gebhart/patrepeval huggingface dataset:
Production of eicosapentaenoic acid by a recombinant marine cyanobacterium, <i>Synechococcus</i> sp. (2000)

The eicosapentaenoic acid (EPA) synthesis gene cluster from an EPA-producing bacterium, Shewanella sp. SCRC-2738, was cloned into a broad-host range vector, pJRD215, and then introduced into a marine cyanobacterium, Synechococcus sp. NKBG15041c, by conjugation. The transconjugant cyanobacteria produced 3.7 +/- 0.2% (2.24 +/- 0.13 mg/L) EPA (n-3) and 2.5 +/- 0.2% (1.49 +/- 0.06 mg/L) eicosatetraenoic acid (n-3) of the total fatty acids when the cells were cultured at 23 degrees C at a light intensity of 1,000-1,500 Lux. The EPA and eico-satetraenoic acid contents of the cells were increased to 4.6 +/- 0.6% (3.86 +/- 1.11 mg/L) and 4.7 +/- 0.3% (3.86 +/- 0.82 mg/L), and 7.5 +/- 0.3% (1.76 +/- 0.10 mg/L) and 5.1 +/- 0.2% (1.19 +/- 0.06 mg/L) when they were cultured at low temperature (18 degrees C) and at lower light intensity (40 Lux), respectively.
Wild-type p53 protein undergoes cytoplasmic sequestration in undifferentiated neuroblastomas but not in differentiated tumors. (1995)

Neuroblastoma (NB), a tumor arising from the sympathetic nervous system, is one of the most common malignancies in childhood. Several recent reports on the p53 genotype found virtually exclusive wild-type status in primary tumors, and it was postulated that p53 plays no role in the development of NB. Here, however, we report that the vast majority of undifferentiated NBs exhibit abnormal cytoplasmic sequestration of wild-type p53. This inability of p53 to translocate to the nucleus presumably prevents the protein from functioning as a suppressor. Thirty of 31 cases (96%) of undifferentiated NB showed elevated levels of wild-type p53 in the cytoplasm of all tumor cells concomittant with a lack of nuclear staining. p53 immunoprecipitation from tumor tissues showed a 4.5- to 8-fold increase over normal protein levels. All of 10 tumors analyzed harbored wild-type p53 by direct sequencing of full-length cDNA and Southern blot. In addition, no MDM-2 gene amplification was seen in all 11 tumors analyzed. In contrast, no p53 abnormality was detected in 14 differentiated ganglioneuroblastomas and 1 benign ganglioneuroma. We conclude that loss of p53 function seems to play a major role in the tumorigenesis of undifferentiated NB. This tumor might abrogate the transactivating function of p53 by inhibiting its access to the nucleus, rather than by gene mutation. Importantly, our results suggest that (i) this could be a general mechanism for p53 inactivation not limited to breast cancer (where we first described it) and that (ii) it is found in a tumor previously not thought to be affected by p53 alteration.
Modification of surface charges of soy protein by phospholipids (1985)

Abstract Lecithin is used to prevent soy protein isolates from clumping in food processing. A PenKem Inc. System 3000 Electrokinetic Analyzer was used to investigate how the phospholipid modified the surface charge of soy protein. Electrophoretic mobility‐pH curves showed that a commercial soy lecithin lowered the isoelectric point (pI) and increased the electrical mobility of soy protein more than did a pure phosphatidylcholine. The modification of the surface charge of the protein was a function of the phospholipid added. Lecithinated soy isolate was more negatively charged and thus more dispersible in water than the nonlecithinated soy control.
Cold Air Plasma To Decontaminate Inanimate Surfaces of the Hospital Environment (2014)

