specific problem at hand.
Evaluation of Reclaimer Sludge Disposal from Post-combustion CO2 Capture (2014)

An important environmental issue for amine-based post-combustion CO2 capture is the generation of reclaimer sludge containing degradation products and impurities that must be disposed. This paper evaluated the environmental fate of reclaimer wastes generated from three amine-based solvents (monoethanolamine, piperazine, and a methyldiethanolamine/piperazine blend) used for CO2 capture at a pulverized coal and a natural-gas combined cycle power plant (900 and 810 MWe, respectively) with typical flue gas compositions. The solvent loss and impurities and degradation accumulation in the CO2 capture units were modeled. A techno-economic analysis of different reclaiming technologies was conducted. The reclaimer sludge was classified based on US and EU regulations for hazardous waste, and alternative options for reclaimer sludge disposal were evaluated.
Homing endonuclease I-CreI derivatives with novel DNA target specificities (2006)

Homing endonucleases are highly specific enzymes, capable of recognizing and cleaving unique DNA sequences in complex genomes. Since such DNA cleavage events can result in targeted allele-inactivation and/or allele-replacement in vivo, the ability to engineer homing endonucleases matched to specific DNA sequences of interest would enable powerful and precise genome manipulations. We have taken a step-wise genetic approach in analyzing individual homing endonuclease I-CreI protein/DNA contacts, and describe here novel interactions at four distinct target site positions. Crystal structures of two mutant endonucleases reveal the molecular interactions responsible for their altered DNA target specificities. We also combine novel contacts to create an endonuclease with the predicted target specificity. These studies provide important insights into engineering homing endonucleases with novel target specificities, as well as into the evolution of DNA recognition by this fascinating family of proteins.
Cell-Mediated Immune Responses in Tuberculosis (2009)

Tuberculosis is primarily a disease of the lung, and dissemination of the disease depends on productive infection of this critical organ. Upon aerosol infection with Mycobacterium tuberculosis (Mtb), the acquired cellular immune response is slow to be induced and to be expressed within the lung. This slowness allows infection to become well established; thus, the acquired response is expressed in an inflammatory site that has been initiated and modulated by the bacterium. Mtb has a variety of surface molecules that interact with the innate response, and this interaction along with the autoregulation of the immune response by several mechanisms results in less-than-optimal control of bacterial growth. To improve current vaccine strategies, we must understand the factors that mediate induction, expression, and regulation of the immune response in the lung. We must also determine how to induce both known and novel immunoprotective responses without inducing immunopathologic consequences.
Shear strain imaging using shear deformations (2008)

In this article we investigate the generation of shear strain elastograms induced using a lateral shear deformation. Ultrasound simulation and experimental results demonstrate that the shear strain elastograms obtained under shear deformation exhibit significant differences between bound and unbound inclusions in phantoms, when compared to shear strain images induced upon an axial compression. A theoretical model that estimates the decorrelation between pre- and postdeformation radio frequency signals, as a function of extent of shear deformation, is also developed. Signal-to-noise ratios of shear strain elastograms obtained at different shear angles are investigated theoretically and verified using ultrasound simulations on a uniformly elastic phantom. For the simulation and experiment, a two-dimensinal block-matching-based algorithm is used to estimate the axial and lateral displacement. Shear strains are obtained from the displacement vectors using a least-squares strain estimator. Our results indicate that the signal-to-noise ratio (SNR) of shear strain images increases to reach a maximum and saturates, and then decreases with increasing shear angle. Using typical system parameters, the maximum achievable SNR for shear strain elastography is around 8 (18 dB), which is comparable to conventional axial strain elastography induced by axial compression. Shear strain elastograms obtained experimentally using single inclusion tissue-mimicking phantoms with both bound and unbound inclusions (mimicking cancerous masses and benign fibroadenomas, respectively) demonstrate the characteristic differences in the depiction of these inclusions on the shear strain elastograms.