gebhart/patrepeval huggingface dataset:
The non-oxidative pentose phosphate pathway controls the fermentation rate of xylulose but not of xylose in TMB3001 (2002)

Saccharomyces cerevisiae is able to ferment xylose, when engineered with the enzymes xylose reductase (XYL1) and xylitol dehydrogenase (XYL2). However, xylose fermentation is one to two orders of magnitude slower than glucose fermentation. S. cerevisiae has been proposed to have an insufficient capacity of the non-oxidative pentose phosphate pathway (PPP) for rapid xylose fermentation. Strains overproducing the non-oxidative PPP enzymes ribulose 5-phosphate epimerase (EC 5.1.3.1), ribose 5-phosphate ketol isomerase (EC 5.3.1.6), transaldolase (EC 2.2.1.2) and transketolase (EC 2.2.1.1), as well as all four enzymes simultaneously, were compared with respect to xylose and xylulose fermentation with their xylose-fermenting predecessor S. cerevisiae TMB3001, expressing XYL1, XYL2 and only overexpressing XKS1 (xylulokinase). The level of overproduction in S. cerevisiae TMB3026, overproducing all four non-oxidative PPP enzymes, ranged between 4 and 23 times the level in TMB3001. Overproduction of the non-oxidative PPP enzymes did not influence the xylose fermentation rate in either batch cultures of 50 g l 31 xylose or chemostat cultures of 20 g l 31 glucose and 20 g l 31 xylose. The low specific growth rate on xylose was also unaffected. The results suggest that neither of the non-oxidative PPP enzymes has any significant control of the xylose fermentation rate in S. cerevisiae TMB3001. However, the specific growth rate on xylulose increased from 0.02^0.03 for TMB3001 to 0.12 for the strain overproducing only transaldolase (TAL1) and to 0.23 for TMB3026, suggesting that overproducing all four enzymes has a synergistic effect. TMB3026 consumed xylulose about two times faster than TMB30001 in batch culture of 50 g l 31 xylulose. The results indicate that growth on xylulose and the xylulose fermentation rate are partly controlled by the non-oxidative PPP, whereas control of the xylose fermentation rate is situated upstream of xylulokinase, in xylose transport, in xylose reductase, and/or in the xylitol dehydrogenase.
Hydroxyl Radical Formation during Ozonation of Multiwalled Carbon Nanotubes: Performance Optimization and Demonstration of a Reactive CNT Filter (2015)

We explored factors influencing hydroxyl radical (•OH) formation during ozonation of multiwalled carbon nanotubes (MWCNTs) and assessed this system's viability as a next-generation advanced oxidation process (AOP). Using standard reactivity metrics for ozone-based AOPs (RCT values), MWCNTs promoted •OH formation during ozonation to levels exceeding ozone (both alone and with activated carbon) and equivalent to ozone with hydrogen peroxide. MWCNTs oxidized with nitric acid exhibited vastly greater rates of ozone consumption and •OH formation relative to as-received MWCNTs. While some of this enhancement reflects their greater suspension stability, a strong correlation between RCT values and surface oxygen concentrations from X-ray photoelectron spectroscopy suggests that surface sites generated during MWCNT oxidation promote •OH exposure. Removal of several ozone-recalcitrant species [para-chlorobenzoic acid (p-CBA), atrazine, DEET, and ibuprofen] was not significantly inhibited in the presence of radical scavengers (humic acid, carbonate), in complex aquatic matrices (Iowa River water) and after 12 h of continuous exposure of MWCNTs to concentrated ozone solutions. As a proof-of-concept, oxidized MWCNTs deposited on a ceramic membrane chemically oxidized p-CBA in a flow through system, with removal increasing with influent ozone concentration and mass of deposited MWCNTs (in mg/cm2). This hybrid membrane platform, which integrates adsorption, oxidation, and filtration via an immobilized MWCNT layer, may serve as the basis for future novel nanomaterial-enabled technologies, although long-term performance trials under representative treatment scenarios remain necessary.
Online Optimization in Application Admission Control for Service Oriented Systems (2008)

