gebhart/patrepeval huggingface dataset:
Cyclophosphamide metabolism in children. (1995)

The alkylating agent cyclophosphamide is a prodrug which is metabolized in vivo to produce both therapeutic and toxic effects. Cyclophosphamide metabolism was investigated in 36 children with various malignancies. Concentrations of cyclophosphamide and its principal metabolites were measured in plasma and urine using a quantitative high-performance TLC method. The results indicated a high degree of inter-patient variation in metabolism. In contrast to previous adult studies on urinary metabolites, plasma carboxyphosphamide concentrations did not support the existence of polymorphic metabolism. Plasma concentrations of dechlorethylcyclophosphamide and carboxyphosphamide were correlated in individual patients, suggesting that the activity of both aldehyde dehydrogenase and cytochrome P450 enzyme(s) determine carboxyphosphamide production in vivo. The presence of ketocyclophosphamide in plasma was strongly associated with dexamethasone pretreatment and was also accompanied by a high clearance of the parent drug. Interpatient differences in metabolism reflect individual levels of enzyme expression and may contribute to variation in clinical effect.
Brain Lactate Metabolism: The Discoveries and the Controversies (2011)

Potential roles for lactate in the energetics of brain activation have changed radically during the past three decades, shifting from waste product to supplemental fuel and signaling molecule. Current models for lactate transport and metabolism involving cellular responses to excitatory neurotransmission are highly debated, owing, in part, to discordant results obtained in different experimental systems and conditions. Major conclusions drawn from tabular data summarizing results obtained in many laboratories are as follows: Glutamate-stimulated glycolysis is not an inherent property of all astrocyte cultures. Synaptosomes from the adult brain and many preparations of cultured neurons have high capacities to increase glucose transport, glycolysis, and glucose-supported respiration, and pathway rates are stimulated by glutamate and compounds that enhance metabolic demand. Lactate accumulation in activated tissue is a minor fraction of glucose metabolized and does not reflect pathway fluxes. Brain activation in subjects with low plasma lactate causes outward, brain-to-blood lactate gradients, and lactate is quickly released in substantial amounts. Lactate utilization by the adult brain increases during lactate infusions and strenuous exercise that markedly increase blood lactate levels. Lactate can be an 'opportunistic', glucose-sparing substrate when present in high amounts, but most evidence supports glucose as the major fuel for normal, activated brain.
Teduglutide Promotes Epithelial Tight Junction Pore Function in Murine Short Bowel Syndrome to Alleviate Intestinal Insufficiency (2020)

In the SBS situation, Teduglutide not only maximizes small intestinal mucosal hypertrophy but also partially restores small intestinal epithelial function through an altered distribution of claudin-10, facilitating sodium recirculation for Na-coupled glucose transport and water absorption.
Photocyclization of styrylpyrazines. (1979)

Irradiation of several 2-(β-arylvinyl) pyrazines at room temperature using a high pressure mercury lamp afforded aza-phenanthrenes in moderate yields. The ring closure of 2-[β-(3-pyridyl) vinyl] pyrazine (IIIb) occurred only at the 4-position of the pyridine ring, whereas 2-[β-(2-naphthyl) vinyl] pyrazine (IIIe) cyclized at the 1-position of the naphthalene ring. 2, 5-Distyrylpyrazine (VIa) and 2, 5-bis [β-(2-pyridyl) vinyl] pyrazine (VIb) were also irradiated in refluxing benzene to give dibenzo [a, h] phenazine (XVI) and dipyrido [3, 2-α : 3´, 2´-h] phenazine (XVII), respectively.
Gravitation and Cosmology: Principles and Applications of the General Theory of Relativity (1972)

Preface. Notation. Copyright Acknowledgements. Part One Preliminaries. Part Two the General Theory of Relativity. Part Three Applications of Feneral Relativity. Part Four Formal Developments. Part Five Cosmology. Appendix. Some Useful Numbers. Index.
The<i>Photorhabdus</i>Pir toxins are similar to a developmentally regulated insect protein but show no juvenile hormone esterase activity (2005)

