gebhart/patrepeval huggingface dataset:
Methylglyoxal Modification of Protein (1999)

Methylglyoxal (MG), an endogenous metabolite that increases in diabetes and is a common intermediate in the Maillard reaction (glycation), reacts with proteins and forms advanced glycation end products. In the present study, we identify a novel MG-arginine adduct and also characterize the structure of a major fluorescent adduct. In addition, we describe the immunochemical study on the MG-arginine adducts using monoclonal antibody directed to MG-modified protein. Upon incubation of Nalpha-acetyl-L-arginine with MG at 37 degrees C, two nonfluorescent products and one fluorescent product were detected as the major products. The nonfluorescent products were identified as the Ndelta-(5-hydro-5-methyl-4-imidazolon-2-yl)-L-ornithine derivatives (5-hydro-5-methylimidazolone) and a novel MG-arginine adduct having a tetrahydropyrimidine moiety (Ndelta-(4-carboxy-4,6-dimethyl-5, 6-dihydroxy-1,4,5,6-tetrahydropyrimidine-2-yl)-L-ornithine). On the basis of the following chemical and spectroscopic evidence, the major fluorescent product, putatively identified as Ndelta-(5-methylimidazolon-2-yl)-L-ornithine (5-methylimidazolone), was found to be identical to Ndelta-(5-hydroxy-4, 6-dimethylpyrimidine-2-yl)-L-ornithine (argpyrimidine): (i) the low and high resolution fast atom bombardment-mass spectrometry gave a molecular ion peak at m/z of 297 (M+H) and a molecular formula of C10H25O6N4, respectively, which coincided with argpyrimidine; (ii) the 1H NMR spectrum of this product in d6-Me2SO showed a singlet at 2.10 ppm corresponding to six protons; (iii) the peak corresponding to the 5-methylimidazolone derivative was not detected by the liquid chromatography-mass spectrometry with the mode of selected ion monitoring; (iv) incubation of 5-hydro-5-methylimidazolone, a putative precursor of 5-methylimidazolone, at 37 degrees C for 14 days scarcely generated 5-methylimidazolone. On the other hand, as an immunochemical approach to the detection of these MG adducts, we raised the monoclonal antibodies (mAb3C and mAb6B) directed to the MG-modified protein and found that they specifically recognized the major fluorescent product, argpyrimidine, as the dominant epitope. The immunohistochemical analysis of the kidneys from diabetic patients revealed the localization of argpyrimidine in intima and media of small artery walls. Furthermore, the accumulation of argpyrimidine was also observed in some arterial walls of the rat brain after middle cerebral artery occlusion followed by reperfusion. These results suggest that argpyrimidine may contribute to the progression of not only long term diabetic complications, such as nephropathy and atherosclerosis, but also the tissue injury caused by ischemia/reperfusion.
A multisubunit complex containing the SWI1/ADR6,SWI2/SNF2, SWI3, SNF5, and SNF6 gene products isolated fromyeast. (1994)

A complex containing the products of the SWI1/ADR6, SWI2/SNF2, SWI3, SNF5, and SNF6 genes and four additional polypeptides has been purified from extracts of the yeast Saccharomyces cerevisiae. Physical association of these proteins was demonstrated by copurification and coimmunoprecipitation. A potent DNA-dependent ATPase copurified with the complex, and this activity was evidently associated with SWI2/SNF2.
The Manifold Tangent Classifier (2011)

We combine three important ideas present in previous work for building classifiers: the semi-supervised hypothesis (the input distribution contains information about the classifier), the unsupervised manifold hypothesis (data density concentrates near low-dimensional manifolds), and the manifold hypothesis for classification (different classes correspond to disjoint manifolds separated by low density). We exploit a novel algorithm for capturing manifold structure (high-order contractive auto-encoders) and we show how it builds a topological atlas of charts, each chart being characterized by the principal singular vectors of the Jacobian of a representation mapping. This representation learning algorithm can be stacked to yield a deep architecture, and we combine it with a domain knowledge-free version of the TangentProp algorithm to encourage the classifier to be insensitive to local directions changes along the manifold. Record-breaking classification results are obtained. 1
Increased Mortality With Oral Platelet Glycoprotein IIb/IIIa Antagonists (2001)