In a service oriented environment an application is created through the composition of different service components. In this paper, we investigate the problem of application admission control in a service oriented environment. We propose an admission control system that makes admission decisions using an online optimization approach. The core part of the proposed system is an online optimization algorithm that solves a binary integer programming problem which we formulate in this paper. An online optimizer maximizes the system revenue given the system's available resources as well as the system's previous commitments. Another part of the proposed system carries out a feasibility evaluation that is intended to guarantee an agreed level of probability of success for each admitted application instance. We use simulations and performance comparisons to show that the proposed application admission control system can improve the system revenue while guaranteeing the required level of quality of service.
Obesity potentiates development of fatty liver and insulin resistance, but not atherosclerosis, in high-fat diet-fed agouti LDLR-deficient mice (2007)

Obesity is increasing at an alarming rate, and its related disorders are placing a considerable strain on our healthcare system. Although they are not always coincident, obesity is often accompanied by hyperlipidemia. Both obesity and hyperlipidemia are independently associated with atherosclerosis, nonalcoholic fatty liver disease (NAFLD), and insulin resistance (IR). Thus, we sought to determine the relative contributions of obesity and hyperlipidemia to these associated pathologies. Obese agouti (A(y)/a) mice and their littermate controls (a/a) were placed on an LDL receptor (LDLR)(-/-) background. At 4 mo of age, mice were either maintained on chow diet (CD) or placed on Western diet (WD) for 12 wk. These genetic and dietary manipulations yielded four experimental groups: 1) lean, a/a;LDLR(-/-)CD; 2) genetic-induced obesity (GIO), A(y)/a;LDLR(-/-)CD; 3) diet-induced obesity (DIO), a/a;LDLR(-/-)WD; and 4) genetic- plus diet-induced obesity (GIO/DIO), A(y)/a;LDLR(-/-)WD. Lipoprotein profiles revealed increased VLDL and LDL particles in WD-fed mice compared with CD-fed controls. The hyperlipidemia present in this mouse model was the result of both increased hepatic triglyceride production and delayed lipoprotein clearance from the plasma. Both WD-fed groups exhibited similar levels of atherosclerotic lesion area, with increased obesity in the GIO/DIO group having no impact on atherogenesis. However, the severe obesity in the GIO/DIO group did aggravate NAFLD and IR. These findings suggest that, although obesity and hyperlipidemia exert individual pathological effects, the combination of the two has the potential to exert an additive effect on NAFLD and IR but not atherosclerosis in this mouse model.
Fermentation characterization and flux analysis of recombinant strains of Clostridium acetobutylicum with an inactivated solR gene (2001)

The effect of solR inactivation on the metabolism of Clostridium acetobutylicum was examined using fermentation characterization and metabolic flux analysis. The solR-inactivated strain (SolRH) of this study had a higher rate of glucose utilization and produced higher solvent concentrations (by 25%, 14%, and 81%, respectively, for butanol, acetone, and ethanol) compared to the wild type. Strain SolRH(pTAAD), carrying a plasmid-encoded copy of the bifunctional alcohol/aldehyde dehydrogenase gene (aad) used in butanol production, produced even higher concentrations of solvents (by 21%, 45%, and 62%, respectively, for butanol, acetone, and ethanol) than strain SolRH. Clarithromycin used for strain SolRH maintenance during SolRH(pTAAD) fermentations did not alter product formation; however, tetracycline used for pTAAD maintenance resulted in 90% lower solvent production.
Expression of rat biliverdin reductase as a glutathione-S-transferase fusion protein (1995)