The genome of the insect pathogen Photorhabdus luminescens strain TT01 contains numerous genes predicting toxins and proteases. Within the P. luminescens TT01 genome, the products of two loci, plu 4093-plu 4092 and plu 4437-plu 4436, show oral insecticidal activity against both moth and mosquito larvae. The proteins encoded by these loci, here termed 'Photorhabdus insect related' (Pir) proteins A and B, show similarity both to delta-endotoxins from Bacillus thuringiensis (Bts) and a developmentally regulated protein from a beetle, Leptinotarsa decemlineata. The beetle protein has been inferred to possess juvenile hormone esterase (JHE) activity due to its developmentally regulated pattern of expression and the Photorhabdus proteins PirA and PirB have been proposed to be mimics of insect JHEs that can disrupt insect metamorphosis by metabolizing the insect growth regulator juvenile hormone (JH) [Nat. Biotechnol. 21 (2003) 1307-1313]. Here we confirm that, when injected together, PirA and PirB from two different Photorhabdus strains have insecticidal activity against caterpillars of the moth Galleria mellonella but show no oral activity against a second moth species Manduca sexta. Direct measurement of JHE activity, however, shows that the Pir proteins are not able to metabolise JH. These data show that the Pir proteins have no JHE activity, as suggested, but leave the mode of action of these interesting proteins uncertain.
Management of Nitrogen and Calcium in Pear Trees for Enhancement of Fruit Resistance to Postharvest Decay (1992)

Management of pear ( Pyrus communis L.) trees for low N and high Ca content in the fruit reduced the severity of postharvest fungal decay. Application of N fertilizer 3 weeks before harvest supplied N for tree reserves and for flowers the following spring without increasing fruit N. Calcium chloride sprays during the growing season increased fruit Ca content. Nitrogen and Ca management appear to be additive factors in decay reduction. Fruit density and position in the tree canopy influenced their response to N fertilization. Nitrogen: Ca ratios were lower in fruit from the east quadrant and bottom third of trees and from the distal portion of branches. High fruit density was associated with low N: Ca ratios. Nutritional manipulations appear to be compatible with other methods of postharvest decay control.
Performance enhancement of a Malware Detection System using score based prioritization of snort rules (2015)

Snort is an open source Intrusion Detection System (IDS) that uses a rule-based approach to detect different kinds of malware, online attacks, vulnerabilities, etc. The performance of a Malware Detection System (MDS) deployed in a large network depends on the nature and type of rules stored in its database. As the number and type of attacks are increasing, more number of rules are appended in the MDS database. This increase in the size of rule database itself becomes the bottleneck in the performance of the MDS. This paper proposes a rule scoring based mechanism for prioritizing the snort rules so as to optimize the number of rules in the MDS database. Only those rules are retained in the database whose total score is greater than the computed threshold value. The results show that the performance of MDS has enhanced remarkably.
ChemInform Abstract: Benzyl Protection of Phenols under Neutral Conditions: Palladium‐Catalyzed Benzylations of Phenols. (2008)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Ability of preventive therapy to cure latent <i>Mycobacterium tuberculosis</i> infection in HIV-infected individuals in high-burden settings (2014)

