gebhart/patrepeval huggingface dataset:
Combinatorial Electrostatic Collision-Induced Dissociative Chemical Cross-linking Reagents for Probing Protein Surface Topology (2010)

To ascertain more information on protein domain orientation and complex structure associations using chemical cross-linking, we have developed a combination of electrostatic collision-induced dissociative cross-linking reagents that differentially react with protein surfaces which are effectively analyzed by liquid chromatography-tandem mass spectrometry using ion trap multistage collision-induced dissociation. Implementing our original design and methodology based on disuccinimidyl-succinamyl-aspartyl-proline (SuDP) (Soderblom, E. J.; Goshe, M. B. Anal. Chem 2006, 78, 8059-8068. Soderblom, E. J.; Bobay, B. G.; Cavanagh, J.; Goshe, M. B. Rapid Commun Mass Spectrom 2007, 21, 3395-3408.), disuccinimidyl-succinamyl-valyl-proline (SuVP) was synthesized. The SuDP and SuVP reagents are the same except for the valyl and aspartyl groups which provide a distinctive chemical feature to each reagent. When performing labeling reactions using various protein-to-cross-linker ratios at pH 7.5, the negatively charged SuDP and neutral SuVP were used to label bovine serum albumin and hemoglobin. After protein digestion, the resulting peptides were analyzed using four different ion trap LC/MS(3) acquisition methods incorporating multistage CID. The more polar BSA surface resulted in a number of unique interpeptide and intrapeptide cross-links for each reagent whereas the less polarized surface of hemoglobin produced similar results for both reagents. Based on the identification of dead-end products (i.e., a cross-link modification containing a hydrolyzed end) for each protein, the aminolysis reactivity of each modified lysyl side chain revealed a preference for reacting with each reagent according to its local electrostatic surface environment. Overall, combinatorial application of SuDP and SuVP chemical labeling produces a set of unique interpeptide, intrapeptide, and dead-end cross-linked products that provides protein structural information according to its electrostatic surface topology which has the potential to be used to more comprehensively probe protein structure and dynamics.
Intramolecular Diels-Alder reactions. VII. Electroreduction of .alpha.,.beta.-unsaturated esters. I. Synthesis of rac-deoxypicropodophyllin by intramolecular Diels-Alder reaction plus trans addition of hydrogen (1971)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIntramolecular Diels-Alder reactions. VII. Electroreduction of .alpha.,.beta.-unsaturated esters. I. Synthesis of rac-deoxypicropodophyllin by intramolecular Diels-Alder reaction plus trans addition of hydrogenL. H. Klemm, D. R. Olson, and D. V. WhiteCite this: J. Org. Chem. 1971, 36, 24, 3740–3743Publication Date (Print):December 1, 1971Publication History Published online1 May 2002Published inissue 1 December 1971https://doi.org/10.1021/jo00823a017RIGHTS & PERMISSIONSArticle Views177Altmetric-Citations23LEARN 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 InReddit PDF (581 KB) Get e-Alerts Get e-Alerts
Computer-based interactive tutorial versus traditional lecture for teaching introductory aspects of pain (1997)

Pain is one of the most frequent complaints presenting to medical institutions. However, pain and its management continues to be marginalized in the content of health-care professional education due in part to the multi-disciplinary nature of the subject which makes it difficult to locate within the curriculum (Bonica, 1987; Liebeskind and Melzack, 1987; Marcer and Deighton, 1988; Pilowsky, 1988). Furthermore, the factual elements relating to pain often overlap with other parts of the curriculum, making it impossible to decide who should deliver the information, and how much time can be devoted within the limited time frame of normal health-care professional courses (Max, 1992). The International Association for the Study of Pain (IASP) core curriculum on pain education was developed to overcome some of these problems (Fields, 1995).DOI:10.1080/0968776970050303
THE COMPLETE AMINO ACID SEQUENCE OF THE PROTEIN OF TOBACCO MOSAIC VIRUS (1960)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.
Interstice mutations that block site-to-site translocation of a misactivated amino acid bound to a class I tRNA synthetase (2003)