Although we found a highly significant excess in mortality consistent across 4 trials with 3 different oral glycoprotein IIb/IIIa inhibitor agents, this was associated with a reduction in the need for urgent revascularization and no increase in myocardial infarction. These findings suggest the potential for a direct toxic effect with these agents and argue against a prothrombotic mechanism. Further investigation to elucidate the cause of this increased fatality risk is warranted.
Beyond the Metabolic Function of PTP1B (2004)

Protein tyrosine phosphatase 1B (PTP1B) has been implicated as a negative regulator of multiple signaling pathways downstream of receptor tyrosine kinases. Gene-targeting studies in mice have established PTP1B as a major target in diabetes and obesity. Initially, inhibition of this enzyme was thought to potentially lead to increased oncogenic signaling, but mice lacking PTP1B do not develop tumors. Our recent results show that loss of PTP1B can lead to decreased Ras signaling, despite enhanced signaling of other pathways. Here, we discuss how these findings implicate PTP1B as a positive and negative regulator of oncogenesis.
N-glycosylation heterogeneity and the influence on structure, function and pharmacokinetics of monoclonal antibodies and Fc fusion proteins (2016)

Monoclonal antibody and Fc fusion protein drugs are complex heterogeneous mixtures of numerous different protein variants and modifications. N-glycosylation as one of the most complex post-translational modification influences the structural characteristics of the antibodies Fc part thereby potentially modulating effector function and pharmacokinetics. Several investigations on the relationship between N-glycosylation and pharmacokinetics have been published. However, this structure-function relationship is not fully understood. In this review potential alterations with focus on N-glycosylation of mAbs and Fc fusion proteins and the possible effects on the pharmacokinetics are reviewed and the current understandings of the underlying mechanisms are described.
JEUX, PREUVES ET LOGIQUES (2005)

Résumé: La seconde moitié du vingtième siècle a vu renaître une tradition qui remonte à l&amp;apos;origine même de l&amp;apos;étude formelle du raisonnement correct, pour laquelle l&amp;apos;inférence doit se comprendre dans le cadre d&amp;apos;une interaction critique entre deux interlocuteurs d&amp;apos;un jeu de langage où ce qui est en jeu est la production d&amp;apos;une justification pour une certaine thèse, sous l&amp;apos;hypothèse de certaines concessions initiales. C&amp;apos;est cette tradition, celle de la logique dialogique, dont nous esquissons brièvement les notions fondamentales, ainsi que les rapports avec une autre approche importante: la logique linéaire.
Umsetzungen von Ketonen mit azavinylogen Säureamiden (1975)

Abstract Ketone mit α‐ständiger Methyl‐ oder Methylengruppe reagieren mit Monohydrazonen des Glyoxals in Gegenwart von basen zu den entsprechenden Hydrazonoäthyliden‐Derivaten ( 16 + 12. 13 oder 15 → 19 bzw. 17 ). aus diesen Verbindungen lassen sich durch Hydrolyse bzw. Reduktion 4‐Ketocarbonsäuren 22 , 4‐Ketoaldehyde 27 , Pyrrole 28, 29 oder N ‐Aminopyrrole 31, 35, 37 darstellen.
Isolation and Structure Elucidation of Rebaudioside D2 from Bioconversion Reaction of Rebaudioside A to Rebaudioside D (2014)

We report the isolation and complete structure of an isomer of rebaudioside D, known as rebaudioside D2. This novel steviol glycoside was isolated from a bioconversion reaction of rebaudioside A to rebaudioside D. Rebaudioside D2 possesses a relatively rare 1 --> 6 sugar linkage, which was discovered by extensive analysis of NMR (1H, 13C, COSY, HSQC-DEPT, HMBC, 1D TOCSY and NOESY) and mass spectral data.
Targeting tumor-necrosis factor receptor pathways for tumor immunotherapy (2014)

With the success of ipilimumab and promise of programmed death-1 pathway-targeted agents, the field of tumor immunotherapy is expanding rapidly. Newer targets for clinical development include select members of the tumor necrosis factor receptor (TNFR) family. Agonist antibodies to these co-stimulatory molecules target both T and B cells, modulating T-cell activation and enhancing immune responses. In vitro and in vivo preclinical data have provided the basis for continued development of 4-1BB, OX40, glucocorticoid-induced TNFR-related gene, herpes virus entry mediator, and CD27 as potential therapies for patients with cancer. In this review, we summarize the immune response to tumors, consider preclinical and early clinical data on select TNFR family members, discuss potential translational challenges and suggest possible combination therapies with the aim of inducing durable antitumor responses.
Oxidative Stress‐Mediated Skeletal Muscle Degeneration: Molecules, Mechanisms, and Therapies (2015)