Conference Article| August 01 1995 Expression of rat biliverdin reductase as a glutathione-S-transferase fusion protein ORLA M. ENNIS; ORLA M. ENNIS 1Department of Biochemistry. Trinity College, Dublin 2 Search for other works by this author on: This Site PubMed Google Scholar TIM MANTLE TIM MANTLE 1Department of Biochemistry. Trinity College, Dublin 2 Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1995) 23 (3): 443S. https://doi.org/10.1042/bst023443s Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share MailTo Twitter LinkedIn Cite Icon Cite Get Permissions Citation ORLA M. ENNIS, TIM MANTLE; Expression of rat biliverdin reductase as a glutathione-S-transferase fusion protein. Biochem Soc Trans 1 August 1995; 23 (3): 443S. doi: https://doi.org/10.1042/bst023443s Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1995 Biochemical Society1995 Article PDF first page preview Close Modal You do not currently have access to this content.
Removal of Cation Interference in Paper Chromatography of Concentrated Wet-Process Phosphoric Acid. (1964)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTRemoval of Cation Interference in Paper Chromatography of Concentrated Wet-Process Phosphoric Acid.T. C. WoodisCite this: Anal. Chem. 1964, 36, 8, 1682–1683Publication Date (Print):July 1, 1964Publication History Published online1 May 2002Published inissue 1 July 1964https://pubs.acs.org/doi/10.1021/ac60214a065https://doi.org/10.1021/ac60214a065research-articleACS PublicationsRequest reuse permissionsArticle Views29Altmetric-Citations4LEARN 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
Intertwined development and formal verification of a 60/spl times/ bus model (1997)

We describe a project in which the IBM/Motorola 60/spl times/ bus protocol was incrementally modeled at an abstract level in Verilog and verified using Motorola's Verdict model checker. The primary purpose of the modeling activity was to acquaint verification personnel with details of the 60/spl times/ bus protocol and to document specific properties of the 60/spl times/ bus that are necessary to guarantee compliance with hand-written protocol documentation. Our Verilog 60/spl times/ bus model documents the 60/spl times/ bus protocol for other Motorola business units.
Claudins in lung diseases (2011)

Tight junctions are the most apically localized part of the epithelial junctional complex. They regulate the permeability and polarity of cell layers and create compartments in cell membranes. Claudins are structural molecules of tight junctions. There are 27 claudins known, and expression of different claudins is responsible for changes in the electrolyte and solute permeability in cells layers. Studies have shown that claudins and tight junctions also protect multicellular organisms from infections and that some infectious agents may use claudins as targets to invade and weaken the host's defense. In neoplastic diseases, claudin expression may be up- or downregulated. Since their expression is associated with specific tumor types or with specific locations of tumors to a certain degree, they can, in a restricted sense, also be used as tumor markers. However, the regulation of claudin expression is complex involving growth factors and integrins, protein kinases, proto-oncogens and transcription factors. In this review, the significance of claudins is discussed in lung disease and development.
Outbreak of Necrotizing Enterocolitis Associated with <i>Enterobacter sakazakii</i> in Powdered Milk Formula (2001)

We describe an outbreak of necrotizing enterocolitis (NEC) that occurred in the neonatal intensive care unit of our hospital. A total of 12 neonates developed NEC in June-July 1998. For two of them, twin brothers, the NEC turned out to be fatal. Enterobacter sakazakii, a known contaminant of powdered milk formula, was isolated from a stomach aspirate, anal swab, and/or blood sample for 6 of the 12 neonates. A review of feeding procedures revealed that 10 of the 12 patients were fed orally with the same brand of powdered milk formula. E. sakazakii was isolated from the implicated prepared formula milk as well as from several unopened cans of a single batch. Molecular typing by arbitrarily primed PCR (AP-PCR) confirmed, although partially, strain similarity between milk and patient isolates. No further cases of NEC were observed after the use of the contaminated milk formula was stopped. With this outbreak we show that intrinsic microbiological contamination of powdered milk formula can be a possible contributive factor in the development of NEC, a condition encountered almost exclusively in formula-fed premature infants. The use of sterilized liquid milk formula in neonatal care could prevent problems with intrinsic and extrinsic contamination of powdered milk formula.
ClearTK-TimeML: A minimalist approach to TempEval 2013 (2013)

The ClearTK-TimeML submission to TempEval 2013 competed in all English tasks: identifying events, identifying times, and identifying temporal relations. The system is a pipeline of machine-learning models, each with a small set of features from a simple morpho-syntactic annotation pipeline, and where temporal relations are only predicted for a small set of syntactic constructions and relation types. ClearTKTimeML ranked 1 st for temporal relation F1, time extent strict F1 and event tense accuracy.
Hydrogenation Reaction of Carboxylic Anhydrides Catalyzed by a New and Highly Active Cationic Ruthenium Complex (1991)