Class I aminoacyl-tRNA synthetases catalyze editing reactions that prevent ambiguity from entering the genetic code. Misactivated amino acids are translocated in cis from the active site for aminoacylation to the center for editing, located approximately 30 A away. Mutational analysis has functionally separated the two sites by creating mutations that disrupt the catalytic center for editing but not for aminoacylation and vice versa. What is not known is whether translocation per se can be disrupted without an effect on either catalytic center. Here we describe mutations in a presumptive "hinge region" of isoleucyl-tRNA synthetase that is situated between the two sites. Interstice mutations had little or no effect on either catalytic center. In contrast, the same specific mutations disrupted translocation. Thus, with these mutations all three functions, translocation, catalysis of aminoacylation, and editing, have been mutationally separated. The results are consistent with translocation involving a hinge-region conformational shift that does not perturb the two catalytic centers.
Charles Wogan (1935)

Charles Wogan Get access Hugh A. Law Hugh A. Law 1Marble Hill, Ballymore, Lifford, Co. Donegal Search for other works by this author on: Oxford Academic Google Scholar Notes and Queries, Volume CLXVIII, Issue apr06, 6 April 1935, Pages 243–244, https://doi.org/10.1093/nq/CLXVIII.apr06.243b Published: 06 April 1935
Catalytic oxidation of 4,4'-Dibromobiphenyl in sub-critical water with Mn-Co-Ce complex oxides (2011)

Mn <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> Ce <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> and Mn <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.9</sub> Co <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.1</sub> Ce <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> complex oxides were prepared by co-precipitation in hydrothermal conditions and their physicochemical properties were characterized with N <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> adsorption, XRD, Raman, and SEM. The complex oxides show enough stability and catalytic activity for oxidative degradation of 4,4'-Dibromobiphenyl in sub-critical water. Mn <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.9</sub> Co <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.1</sub> Ce <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> has higher activity than Mn <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> Ce <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> , indicating doping of Co to Mn-Ce-O complex can improve the catalytic activity.
Timeliness in Mesosynchronous Real-Time Distributed Systems. (2004)

Traditional real-time computing concepts and techniques are focused on static, synchronous, relatively small-scale, mostly centralized, device-level subsystems. Many real-time systems, particularly distributed ones, are relatively largescale, above the device level, and at least partially dynamic and asynchronous. We call such systems “mesosynchronous.” For example, mesosynchronous systems often are found in military surveillance and force projection platforms, and in network-centric warfare (plus civilian domains). Hence the lives of both friends and foes depend on the timeliness properties of such systems being dependably acceptable according to applicationand situation-specific criteria. The real-time research community has historically failed to perceive and appreciate this – admittedly difficult and domainknowledge intensive – problem, especially for end-to-end timeliness in distributed mesosynchronous real-time systems.
Acute exacerbations of asthma: epidemiology, biology and the exacerbation‐prone phenotype (2009)

Asthma is a highly prevalent chronic respiratory disease affecting 300 million people world-wide. A significant fraction of the cost and morbidity of asthma derives from acute care for asthma exacerbations. In the United States alone, there are approximately 15 million outpatient visits, 2 million emergency room visits, and 500,000 hospitalizations each year for management of acute asthma. Common respiratory viruses, especially rhinoviruses, cause the majority of exacerbations in children and adults. Infection of airway epithelial cells with rhinovirus causes the release of pro-inflammatory cytokines and chemokines, as well as recruitment of inflammatory cells, particularly neutrophils, lymphocytes, and eosinophils. The host response to viral infection is likely to influence susceptibility to asthma exacerbation. Having had at least one exacerbation is an important risk factor for recurrent exacerbations suggesting an 'exacerbation-prone' subset of asthmatics. Factors underlying the 'exacerbation-prone' phenotype are incompletely understood but include extrinsic factors: cigarette smoking, medication non-compliance, psychosocial factors, and co-morbidities such as gastroesophageal reflux disease, rhinosinusitis, obesity, and intolerance to non-steroidal anti-inflammatory medications; as well as intrinsic factors such as deficient epithelial cell production of the anti-viral type I interferons (IFN-alpha and IFN-beta). A better understanding of the biologic mechanisms of host susceptibility to recurrent exacerbations will be important for developing more effective preventions and treatments aimed at reducing the significant cost and morbidity associated with this important global health problem.
Preparation of elastomeric polypropylene using metallocene catalysts: Catalyst design criteria and mechanisms for propagation (1995)