Oxidative stress is a loss of balance between the production of reactive oxygen species during cellular metabolism and the mechanisms that clear these species to maintain cellular redox homeostasis. Increased oxidative stress has been associated with muscular dystrophy, and many studies have proposed mechanisms that bridge these two pathological conditions at the molecular level. In this review, the evidence indicating a causal role of oxidative stress in the pathogenesis of various muscular dystrophies is revisited. In particular, the mediation of cellular redox status in dystrophic muscle by NF-κB pathway, autophagy, telomere shortening, and epigenetic regulation are discussed. Lastly, the current stance of targeting these pathways using antioxidant therapies in preclinical and clinical trials is examined.
cDNA cloning and expression of the human NOBOX gene in oocytes and ovarian follicles (2006)

Nobox is a homeobox gene that is preferentially expressed in the oocytes and is essential for folliculogenesis and the regulation of oocyte-specific gene expression in the mouse. The likely human homologue has been identified in silico but has not as yet been confirmed experimentally. Here, we present the first cDNA cloning and transcript expression analysis of the human NOBOX gene. Using RT-PCR, we reveal that expression within adult human tissues is limited to the ovary, testis and pancreas. Expression within the ovary is oocyte specific, with expression observed from the primordial stage ovarian follicle through to the metaphase II (MII) oocyte. In complementary studies, we reveal dynamic expression profiles of 14 additional homeobox genes throughout human oogenesis and early development. The expression of HOXA10 is restricted to primordial and early primary follicles. HOXB7 is expressed from primordial and early primary stage follicles through to germinal vesicle (GV) oocytes. Gastrulation brain homeobox 1 (GBX1) and HOXA7 genes are homeobox markers preferentially expressed by GV oocytes. HOXA1 and HEX are homeobox markers preferentially expressed by MII oocytes. In summary, the homeobox gene transcripts that are detected in ovarian follicles and oocytes are distinct from those expressed in human blastocysts (HOXB4, CDX2 and HOXC9) and granulosa cells (HOXC9, HOXC8, HOXC6, HOXA7, HOXA5 and HOXA4).
Polymer Brushes via Surface-Initiated Controlled Radical Polymerization: Synthesis, Characterization, Properties, and Applications (2009)

ADVERTISEMENT RETURN TO ISSUEPREVReviewNEXTPolymer Brushes via Surface-Initiated Controlled Radical Polymerization: Synthesis, Characterization, Properties, and ApplicationsRaphael Barbey, Laurent Lavanant, Dusko Paripovic, Nicolas Schüwer, Caroline Sugnaux, Stefano Tugulu, and Harm-Anton Klok*View Author Information École Polytechnique Fédérale de Lausanne (EPFL), Institut des Matériaux, Laboratoire des Polymères, Bâtiment MXD, Station 12, CH-1015 Lausanne, Switzerland* To whom correspondence should be addressed. E-mail: [email protected]. Fax: +41 21 693 5650. Telephone: +41 21 693 4866.Cite this: Chem. Rev. 2009, 109, 11, 5437–5527Publication Date (Web):October 21, 2009Publication History Received5 February 2009Published online21 October 2009Published inissue 11 November 2009https://pubs.acs.org/doi/10.1021/cr900045ahttps://doi.org/10.1021/cr900045areview-articleACS PublicationsCopyright © 2009 American Chemical SocietyRequest reuse permissionsArticle Views39655Altmetric-Citations1562LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose SUBJECTS:Organic compounds,Polymer brushes,Polymers,Radical polymerization,Silicon Get e-Alerts
State-Trait Anger Expression Inventory (1988)

In 1872, Darwin (1965) observed that anger (rage) was a powerful emotion that motivated “animals of all kinds, and their progenitors before them, when attacked or threatened by an enemy, to fight and protect themselves” (p. 74). Anger is reflected in facial expressions (e.g., reddened face, clenched teeth), muscular tension, and accelerated heart rate, and it differs from rage “only in degree, and there is no marked distinction in their characteristics” (Darwin, 1965, p. 244).


