gebhart/patrepeval huggingface dataset:
The Battle against Emerging Antibiotic Resistance: Should Fluoroquinolones Be Used to Treat Children? (2002)

Inappropriate use of antibiotic drugs in humans and animals has led to widespread resistance among microbial pathogens. Resistance is the phenotypic expression corresponding to genetic changes caused by either mutation or acquisition of new genetic information. In some cases, multidrug resistance occurs. Streptococcus pneumoniae is one of the most important respiratory pathogens, playing a major role in both upper and lower respiratory tract infections. Pneumococcal resistance to antimicrobials may be acquired by means of horizontal transfer followed by homologous recombination of genetic material from the normal flora of the human oral cavity or by means of mutation. Resistance to penicillins and macrolides has been increasing for some time, but, recently, fluoroquinolone resistance has become an issue as well. We are concerned that, if fluoroquinolones are approved for use in children, their widespread use will result in rapid emergence of pneumococcal resistance, because children are more often colonized in the nasopharynx with high-density populations of pneumococci than are adults.
High‐Dose Intravenous Immunoglobulins in the Treatment of Toxic Epidermal Necrolysis: An Asian Series (2005)

Toxic epidermal necrolysis (TEN) is a severe, immune-mediated, mucocutaneous reaction resulting in extensive keratinocyte apoptosis. High-dose human intravenous immunoglobulins (IVIG) have been proposed as an effective treatment for TEN. Retrospective data from 8 patients with TEN and 4 patients with Stevens-Johnson syndrome-toxic epidermal necrolysis (SJS-TEN) overlap treated with high-dose IVIG were analysed. The total dose of IVIG administered was 2 g/kg body weight, with the exception of 2 patients who received a total dose of 1.5 g/kg body weight. Their mean age was 49.9+/-18.8 years (range, 19 to 70 years). The mean time from the first sign of skin lesion or mucosal or epidermal detachment to commencement of IVIG was 8.7+/-5.5 days (range, 3 to 22 days). Of the 11 patients who survived, the mean time to objective response was 3.6+/-1.9 days (range, 2 to 8 days). The length of stay (LOS) in hospital was 20.4+/-8.0 days (range, 10 to 37 days). The survival rate was 91.6%. One patient developed permanent mucocutaneous sequelae following TEN. There were no adverse reactions to IVIG. We conclude that high-dose IVIG may be a safe and effective therapy for Asian patients with TEN.
Functional analysis of human promoter polymorphisms (2003)

The potential importance of gene regulation in disease susceptibility and other inherited phenotypes has been underlined by the observation that the human genome contains fewer protein coding genes than expected. Promoter sequences are potential sources of polymorphism affecting gene expression, although to date there are no large-scale systematic studies that have determined how frequently such variants occur. We have used denaturing high performance liquid chromatography to screen the first 500 bp of the 5' flanking region of 170 opportunistically selected genes identified from the Eukaryotic Promoter Database (EPD) for common polymorphisms. Using a screening set of 16 chromosomes, single-nucleotide polymorphisms were found in approximately 35% of genes. It was attempted to clone each of these promoters into a T-vector constructed from the reporter gene vector pGL3. The relative ability of each promoter haplotype to promote transcription of the luciferase gene was tested in each of three human cell lines (HEK293, JEG and TE671) using a co-transfected SEAP-CMV plasmid as a control. The findings suggest that around a third of promoter variants may alter gene expression to a functionally relevant extent.
Characterization of a Porcine Lung Epithelial Cell Line Suitable for Influenza Virus Studies (2001)

We established a porcine lung epithelial cell line designated St. Jude porcine lung cells (SJPL) and demonstrated that all tested influenza A and B viruses replicated in this cell line. The infectivity titers of most viruses in SJPL cells were comparable to or better than those in MDCK cells. The propagation of influenza viruses from clinical samples in SJPL cells did not lead to antigenic changes in the hemagglutinin molecule. The numbers of both Sia2-3Gal and Sia2-6Gal receptors on SJPL cells were greater than those on MDCK cells. Influenza virus infection of SJPL cells did not lead to apoptosis, as did infection of MDCK cells. No porcine endogenous retrovirus was detected in SJPL cells, and in contrast to MDCK cells, SJPL cells did not cause tumors in nude mice.
Evanescent-mode applicators (EMA) for superficial and subcutaneous hyperthermia (1993)

Evanescent-mode waveguide aperture applicators are proposed for hyperthermic treatments of superficial and subcutaneous tissues. They consist of air-filled waveguide segments that work below the cutoff frequency and therefore support only evanescent transverse modes. These are excited by radiators of suitable symmetry and configuration to produce modal heating fields of selected cross-sections. This field emerges from the waveguide active aperture and enters the tissue to be heated through an air gap. These devices work in a very large range of frequencies and are extremely simple to manufacture, even with a variety of cross-section sizes and shapes, because of their air-filled feature. This enables good heating field flexibility with improved penetration to be obtained. Their operation is safe and practical also on irregular and curved tissue surfaces.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Neurosteroid Analogues. 11. Alternative Ring System Scaffolds:  γ-Aminobutyric Acid Receptor Modulation and Anesthetic Actions of Benz[<i>f</i>]indenes (2006)