Trials of isoniazid preventive therapy (IPT) for people living with HIV in southern Africa have shown high rates of tuberculosis disease immediately after cessation of therapy. This could be due to the lack of cure following preventive therapy or reinfection with rapid progression to disease. Using a model fitted to trial data, we estimate the degree to which preventive therapies cure latent Mycobacterium tuberculosis infection in HIV-infected individuals in high-tuberculosis-burden settings. We identified randomized controlled trials that compared IPT to placebo or alternative regimen in HIV-positive, tuberculin skin test positive individuals. A mathematical model describing tuberculosis transmission in a closed cohort of HIV-positive, M. tuberculosis infected, antiretroviral therapy naive individuals following completion of preventive therapy (or placebo) was fitted to posttherapy tuberculosis rates to estimate the annual risk of M. tuberculosis reinfection and the proportion of individuals whose latent infection was cured after therapy. Three trials met our inclusion criteria. Estimated annual risks of reinfection ranged between 3.7 and 4.9%. Our results suggest 6 mo of isoniazid cured in a small proportion [estimated proportion cured = 0% (interquartile range 0-30.9%)]. The proportion cured for 3-mo regimens containing rifampicin or rifapentine was 19-100%. IPT alone does not cure existing infections in the majority of HIV-infected individuals. In high-incidence settings, continuous IPT should be integrated with HIV care. Where the risk of reinfection is lower, preventive therapy with more curative drugs should be preferred for HIV-positive individuals to achieve durable patient benefit.
Analysis of Bacterial Community Structure in the Natural Circulation System Wastewater Bioreactor by Using a 16S rRNA Gene Clone Library (2006)

A variety of physical and chemical parameters are routinely monitored during operation of the Natural Circulation System, a wastewater purification bioreactor in which only natural materials and no synthetic chemicals are used. However, the microbial community structures existing in the Natural Circulation System have not been well characterized. Thus, bacterial community structure and composition in this system were studied using clone library analysis of 16S ribosomal RNA genes amplified using PCR with universal bacterial primer sets. The PCR products were then subcloned into the pGEM-T vector. Each unique restriction fragment length polymorphism pattern, created by using two pairs of restriction endonucleases, was designated as an operational taxonomic unit (OTU). The Natural Circulation System comprises five tanks, the second and third of which play a major role in the bioreactor. Clone library pro-files and principal component analysis revealed differences in the bacterial community structures of the second (anaerobic chamber) and the third (aerobic chamber) tanks. However, the beta-proteobacteria, Bacteroidetes/ Chlorobi and gamma-proteobacteria groups were dominant in both tanks. Bacterial composition was more complex in the second tank (107 OTUs) than in the third tank (68 OTUs). Of a total of 154 OTUs in the clone libraries, only 21 were common to the two tanks. The results obtained in this study should provide important information for future research into and management of the Natural Circulation System wastewater bioreactor.
Mechanistic Studies to Understand the Progressive Development of Resistance in Human Immunodeficiency Virus Type 1 Reverse Transcriptase to Abacavir (2002)

Abacavir has been shown to select for multiple resistant mutations in the human immunodeficiency type 1 (HIV-1) pol gene. In an attempt to understand the molecular mechanism of resistance in response to abacavir, and nucleoside analogs in general, a set of reverse transcriptase mutants were studied to evaluate their kinetics of nucleotide incorporation and removal. It was found that, similar to the multidrug-resistant mutant reverse transcriptase (RT)(Q151M), the mutations L74V, M184V, and a triple mutant containing L74V/Y115F/M184V all caused increased selectivity for dGTP over the active metabolite of abacavir (carbovir triphosphate). However, the magnitude of resistance observed in cell culture to abacavir in previous studies was less than that observed to other compounds. Our mechanistic studies suggest that this may be due to carbovir triphosphate decreasing the overall effect on its efficiency of incorporation by forming strong hydrophobic interactions in the RT active site. Unlike RT(AZTR), no increase in the rate of ATP- or PP(i)-mediated chain terminator removal relative to RT(WT) could be detected for any of the mutants. However, marked decreases in the steady-state rate may serve as a mechanism for increased removal of a chain-terminating carbovir monophosphate by increasing the time spent at the primer terminus for some of the mutants studied. The triple mutant showed no advantage in selectivity over RT(M184V) and was severely impaired in its ability to remove a chain terminator, giving no kinetic basis for its increased resistance in a cellular system. Biochemical properties including percentage of active sites, fidelity, and processivity may suggest that the triple mutant's increased resistance to abacavir in cell culture is perhaps due to a fitness advantage, although further cellular studies are needed to verify this hypothesis. These data serve to further the understanding of how mutations in RT confer resistance to nucleoside analogs.
The ENZYME data bank in 1999 (1999)