Keywords:

anger;
aggression;
hostility;
STAXI;
emotion;
personality;
anger expression;
anger control
Improved Insulin Response and Action by Chronic Magnesium Administration in Aged NIDDM Subjects (1989)

In eight aged non-insulin-dependent diabetes mellitus (NIDDM) subjects, insulin response and action were studied before and after chronic magnesium supplementation (2 g/day) to diet. Chronic magnesium supplementation to diet versus placebo produced 1) a significant increase in plasma (0.83 +/- 0.05 vs. 0.78 +/- 0.06 mM, P less than .05) and erythrocyte (2.03 +/- 0.06 vs. 1.88 +/- 0.09 mM, P less than .01) magnesium levels, 2) an increase in acute insulin response (AIR) (4.0 +/- 0.6 vs. -1.6 +/- 0.6 mU/L, P less than .05) to glucose pulse, and 3) an increase in glucose infusion rate (GIR) (3.6 +/- 0.6 vs. 2.9 +/- 0.5 mg.kg-1.min-1, P less than .025) calculated in the last 60 min of a euglycemic-hyperinsulinemic (100 mU.m2.min-1 during 180 min) glucose clamp. Net increase in AIR, glucose disappearance rate after glucose pulse, and GIR were significantly and positively correlated to the net increase in erythrocyte magnesium content calculated after chronic magnesium supplementation to diet. In conclusion, our data suggest that NIDDM subjects may benefit from therapeutic chronic administration of magnesium salts.
Scanning detection of mutations in human ornithine transcarbamoylase by chemical mismatch cleavage. (1989)

The mutations in X chromosome-linked diseases are frequently heterogeneous, and yet only a small fraction can be detected by Southern analysis. We therefore adapted the chemical cleavage method of Cotton et al. [Cotton, R. G. H., Rodrigues, N. R. & Campbell, R. D. (1988) Proc. Natl. Acad. Sci. USA 85, 4397-4401] and the polymerase chain reaction to rapidly scan for point mutations in X chromosome-linked ornithine transcarbamoylase (carbamoyl-phosphate: L-ornithine carbamoyltransferase, EC 2.1.3.3.) deficiency. This simple heteroduplex mapping method identified different mismatch sites in polymerase chain reaction-amplified liver cDNA from five unrelated ornithine transcarbamoylase-deficient patients. The predicted sequence alteration was confirmed by DNA sequencing in all five patients and indicated a likely disease-causing mutation in four of these patients. In one atypical ornithine transcarbamoylase-deficient patient a sequence alteration compatible with a cDNA polymorphism was found. One family was studied in detail. Female-carrier detection was performed by chemical cleavage of amplified genomic DNA and verified by allele-specific oligonucleotide hybridization. This mutation scanning approach is simple, sensitive, and applicable to many genetic loci.
Enzymatically catalysed decarboxylation of β-carboxyaspartic acid (Asa) (1990)

A better synthetic route to β-carboxyaspartic acid (Asa) was achieved through condensation of sodium dibenzyl malonate and benzyl 2-bromoacetate as an alternative to two steps in the method of Koch etal. Catalytic hydrogenation at 5 atm pressure in a shaken stainless steel vessel removed protecting carbobenzyloxy groups. Asa was purified on a cation exchange column. An extract of E. coli was found to catalyse the decarboxylation of Asa in a doubly coupled assay designed to be specific for produced aspartic acid. Evidence for enzymatic decarboxylation includes complete loss of activity on boiling and progressive loss of activity on repeated freeze–thawing of the extract. Keywords: decarboxylation, β-carboxyaspartic acid, Asa decarboxylase.
Entanglement Sampling and Applications (2014)