The hospital environment harbors bacteria that may cause health care-associated infections. Microorganisms, such as multiresistant bacteria, can spread around the patient's inanimate environment. Some recently introduced biodecontamination approaches in hospitals have significant limitations due to the toxic nature of the gases and the length of time required for aeration. This study evaluated the in vitro use of cold air plasma as an efficient alternative to traditional methods of biodecontamination of hospital surfaces. Cultures of methicillin-resistant Staphylococcus aureus (MRSA), vancomycin-resistant enterococci (VRE), extended-spectrum-β-lactamase (ESBL)-producing Escherichia coli, and Acinetobacter baumannii were applied to different materials similar to those found in the hospital environment. Artificially contaminated sections of marmoleum, mattress, polypropylene, powder-coated mild steel, and stainless steel were then exposed to a cold air pressure plasma single jet for 30 s, 60 s, and 90 s, operating at approximately 25 W and 12 liters/min flow rate. Direct plasma exposure successfully reduced the bacterial load by log 3 for MRSA, log 2.7 for VRE, log 2 for ESBL-producing E. coli, and log 1.7 for A. baumannii. The present report confirms the efficient antibacterial activity of a cold air plasma single-jet plume on nosocomial bacterially contaminated surfaces over a short period of time and highlights its potential for routine biodecontamination in the clinical environment.
The effect of pH dependence of antibody-antigen interactions on subcellular trafficking dynamics (2013)

A drawback of targeting soluble antigens such as cytokines or toxins with long-lived antibodies is that such antibodies can prolong the half-life of the target antigen by a "buffering" effect. This has motivated the design of antibodies that bind to target with higher affinity at near neutral pH relative to acidic endosomal pH (~pH 6.0). Such antibodies are expected to release antigen within endosomes following uptake into cells, whereas antibody will be recycled and exocytosed in FcRn-expressing cells. To understand how the pH dependence of antibody-antigen interactions affects intracellular trafficking, we generated three antibodies that bind IL-6 with different pH dependencies in the range pH 6.0-7.4. The behavior of antigen in the presence of these antibodies has been characterized using a combination of fixed and live cell fluorescence microscopy. As the affinity of the antibody:IL-6 interaction at pH 6.0 decreases, an increasing amount of antigen dissociates from FcRn-bound antibody in early and late endosomes, and then enters lysosomes. Segregation of antibody and FcRn from endosomes in tubulovesicular transport carriers (TCs) into the recycling pathway can also be observed in live cells, and the extent of IL-6 association with TCs correlates with increasing affinity of the antibody:IL-6 interaction at acidic pH. These analyses result in an understanding, in spatiotemporal terms, of the effect of pH dependence of antibody-antigen interactions on subcellular trafficking and inform the design of antibodies with optimized binding properties for antigen elimination.
<i>Arthrobacter</i> Strain VAI-A Utilizes Acyl-Homoserine Lactone Inactivation Products and Stimulates Quorum Signal Biodegradation by <i>Variovorax paradoxus</i> (2003)

Many Proteobacteria produce acyl-homoserine lactones (acyl-HSLs) and employ them as dedicated cell-to-cell signals in a process known as quorum sensing. Previously, Variovorax paradoxus VAI-C was shown to utilize diverse acyl-HSLs as sole sources of energy and nitrogen. We describe here the properties of a second isolate, Arthrobacter strain VAI-A, obtained from the same enrichment culture that yielded V. paradoxus VAI-C. Although strain VAI-A grew rapidly and exponentially on a number of substrates, it grew only slowly and aberrantly (i.e., linearly) in media amended with oxohexanoyl-HSL as the sole energy source. Increasing the culture pH markedly improved the growth rate in media containing this substrate but did not abolish the aberrant kinetics. The observed growth was remarkably similar to the known kinetics of the pH-influenced half-life of acyl-HSLs, which decay chemically to yield the corresponding acyl-homoserines. Strain VAI-A grew rapidly and exponentially when provided with an acyl-homoserine as the sole energy or nitrogen source. The isolate was also able to utilize HSL as a sole source of nitrogen but not as energy for growth. V. paradoxus, known to release HSL as a product of quorum signal degradation, was examined for the ability to support the growth of Arthrobacter strain VAI-A in defined cocultures. It did. Moreover, the acyl-HSL-dependent growth rate and yield of the coculture were dramatically superior to those of the monocultures. This suggested that the original coenrichment of these two organisms from the same soil sample was not coincidental and that consortia may play a role in quorum signal turnover and mineralization. The fact that Arthrobacter strain VAI-A utilizes the two known nitrogenous degradation products of acyl-HSLs, acyl-homoserine and HSL, begins to explain why none of the three compounds are known to accumulate in the environment.
Flame Retardance and Physical Properties of Novel Cured Blends of Unsaturated Polyester and Furan Resins (2015)