The ENZYME data bank is a repository of information related to the nomenclature of enzymes. In recent years it has become an indispensable resource for the development of metabolic databases. The current version contains information on 3704 enzymes. It is available through the ExPASy WWW server (http://www.expasy.ch/).
Polydopamine Nanoparticles Modulating Stimuli-Responsive PNIPAM Hydrogels with Cell/Tissue Adhesiveness (2016)

Stimuli-responsive hydrogels can respond to stimuli by phase transformation or volume change and exhibit specific functions. Near-infrared (NIR)-responsive hydrogel is a type of stimuli-responsive hydrogel, which can be precisely controlled by altering the radiation intensity, exposure time of the light source, and irradiation sites. Here, polydopamine nanoparticles (PDA-NPs) were introduced into a poly(N-isopropylacrylamide) (PNIPAM) network to fabricate a PDA-NPs/PNIPAM hydrogel with NIR responsibility, self-healing ability, and cell/tissue adhesiveness. After incorporation of PDA-NPs into the hydrogel, the PDA-NPs/PNIPAM hydrogel showed phase transitions and volume changes in response to NIR. Thus, the hydrogel can achieve triple response effects, including pulsatile drug release, NIR-driven actuation, and NIR-assisted healing. After coating PDA-NPs onto hydrogel surfaces, the hydrogel showed improved cell affinity, good tissue adhesiveness, and growth factor/protein immobilization ability because of reactive catechol groups on PDA-NPs. The tissue adhesion strength to porcine skin was as high as 90 KPa. In vivo full-skin defect experiments demonstrated that PDA-NPs coating on the hydrogel and an immobilized growth factor had a synergistic effect on accelerating wound healing. In summary, we combined thermosensitive PNIPAM and mussel-inspired PDA-NPs to form a NIR-responsive hydrogel, which may have potential applications for chemical and physical therapies.
Organoboranes. 30. Convenient procedures for the synthesis of alkyl- and alkenylboronic acids and esters (1983)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTOrganoboranes. 30. Convenient procedures for the synthesis of alkyl- and alkenylboronic acids and estersHerbert C. Brown, N. G. Bhat, and Vishwanatha SomayajiCite this: Organometallics 1983, 2, 10, 1311–1316Publication Date (Print):October 1, 1983Publication History Published online1 May 2002Published inissue 1 October 1983https://pubs.acs.org/doi/10.1021/om50004a008https://doi.org/10.1021/om50004a008research-articleACS PublicationsRequest reuse permissionsArticle Views3363Altmetric-Citations118LEARN 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 Get e-Alerts
Contribution of the antibodies response induced by a low virulent <b><i>Candida albicans</i></b> strain in protection against systemic candidiasis (2004)

A low virulent Candida albicans mutant, CNC13, deleted in the Mitogen Activated Protein (MAP) kynase HOG1 was used to immunize BALB/c mice. Hog1p is essential for the oxidative stress and hyperosmolarity responses. Several doses and immunization procedures were employed. The protection capacity of the different sera generated was analyzed in a murine model of systemic candidiasis. Using a proteomic approach (two-dimensional gel electrophoresis followed by Western blotting), we were able to distinguish two categories of serum: protective and nonprotective, which showed different titres of total Immunoglobulins (Igs) and IgG2a (analyzed by enzyme-linked immunosorbent assay). The levels of Igs and IgG2a in protective sera were significantly higher compared to nonprotective sera. The pattern of a "nonprotective" profile was composed of enolase (Eno1p), transketolase, heat shock protein and methionine synthase. Only antibodies against enolase are the IgG2a isotype. The pattern of a "protective" sera, on the other hand, was composed of antibodies against the following antigens: several isoforms of Eno1p, pyruvate decarboxylase, pyruvate kynase, a protein of the 40S ribosomal subunit, triosephosphate isomerase, DL-glycerol phosphatase and fructose-bisphosphate aldolase. All these antibodies are the IgG2a isotype. The proteins described in the protective sera might be useful for future vaccine development.
A novel modeling algorithm for shape recovery of unknown topology (2002)