A natural measure for the amount of quantum information that a physical system E holds about another system A = A <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> , .. . , A <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">n</sub> is given by the min-entropy H <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">min</sub> (A|E). In particular, the min-entropy measures the amount of entanglement between E and A, and is the relevant measure when analyzing a wide variety of problems ranging from randomness extraction in quantum cryptography, decoupling used in channel coding, to physical processes such as thermalization or the thermodynamic work cost (or gain) of erasing a quantum system. As such, it is a central question to determine the behavior of the minentropy after some process M. is applied to the system A. Here, we introduce a new generic tool relating the resulting min-entropy to the original one, and apply it to several settings of interest. A simple example of such a process is the one of sampling, where a subset S of the systems A <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> , ... , An is selected at random. Our tool allows us to quantify the entanglement that E has with the selected systems AS, i.e., H <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">min</sub> (A <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">S</sub> |ES) as a function of the original H <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">min</sub> (A|E). We give two applications of this result. First, it directly provides the first local quantum-to-classical randomness extractors for use in quantum cryptography, as well as decoupling operations acting on only a small fraction AS of the input A. Moreover, it gives lower bounds on the dimension of k-out-of-n fully quantum random access encodings. Another natural example of such a process is a measurement in, e.g., BB84 bases commonly used in quantum cryptography. We establish the first entropic uncertainty relations with quantum side information that are nontrivial whenever E is not maximally entangled with A. As a consequence, we are able to prove optimality of quantum cryptographic schemes in the noisy-storage model. This model allows for the secure implementation of two-party cryptographic primitives under the assumption that the adversary cannot store quantum information perfectly. A special case is the bounded-quantum-storage model (BQSM), which assumes that the adversary's quantum memory device is noise free but limited in size. Ever since the inception of the BQSM, it has been a vexing open question to determine whether the security is possible as long as the adversary can only.
Defining Core Vocabulary and Tracking Its Distribution across Spoken and Written Genres (2001)

L'A. presente une analyse statistique sur la distribution du vocabulaire de base en anglais entre les genres textuels ecrits et oraux afin de mettre en valeur certaines differences d'usage lexical. Il s'appuie sur l'analyse d'un corpus electronique : le British National Corpus (BNC). L'A. decrit la maniere dont a ete effectuee une mise en operation de vocabulaire de base et discute des resultats les plus interessants
ADP ribosylation factor is an essential protein in Saccharomyces cerevisiae and is encoded by two genes. (1990)

ADP ribosylation factor (ARF) is a ubiquitous 21-kDa GTP-binding protein in eucaryotes. ARF was first identified in animal cells as the protein factor required for the efficient ADP-ribosylation of the mammalian G protein Gs by cholera toxin in vitro. A gene (ARF1) encoding a protein homologous to mammalian ARF was recently cloned from Saccharomyces cerevisiae (Sewell and Kahn, Proc. Natl. Acad. Sci. USA, 85:4620-4624, 1988). We have found a second gene encoding ARF in S. cerevisiae, ARF2. The two ARF genes are within 28 centimorgans of each other on chromosome IV, and the proteins encoded by them are 96% identical. Disruption of ARF1 causes slow growth, cold sensitivity, and sensitivity to normally sublethal concentrations of fluoride ion in the medium. Disruption of ARF2 causes no detectable phenotype. Disruption of both genes is lethal; thus, ARF is essential for mitotic growth. The ARF1 and ARF2 proteins are functionally homologous, and the phenotypic differences between mutations in the two genes can be accounted for by the level of expression; ARF1 produces approximately 90% of total ARF. Among revertants of the fluoride sensitivity of an arf1 null mutation were ARF1-ARF2 fusion genes created by a gene conversion event in which the deleted ARF1 sequences were repaired by recombination with ARF2.
Epothilones: Mechanism of Action and Biologic Activity (2004)

Drugs that target microtubules are among the most commonly prescribed anticancer therapies. Although the mechanisms by which perturbation of microtubule function leads to selective death of cancer cells remain unclear, several new microtubule-targeting compounds are undergoing clinical testing. In part, these efforts focus on overcoming some of the problems associated with taxane-based therapies, including formulation and administration difficulties and susceptibility to resistance conferred by P-glycoprotein. Epothilones have emerged from these efforts as a promising new class of anticancer drugs. Preclinical studies indicate that epothilones bind to and stabilize microtubules in a manner similar but not identical to that of paclitaxel and that epothilones are effective in paclitaxel-resistant tumor models. Clinical phase I and early phase II data are available for BMS-247550, BMS-310705, EPO906, and KOS-862. The results suggest that these compounds have a broad range of antitumor activity at doses and schedules associated with tolerable side effects.