Novel blends of two furan resins with an unsaturated polyester have been prepared and cured by parallel free radical (for the unsaturated polyester) and acid-catalysed crosslinking (for the furan resin) to give co-cured composite materials. Although these materials have inferior physical properties, such as low Tg and low storage modulus compared with those of unsaturated polyester and furan resins alone, they show markedly improved flame retardance compared with that of the normally highly flammable unsaturated polyester. This increased flame retardance arises from a condensed phase mechanism in which the furanic component forms a semi-protective char, reducing rates of thermal degradation and total heat release and heat of combustion. The blends also burn with reduced smoke output compared with that from unsaturated polyester alone.
A Correlation Between Dynamic Cone Penetrometer Values and Pavement Layer Moduli (2005)

Abstract The Dynamic Cone Penetrometer (DCP) is one of the least expensive testing devices able to characterize base and subgrade properties. To fully use the DCP in pavement evaluation, an empirical relationship between DCP penetration rate and layer modulus is required. However, the literature on this correlation is limited. This study incorporates a total of 198 DCP and Falling Weight Deflectometer (FWD) tests done over 8 years on various types of highways (Interstate Highway, US, and Farm-to-Market). The computer program MODULUS was employed to backcalculate the layer moduli from the FWD results to build a correlation with DCP results. A comparison was made with the widely-used model by Powell et al. (1984). It is found that the difference between the two models decreases as the Penetration Rate (PR) increases. For a PR of less than 10 mm/blow, the difference between these two models was over 10%. The difference is only about 1.7 % when the PR is 80 mm/blow. Without knowing the true moduli, it is impossible to tell which equation is better. The correlation developed here provides another option and allows researchers to recognize the range of variability.
PCR Detection and Evidence of Shedding of Porcine Circovirus Type 2 in Boar Semen (2000)

ABSTRACT An experimental study was conducted to evaluate the potential presence of porcine circovirus type 2 (PCV2) in the semen of infected boars. Four mature boars were inoculated intranasally with PCV2 isolate LHVA-V53 propagated on PK15 cells. Two boars inoculated with the supernatant of noninfected PK15 cells were kept as controls. Serum samples were collected from all boars at 4, 7, 11, 13, 18, 21, 25, 28, 35, and 55 days postinoculation (dpi) and from the four PCV2-infected boars at 90 dpi. Samples were tested for the presence of antibodies to PCV2 by an indirect immunofluorescence assay and for the presence of PCV2 DNA by PCR and nested PCR. Semen samples were collected from all six boars at 5, 8, 11, 13, 18, 21, 25, 28, 33, and 47 dpi and tested for the presence of PCV2 DNA by a nested PCR assay. Antibodies to PCV2 could be detected as early as 11 dpi in one boar, and all four infected boars were found positive for PCV2 antibodies by 18 dpi. Thereafter all infected boars remained positive for antibodies to PCV2 until 90 dpi. Analysis of serum samples by nested PCR demonstrated the presence of PCV2 DNA as early as 4 dpi in three of four infected boars. Serum samples from all infected boars were positive for PCV2 DNA from 11 dpi until 35 dpi but were negative at 90 dpi. PCV2 DNA was detected as soon as 5 dpi in the semen of two infected boars and intermittently thereafter in the semen of all four infected boars. The semen of two infected boars was positive for PCV2 DNA at 47 dpi. Following infection, PCV2 DNA can be detected in semen concurrently with the presence of PCV2 DNA and antibodies in the serum. The present study suggests that PCV2 may be shed intermittently in the semen of infected boars.
Radiation induced recombination processes in AIN ceramics (2001)