Abstract A series of unsymmetrical metallocene catalysts were prepared and used to polymerize propylene under a variety of conditions using methylaluminoxane as a cocatalyst. Zirconium and hafnium‐based catalysts were more active and more importantly, much more stable at conventional polymerization temperatures than titanium catalysts. By adjusting experimental conditions, it is possible to vary both the molecular weight of the polymer and also the degree of crystallinity. These properties significantly impact on the tensile properties of elastomeric poly(propylene) (ELPP) in a predictable manner. The microstructure of ELPP was characterized by 13 C NMR spectroscopy and the pentad distributions were analyzed using several statistical models for propagation. This work has demonstrated that the microstructure of ELPP is probably not that of an isotactic‐atactic block copolymer.
Phase separation in biology; functional organization of a higher order (2016)

Inside eukaryotic cells, macromolecules are partitioned into membrane-bounded compartments and, within these, some are further organized into non-membrane-bounded structures termed membrane-less organelles. The latter structures are comprised of heterogeneous mixtures of proteins and nucleic acids and assemble through a phase separation phenomenon similar to polymer condensation. Membrane-less organelles are dynamic structures maintained through multivalent interactions that mediate diverse biological processes, many involved in RNA metabolism. They rapidly exchange components with the cellular milieu and their properties are readily altered in response to environmental cues, often implicating membrane-less organelles in responses to stress signaling. In this review, we discuss: (1) the functional roles of membrane-less organelles, (2) unifying structural and mechanistic principles that underlie their assembly and disassembly, and (3) established and emerging methods used in structural investigations of membrane-less organelles.
First Synthesis of 5,6,7,8-Tetrahydro-8-deaza-8-thiafolic Acid. (1992)

5, 6, 7, 8-Tetrahydro-8-deaza-8-thiafolic acid (3) was synthesized as a diastereoisomeric mixture via thermal condensation of 5-hydroxyisocytosine (6) with diethyl N-[p-(2-amino-3-mercaptopropyl)aminobenzoyl]glutamate (10)after activation of the C(6)-position in 6 with N-bromosuccinimide/ethanol. The corresponding N5, N10-methylene derivative (5) was also prepared upon treatment of 3 with formaldehyde.
Notes on the Theory of Aggression (1947)

(1947). Notes on the Theory of Aggression. The Psychoanalytic Study of the Child: Vol. 3, No. 1, pp. 9-36.
Hybrid navigation system for long range operation (2002)

Describes a navigation system that allows long range navigation by combining two distinct modes: local positioning with respect to a long baseline array of known localization (reference points) and autonomous mode in-between reference points, relying only on sonar/Doppler and depth information. The areas of transponder-based navigation are defined by the maximum range of transponder operation. In both modes, a Kalman based design approach was chosen, using, when necessary, the available position estimates to characterize the errors associated with the filter inputs. The authors present simulation results that illustrate the system's behavior for a typical maneuvering operation.
A phase I pharmacological and pharmacodynamic study of MK-1775, a Wee1 tyrosine kinase inhibitor, in monotherapy and combination with gemcitabine, cisplatin, or carboplatin in patients with advanced solid tumors. (2010)