This paper presents a novel modeling algorithm that is capable of simultaneously recovering correct shape geometry as well as its unknown topology from arbitrarily complicated datasets. Our algorithm starts from a simple seed model (of genus zero) that can be arbitrarily initiated by users within any dataset. The deformable behavior of our model is governed by a locally defined objective function associated with each vertex of the model. Through the numerical computation of function optimization, our algorithm can adaptively subdivide the model geometry, automatically detect self-collision of the model, properly modify its topology (because of the occurrence of self-collision), continuously evolve the model towards the object boundary, and reduce fitting error and improve fitting quality via global subdivision. Commonly used mesh optimization techniques are employed throughout the geometric deformation and topological variation in order to ensure the model both locally smooth and globally well conditioned. We have applied our algorithm to various real/synthetic range data as well as volumetric image data in order to empirically verify and validate its usefulness. Based on our experiments, the new modeling algorithm proves to be very powerful and extremely valuable for shape recovery in computer vision, reverse engineering in computer graphics, and iso-surface extraction in visualization.
Novel Gammaherpesviruses in North American Domestic Cats, Bobcats, and Pumas: Identification, Prevalence, and Risk Factors (2014)

Gammaherpesviruses (GHVs) establish lifelong infection in many animal species and can cause cancer and other diseases in humans and animals. In this study, we identified the DNA sequences of three GHVs present in the blood of domestic cats (Felis catus), bobcats (Lynx rufus), and pumas (Puma concolor; also known as mountain lions, cougars, and panthers). We found that these viruses were closely related to, but distinct from, other known GHVs of animals and represent the first GHVs identified to be native to these feline species. We developed techniques to rapidly and specifically detect the DNA of these viruses in feline blood and found that the domestic cat and bobcat viruses were widespread across the United States. In contrast, puma virus was found only in a specific region of Southern California. Surprisingly, the bobcat virus was also detected in some pumas, suggesting relatively common virus transmission between these species. Adult domestic cats and bobcats were at greater risk for infection than juveniles. Male domestic cats were at greater risk for infection than females. This study identifies three new viruses that are widespread in three feline species, indicates risk factors for infection that may relate to the route of infection, and demonstrates cross-species transmission between bobcats and pumas. These newly identified viruses may have important effects on feline health and ecology.
Proteomics Identifies Golgi phosphoprotein 3 (GOLPH3) with A Link Between Golgi Structure, Cancer, DNA Damage and Protection from Cell Death (2017)

GOLPH3 is the first example of a Golgi resident oncogene protein. It was independently identified in multiple screens; first in proteomic-based screens as a resident protein of the Golgi apparatus, and second as an oncogene product in a screen for genes amplified in cancer. A third screen uncovered the association of GOLPH3 with the Golgi resident phospholipid, phosphatidyl inositol 4 phosphate (PI4P) to maintain the characteristic ribbon structure of the Golgi apparatus favoring vesicular transport of secretory proteins.
The Scope of Military Jurisdiction for Violations of International Humanitarian Law (2020)

Drafters of international humanitarian law (IHL) treaties clearly envisaged a role for military justice systems in the implementation and enforcement of these treaties. Nevertheless, the adequacy of military jurisdiction over violations of international law is being questioned in certain spheres. In the context of these debates this article considers the domestic rationale for military justice systems and explores the role and limits of military jurisdiction in combating impunity for violations of IHL. In focusing on the need to effectively repress and suppress all violations of IHL, the article addresses the extent to which some sort of military justice may be necessary for the effective enforcement of certain provisions. It also explores the way in which increased scrutiny of the impact of these justice systems on the rights of individuals has led to restrictions on the format and scope of military jurisdiction. Although there are difficulties in internationalising the discussion on military jurisdiction because of differences in domestic legal traditions, the choice of effective IHL enforcement mechanisms, which includes the choice of military or civilian jurisdiction, is key in combating impunity for violations of this body of law and protecting the rights of those involved.