Luminescence processes are studied for aluminum nitride, AlN, ceramics after exposure to ionizing radiation and ultraviolet radiation (UVR) using the methods of photoluminescence (PL), optically stimulated luminescence (OSL) and thermoluminescence (TL). The luminescence processes are explained in terms of radiation-induced charge transfer and radiative recombination of the donor-acceptor pairs, based on oxygen-related defects of the AlN crystalline lattice. The comparative effects of the two types of radiation, the efficiency of TL and OSL and the optimal sintering procedure of the ceramics are discussed for an AlN ceramic proposed for potential application in dosimetry.
Antitumor principles from Ginkgo biloba L. (1987)

Seven long-chain phenols were isolated from Ginkgo biloba L. Three of them, anacardic acid (Ib), bilobol (IIa), and cardanol (IIIa), showed antitumor activity against Sarcoma 180 ascites in mice. The antitumor effectiveness was rated (+ +) for Ib, (+ + +) for IIa, and (+ + +) for IIIa at 40 mg/kg/d by the total packed cell volume method.
The Use of Insulin Pumps With Meal Bolus Alarms in Children With Type 1 Diabetes to Improve Glycemic Control (2006)

While meal bolus alarms may have the potential to improve suboptimal glycemic control in youth using CSII, our results demonstrated that these alarms had only a transient, modest effect in doing so.
Gene disruption and gene replacement in<i>Streptomyces</i>via single stranded DNA transformation of integration vectors (1991)

For the isolation of single stranded plasmid DNA, various E. coli and E. coli-Streptomyces shuttle plasmids were equipped with the phage f1 replication origin. The transformation of some representative Streptomyces species with plasmid vectors occurred irrespective of whether single or double stranded DNA was used. In contrast, the transformation of Streptomyces was 10 to 100 times more efficient when an integration vector was in the single stranded form as opposed to the double stranded form. Streptomyces viridochromogenes was transformed by single stranded DNA integration vectors in order to replace the pat by the tsr gene and generate mutants unable to synthesize phosphinothricin-tripeptide (PTT).
Poly(A) site selection in the HIV-1 provirus: inhibition of promoter-proximal polyadenylation by the downstream major splice donor site. (1995)

In common with all retroviruses, the human immunodeficiency virus type 1 (HIV-1) contains duplicated long terminal repeat (LTR) sequences flanking the proviral genome. These LTRs contain identical poly(A) signals, which are both transcribed into RNA. Therefore, to allow efficient viral expression, a mechanism must exist to either restrict promoter-proximal poly(A) site use or enhance the activity of the promoter-distal poly(A) site. We have examined the use of both poly(A) sites using proviral clones. Mutation of the previously defined upstream activatory sequences of the 3' LTR poly(A) site decreases the efficiency of polyadenylation when placed in competition with an efficient downstream processing signal. However, in the absence of competition, these mutations have no effect on HIV-1 polyadenylation. In addition, the 5' LTR poly(A) site is inactive, whereas a heterologous poly(A) site positioned in its place is utilized efficiently. Furthermore, transcription initiating from the 3' LTR promoter utilizes the 3' LTR poly(A) signal efficiently. Therefore, the main determinant of the differential poly(A) site use appears to be neither proximity to a promoter element in the 5' LTR nor the presence of upstream activating sequences at the 3' LTR. Instead, we show that the major splice donor site that is immediately downstream of the 5' LTR inhibits cleavage and polyadenylation at the promoter-proximal site. The fact that this poly(A) site is active in a proviral clone when the major splice donor site is mutated suggests that the selective use of poly(A) signals in HIV-1 is mediated by a direct inhibition of the HIV-1 poly(A) site by downstream splicing events or factors involved in splicing.
Antibody-Catalyzed Enantioselective Robinson Annulation (1997)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTAntibody-Catalyzed Enantioselective Robinson AnnulationGuofu Zhong, Torsten Hoffmann, Richard A. Lerner, Samuel Danishefsky, and Carlos F. BarbasView Author Information The Skaggs Institute for Chemical Biology and the Department of Molecular Biology The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla, California 92037 Laboratory for Bioorganic Chemistry The Sloan-Kettering Institute for Cancer Research 1275 York Avenue, New York, New York 10021 Cite this: J. Am. Chem. Soc. 1997, 119, 34, 8131–8132Publication Date (Web):August 27, 1997Publication History Received25 March 1997Published online27 August 1997Published inissue 1 August 1997https://pubs.acs.org/doi/10.1021/ja970944xhttps://doi.org/10.1021/ja970944xrapid-communicationACS PublicationsCopyright © 1997 American Chemical SocietyRequest reuse permissionsArticle Views2884Altmetric-Citations155LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Annulations,Biopolymers,Immunology,Ketones,Peptides and proteins Get e-Alerts
TUNING CONTROLLERS WITH ERROR-INTEGRAL CRITERIA (1967)