3067 Background: MK-1775 (MK) is an inhibitor of the Wee1 kinase regulating the G2 checkpoint leading to chemo-sensitization in p53 deficient tumor cells. Down-regulation of pCDC2 upon treatment with MK and chemotherapy serves as biomarker in this study. Methods: Evaluation of safety, tolerability, pharmacokinetics (PK), and pharmacodynamics (PD) of MK administered PO as monotherapy and combination with gemcitabine (G), cisplatin (P), or carboplatin (C). Part 1 is a single dose of MK followed by 1 of 3 treatment arms in PART 2A: single MK dose in combination with: 1) 1,000 mg/m2 G, 2) 75 mg/m2 P, or 3) C AUC 5. In Part 2B, 5BID doses of MK are explored in the same 3 arms. Part 3 is a cohort expansion to confirm maximum tolerated dose (MTD). PD biomarkers include pCDC2 and Wee1 signature. Results: To date, 91 pts (41 in monotherapy, 50 in combination therapy) were treated with MK. No DLTs were observed in monotherapy; 7 (single dose) and 13 pts (multiple dose) experienced DLTs in combination therapy. Most common AEs are hematological, nausea/vomiting, fatigue. PK was linear from 25 to 1,300 mg MK. MTDs of MK in combination with G, C, P as a single dose and as multiple dose in combination with G were identified; dose finding with C and P is ongoing. Marker responses were observed in 3 melanoma, 1 pancreatic, and 3 ovarian cancer pts. 50% reduction of pCDC2 in mono and combination therapy and significant changes in Wee1 signature in monotherapy substantiate target engagement. Conclusions: MK is a first-in-class Wee1 inhibitor that is well tolerated in monotherapy and in combination with chemotherapy; it shows strong target engagement along with clinical and biomarker responses in previously treated pts. MK+G single dose MK+P single dose MK+C single dose MK+G multiple dose MK+P multiple dose MK+C multiple dose N 14 13 16 21 13 16 MTD 200 mg 200 mg 325 mg 50/25 mg* 125 mg** 225 mg** PR (%) 0 (0) 1 0 0 2 0 SD (%) 4 (28.6) 4 (30.8) 3 (18.8) 6 (28.6) 1 (7.7) 2 (12.5) Target engagement Y Y Y marginal Y Y Related AEs≥grade 3 (%) 5 (35.7) 4 (30.8) 1 (6.3) 12 (57.1) 4 (30.8) 6 (37.5) * 50 BID day 1, 25 mg BID day 2, 25 mg QD day 3. ** Tolerable, escalation ongoing at next dose level. Author Disclosure Employment or Leadership Position Consultant or Advisory Role Stock Ownership Honoraria Research Funding Expert Testimony Other Remuneration Merck Merck Merck
Validation of a gas-chromatographic method for the determination of milk fat contents in mixed fats by butyric acid analysis (2000)

Gas-chromatographic analysis of butyric acid (C4) in mixed spreadable fats can be used to calculate the milk fat proportion, either by additional analysis of the underlying pure milk fat (component sample) or by using a mean C4 content instead. After comparison of several analytical variants and subsequent development of an improved draft standard for quantitation of milk fat in mixed fats, this draft was checked for accuracy in three EU-wide ring tests performed with 26 participating laboratories. Due to the natural variation of the butyric acid content in European milk fats, deviations from the actual milk fat content may amount up to ± 10% in addition to analytical errors when calculating with a mean C4 content instead of the C4 content of a component sample. Though the reproducibility could be improved by application of correction factors derived from a reference fat, only the calculation based on the additional analysis of a component sample of the pure milk fat led to an acceptable accuracy concerning the trueness of the results in combination with good repeatability (r) and reproducibility (R). Finally, several further improvements of the draft standard led to a precision of r = 4.3% and R = 6.0% relative to the mean of two milk fat contents determined. Thus, the tested procedure proved its suitability for a control method of the declared milk fat content in mixed fat spreads.
In Vitro Resistance to Thrombin-Induced Platelet Microbicidal Protein Is Associated with Enhanced Progression and Hematogenous Dissemination in Experimental <i>Staphylococcus aureus</i> Infective Endocarditis (1998)