Abstract A ruthenium complex prepared from tris(acetylacetonato)ruthenium, triphenylphosphine, and a strong acid showed high activity and selectivity in hydrogenation reaction of carboxylic anhydride. The structure of the complex was assigned to be mer-HRu(PR3)3(S)2+, (S: solvent), which is more active than the neutral ruthenium complexes.
The Effect of Compressibility on the Stress Distributions in Thin Elastomeric Blocks and Annular Bushings (1992)

The effect of the bulk compressibility of elastomers on the response of rubber blocks and bushings bonded to platens is in vestigated. Closed-form solutions for the stresses and deformations within the elastomer are presented for the case of rigid adherends. It is shown that even with relatively small shape factors, the compressibility can significantly affect the apparent stiffness. A finite element analysis shows that the closed-form solution accurately predicts the stress distribution for rigid adherends, but also reveals that platen deformations in realistic systems may significantly alter the distributions.
The combination of resveratrol and CLA does not increase the delipidating effect of each molecule in 3T3-L1 adipocytes. (2012)

Lipolysis increase via ATGL is involved in the TG reduction induced by resveratrol and the combination of both molecules. The combination of these two molecules does not increase the efficacy of each molecule separately in mature adipocytes and thus it does not represent an advantage for obesity treatment or prevention.
Practical Knowledge and the Structure of Action (2012)

January , [T]he will is by nature active; cognitive phenomena, since they must bend to the condition of the world, may be described as passive in relation the world they represent.C MG e Character of Mind, p.  [F]rom what glimpses I have caught of it I gather that this so-called practical knowledge is as queer a bird as any that ever flew in Plato's famous aviary.Evasive as it is, I must try to lay hands on it though I doubt if it is a genuine bird at all.O.R. J 'ings Known Without Observation' , p.  Can it be that there is something that modern philosophy has blankly misunderstood: namely what ancient and medieval philosophers meant by practical knowledge?Certainly in modern philosophy we have an incorrigibly contemplative conception of knowledge.Knowledge must be something that is judged as such by being in accordance with the facts.e facts, reality, are prior, and dictate what is to be said, if it is knowledge.
The β-catenin/TCF4 pathway modifies alternative splicing through modulation of SRp20 expression (2008)

Gene expression programs can become activated in response to extracellular signals. One evolutionarily conserved example is binding of Wnt glycoproteins to their receptor, which triggers a signal transduction cascade that stabilizes cytoplasmic beta-catenin protein, allowing it to translocate into the nucleus. There, beta-catenin binds to TCF/Lef family transcription factors and promotes the expression of target genes. Mutations in either the beta-catenin gene itself or its partner protein APC are responsible for the oncogenic activation of this pathway in colorectal tumors. Here we report the splicing factor SRp20 as a novel target gene of beta-catenin/TCF4 signaling. Transfection of activated beta-catenin mutants into colorectal cells increased expression of endogenous SRp20 transcript and protein and also stimulated a luciferase reporter construct containing the SRp20 gene promoter. In contrast, inhibition of endogenous beta-catenin signaling by a dominant-negative TCF4 construct down-regulated both luciferase reporter and SRp20 expression. We further demonstrate that the beta-catenin/TCF4-mediated increase in SRp20 protein levels is sufficient to modulate alternative splicing decisions in the cells. In particular, we observed a change in the alternative splicing pattern in a control minigene reporter as well as in the endogenous SRp20-regulated CD44 cell adhesion protein. These results demonstrate that the beta-catenin/TCF4 pathway not only stimulates gene transcription, but also promotes the generation of transcript variants through alternative splicing. Our data support the recent notion that transcription and alternative splicing represent two different layers of gene expression and that signaling pathways act upon a coordinated network of transcripts in each layer.
Interaction of Cultured Mammalian Cells with WR-2721 and Its Thiol, WR-1065: Implications for Mechanisms of Radioprotection (1983)