THE POPULAR 1/4 DECAY RATIO AS A CRITERION OF GOOD CONTROL HANGS EVERYTHING ON JUST TWO POINTS IN THE SYSTEM RESPONSE CURVE. A RESPONSE WHICH MINIMIZES CERTAIN INTEGRALS OF THE ERROR IS A MUCH BETTER OPTIMUM, TAKING INTO ACCOUNT ALL THE DYNAMIC BEHAVIOR OF THE SYSTEM. THE AUTHORS HAVE DEVELOPED GRAPHS BY WHICH THE CONTROLLER PARAMETERS CAN BE RELATED TO CHARACTERISTICS OF A POPULAR PROCESS MODEL. /AUTHOR/
Mammography Grid Performance (1999)

Differences in grid performance exist. At 25 and 30 kVp, the cellular grid exhibited superior contrast improvement factor performance, whereas one of the linear grids exhibited superior Bucky factor performance. Measured contrast improvement and Bucky factors are dependent on nongrid technique. Cassette tunnels introduce scatter and should not be used with nongrid or magnification techniques.
Greener Approaches to Organic Synthesis Using Microreactor Technology (2007)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTGreener Approaches to Organic Synthesis Using Microreactor TechnologyBrian P. Mason, Kristin E. Price, Jeremy L. Steinbacher, Andrew R. Bogdan, and D. Tyler McQuadeView Author Information Cornell University, Department of Chemistry and Chemical Biology, Baker Laboratory, Ithaca, New York 14853-1301 Cite this: Chem. Rev. 2007, 107, 6, 2300–2318Publication Date (Web):March 21, 2007Publication History Received8 August 2006Published online21 March 2007Published inissue 1 June 2007https://pubs.acs.org/doi/10.1021/cr050944chttps://doi.org/10.1021/cr050944cresearch-articleACS PublicationsCopyright © 2007 American Chemical SocietyRequest reuse permissionsArticle Views13503Altmetric-Citations890LEARN 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:Catalysts,Chemical reactions,Materials,Microreactors,Organic reactions Get e-Alerts
Intermittent Prophylaxis with Oral Truvada Protects Macaques from Rectal SHIV Infection (2010)

HIV continues to spread globally, mainly through sexual contact. Despite advances in treatment and care, preventing transmission with vaccines or microbicides has proven difficult. A promising strategy to avoid transmission is prophylactic treatment with antiretroviral drugs before exposure to HIV. Clinical trials evaluating the efficacy of daily treatment with the reverse transcriptase inhibitors tenofovir disoproxil fumarate (TDF) or Truvada (TDF plus emtricitabine) are under way. We hypothesized that intermittent prophylactic treatment with long-acting antiviral drugs would be as effective as daily dosing in blocking the earliest stages of viral replication and preventing mucosal transmission. We tested this hypothesis by intermittently giving prophylactic Truvada to macaque monkeys and then exposing them rectally to simian-human immunodeficiency virus (SHIV) once a week for 14 weeks. A simple regimen with an oral dose of Truvada given 1, 3, or 7 days before exposure followed by a second dose 2 hours after exposure was as protective as daily drug administration, possibly because of the long intracellular persistence of the drugs. In addition, a two-dose regimen initiated 2 hours before or after virus exposure was effective, and full protection was obtained by doubling the Truvada concentration in both doses. We saw no protection if the first dose was delayed until 24 hours after exposure, underscoring the importance of blocking initial replication in the mucosa. Our results show that intermittent prophylactic treatment with an antiviral drug can be highly effective in preventing SHIV infection, with a wide window of protection. They strengthen the possibility of developing feasible, cost-effective strategies to prevent HIV transmission in humans.