We examined the influence of thrombin-induced platelet microbicidal protein 1 (tPMP-1) on the progression and hematogenous dissemination of experimental endocarditis caused by isogenic Staphylococcus aureus strains differing in tPMP susceptibility (tPMPs) or resistance (tPMPr) in vitro. Following simultaneous challenge of animals with both strains, significantly higher tPMPr bacterial densities were present in vegetations (P < 0.0001), kidneys (P < 0. 0001), and spleens (P < 0.0001) compared with those for the tPMPs strain. These data indicate that tPMP-1 limits the intravegetation proliferation and hematogenous dissemination of a tPMPs strain in experimental endocarditis, while the tPMPr phenotype confers a selective advantage associated with the enhanced progression of this infection.
Respiratory sound classification using cepstral features and support vector machine (2013)

Respiratory sound analysis provides vital information of the present condition of the Lungs. It can be used to assist medical professionals in differential diagnosis. In this paper, we intend to distinguish between normal (without any pathological condition), airway obstruction pathology and parenchymal pathology using respiratory sound recordings taken from RALE database. The proposed method uses Mel-frequency cepstral coefficients (MFCC) as features extracted from respiratory sounds. The extracted features are distinguished using support vector machine classifier (SVM). The classifier performance is analysed by using confusion matrix technique. A mean classification accuracy of 90.77% was reported using the proposed method. The performance analysis of the SVM classifier using confusion matrix revealed that normal, airway obstruction and parenchymal pathology are classified at 94.11%, 92.31% and 88.00% classification accuracy respectively. The analysis reveals that the proposed method shows promising outcome in distinguishing between the normal, airway obstruction and parenchymal pathology.
CA 15-3 (Mucin-1) and Physiological Characteristics of Breast Cancer from Lahore, Pakistan (2012)

There are multiple physiological factors promoting breast cancer. High serum CA 15-3 level and hormonal imbalance of ER, PR and Her2/neu appears to be the main cause of breast cancer. It may be possible that the functional sites of these proteins may be altered which may increase the chances of metastasis in breast cancer.
Jalvaani 3 (4) (2001)

Innovative initiative : promoting healthy competition - villages in Maharashtra compete to be the cleanest in the state. Editorial; by Anil Kumar. News briefs : from shared vision to action; workshop on fluoride in drinking water. States : Andhra Pradesh launches pilots for preparing reforms in four districts. Seeing is believing - sharing the Swajal experience through study tours. Funding agencies : World Bank - quenching Kerala's thirst - a community-based rural water supply and sanitation project. Technology : making drinking water safe - user-friendly methods to deal with the scourge of fluorosis. Interview : the concept of capital contribution is not new in Kerala; by Shrimati K. Devaki.
Structure of a Neutralizing Antibody Bound Monovalently to Human Rhinovirus 2 (1998)

The structure of a complex between human rhinovirus 2 (HRV2) and the Fab fragment of neutralizing monoclonal antibody (MAb) 3B10 has been determined to 25-A resolution by cryoelectron microscopy and three-dimensional reconstruction techniques. The footprint of 3B10 on HRV2 is very similar to that of neutralizing MAb 8F5, which binds bivalently across the icosahedral twofold axis. However, the 3B10 Fab fragment (Fab-3B10) is bound in an orientation, inclined at approximately 45 degrees to the surface of the virus capsid, which is compatible only with monovalent binding of the antibody. The canyon around the fivefold axis is not directly obstructed by the bound Fab. The X-ray structures of a closely related HRV (HRV1A) and a Fab fragment were fitted to the density maps of the HRV2-Fab-3B10 complex obtained by cryoelectron microscope techniques. The footprint of 3B10 on the viral surface is largely on VP2 but also covers the VP3 loop centered on residue 3064 and the VP1 loop centered on residue 1267. MAb 3B10 can interact directly with VP2 residue 2164, the site of an escape mutation on VP2, and with VP1 residues 1264 to 1267, the site of a deletion escape mutation. Deletion of these residues shortens the VP1 loop, moving it away from the MAb binding site. All structural and biochemical evidence indicates that MAb 3B10 binds to a conformation epitope on HRV2.