An isothermal microcalorimeter was used to measure changes in heat flow when radioprotective drugs were added to cultured mammalian cells. The heat produced when WR-2721 was added continued for at least 90 min. WR-2721 was dephosphorylated by the cells to thiol (WR-1065) which oxidizes to disulphide. In the microcalorimeter, thiols give an immediate burst of heat due to this oxidation. A biological oxygen monitor revealed that WR-1065 and cysteamine rapidly consumed all the oxygen in culture medium. (10 mM WR-1065 deoxygenated medium in 2 min.) Rapid consumption of oxygen by radioprotective thiols indicates that they will not co-exist with oxygen for long in cells. This has two important implications with respect to mechanisms of radioprotection: (1) oxygen in tissues will be consumed rapidly and could result in local hypoxia; and, (2) at modest doses of protective agents the thiol will be consumed in oxic cells and hence very little will be available for reactions such as hydrogen donation. Our results indicate that anoxia is probably the principal mechanism of protection by aminothiols in mammals and aerated cells. This has major implications for clinical applications of radioprotectors and these are discussed.
Syntheses of Phosphonate Analogues of Dideoxyadenosine (DDA)-, Dideoxycytidine (DDC)-, Dideoxyinosine (DDI)-, and Deoxythymidine (DDT)-5′-Monophosphates (1992)

Abstract Phosphonate derivatives of ddA, ddC, ddI and ddT (5f, 5e, 5c, and 5a) were prepared by condensing the 5′-aldehydes with diphenyl triphenylphosphoranylidenemethylphosphonate, reducing the resultant olefins and hydrolyzing the phosphonate phenyl esters, sequentially, with base and then C. atrox phosphodiesterase.
Laparoscopic Hysterectomy (1989)

The first laparoscopic hysterectomy is described. Surgical techniques included aquadissection to develop appropriate tissue planes and bipolar electrosurgery to achieve hemostasis. The 38-year-old woman who elected to undergo this procedure had persistent pelvic pain secondary to pelvic adhesions from previous endometriosis surgery and hypermenorrhea due to uterine myomas. She was discharged on the fourth postoperative day and returned to full activity within 3 weeks. This case illustrates that hysterectomy can be accomplished using laparoscopy as the mode of access. In the future, titanium laparoscopic staples may replace bipolar electrosurgery for hemostasis. In selected patients, the laparoscopic approach to hysterectomy may avoid the increased morbidity associated with abdominal surgery while retaining the surgical advantages of the abdominal approach, i.e., thorough visualization and easy access to the vascular pedicles. (J GYNECOL SURG 5:213, 1989)
Italian<i>Citrus</i>Petitgrain Oils. Part I. Composition of Bitter Orange Petitgrain Oil (1996)

ABSTRACT The composition of bitter orange petitgrain oil was studied by HPLC-GC/MS (ITD) and GC/MS (quadrupole), and it was found that data obtained with the two methods were in good agreement. The LC-GC system allowed the LC separation of the oil into two fractions (hydrocarbon and oxygenated compounds), then the automated transfer in GC prior to the identification of the components. Bitter orange petitgrain oil showed a high content of oxygenated compounds which varied from 91% to 96%. Linalyl acetate, which represented more than 50% of the whole oil, and linalool, which ranged from 22% to 33%, were the main components. Limonene, (E)-β-ocimene, myrcene and β-pinene were the highest monoterpene hydrocarbons. Twelve sesquiterpene hydrocarbons were identified. β-Caryophyllene is the most representative of this fraction.
Large reflectivity modulation using InGaAs-GaAs (1990)

The first reflection modulator using electroabsorption in strained InGaAs-GaAs quantum wells is reported. With an insertion loss of 1.9 dB and a reflectivity change of 42% at room temperature, the modulator is comparable to the best devices reported in GaAs-Al-GaAs system. A framework is presented for examining the tradeoff between insertion loss and modulation ratio from a theoretical perspective and compare the predicted limits to reported devices.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>