Benz[f]indenes are tricyclic compounds with a linear 6-6-5 fused carbocyclic ring system. When properly substituted, benz[f]indenes can satisfy the pharmacophore requirements of the critical hydrogen-bond donor and acceptor groups found in neuroactive steroids that modulate gamma-aminobutyric acidA (GABAA) receptor function. Thus, the benz[f]indene ring system provides an opportunity to extend the previously well-studied GABAA receptor structure-activity relationships (SAR) of neuroactive steroids to a different ring system. Depending on whether the stereochemistry of the 6-6-5 ring fusions are trans-trans or cis-trans, either planar or nonplanar benz[f]indenes are obtained. We found that the planar trans-trans benz[f]indenes are active, but less active than the steroids they were designed to mimic, whereas the nonplanar cis-trans compounds have little, if any, activity. The results provide new insight into the importance of the steroid framework for the actions of neuroactive steroids at GABAA receptors.
TLR2 Regulates Neutrophil Recruitment and Cytokine Production with Minor Contributions from TLR9 during Hypersensitivity Pneumonitis (2013)

Hypersensitivity pneumonitis (HP) is an interstitial lung disease that develops following repeated exposure to environmental antigens. The disease results in alveolitis, granuloma formation and may progress to a fibrotic chronic form, which is associated with significant morbidity and mortality. The severity of the disease correlates with a neutrophil rich influx and an IL-17 response. We used the Saccharopolysporarectivirgula (SR) model of HP to determine whether Toll-like receptors (TLR) 2 and 9 cooperate in neutrophil recruitment and IL-17-associated cytokine production during the development of HP. Stimulation of bone marrow derived macrophages (BMDMs) from C57BL/6, MyD88(-/-) and TLR2/9(-/-) mice with SR demonstrate that SR is a strong inducer of neutrophil chemokines and growth factors. The cytokines induced by SR were MyD88-dependent and, of those, most were partially or completely dependent on TLRs 2 and 9. Following in vivo exposure to SR, CXCL2 production and neutrophil recruitment were reduced in TLR2(-/-) and TLR2/9(-/-) mice suggesting that the response was largely dependent on TLR2; however the reduction was greatest in the TLR2/9(-/-) double knockout mice indicating TLR9 may also contribute to the response. There was a reduction in the levels of pro-inflammatory cytokines TNFα and IL-6 as well as CCL3 and CCL4 in the BALF from TLR2/9(-/-) mice compared to WT and single knockout (SKO) mice exposed one time to SR. The decrease in neutrophil recruitment and TNFα production in the TLR2/9(-/-) mice was maintained throughout 3 weeks of SR exposures in comparison to WT and SKO mice. Both TLRs 2 and 9 contributed to the Th17 response; there was a decrease in Th17 cells and IL-17 mRNA in the TLR2/9(-/-) mice in comparison to the WT and SKO mice. Despite the effects on neutrophil recruitment and the IL-17 response, TLR2/9(-/-) mice developed granuloma formation similarly to WT and SKO mice suggesting that there are additional mediators and pattern recognition receptors involved in the disease.
Use of the flagellar H7 gene as a target in multiplex PCR assays and improved specificity in identification of enterohemorrhagic Escherichia coli strains (1997)

PCR products of 1.8 kb were generated with DNAs from all Escherichia coli H7 strains tested by using oligonucleotide primers which flank the fliC gene. Three RsaI digestion profiles of these PCR products were evident on agarose gels; the first occurred with serotype O55:H7, O157:H7, or nonmotile (NM) strains, the second occurred with serotype O1:H7 and O18:H7 strains, and the third occurred with serotype O?:H7, O19:H7, O121:H7, O88:H7, and O156:H7 strains. Despite these differences, the nucleotide sequences of the E. coli E32511 (O157:NM) and U5-41 (O1:H7) fliC genes were 97% homologous. Two PCR primer pairs synthesized on the basis of the E32511 H7 fliC sequence amplified specific DNA fragments from all E. coli H7 strains, but did not amplify DNA fragments from the other bacterial strains. The H7-specific primers were used in combination with other primers which target the Verotoxin 1(VT1) and VT2 genes and the E. coli O157:H7 eaeA gene in multiplex PCR assays. In these assays, vt and eaeA PCR products were observed with DNAs from the majority of EHEC strains and vt, eaeA, and fliC PCR products were observed with DNAs from E. coli O157:H7 or NM strains. Only eaeA PCR products were present with DNA from enteropathogenic E. coli, and only vt PCR products occurred with VT-producing E. coli which are not EHEC. The multiplex PCR assays described allow for the specific identification of E. coli O157:H7 or NM and other EHEC strains.
[Characteristics and affecting factors of denitrifying phosphorus removal in two-sludge sequencing batch reactor]. (2008)

The characteristics of denitrifying phosphorus removal in a lab-scale two-sludge anaerobic-anoxic/nitrification SBR (A2 NSBR) system were studied fed with domestic wastewater. The influence of some key operation parameters, like C/P, C/N, and HRT, were examined using parallel tests, pH, dissolved oxygen (DO) and redox potential (ORP) were monitored on line to validate whether they could be used as the control parameters for this denitrifying phosphorus removal process. Results indicated that P removal efficiency showed an increased trend on the whole with the increase of the C/P. When the influent C/P was greater than 19.39, good phosphorus removal efficiency was achieved. However, the phosphorus removal efficiency deteriorated once the influent C/P decreased less than 15.36. On the other hand, relatively good phosphorus removal efficiency could be maintained in the A2 NSBR system even at a low C/N ratio, though the denitrification efficiency decrease instead. It is also found that increasing the influent C/N increased the PHB amount stored by polyphosphate accumulating organisms (PAO) and therefore the ultimate denitrification and phosphorus removal efficiency were both improved. For an excessively high C/N, the incompletely reacted COD will be residual to anoxic stage. Thus, the pure denitrification reaction, which preferentially supports OHOs, becomes the dominant reaction. This decreases the amount of available electron acceptors for denitrifying polyphosphate accumulating organisms (DNPAOs) at the anoxic stage which eventually impacts the anoxic phosphorus removal capacity. In addition, since A2 NSBR has two completely independent SBR systems, it benefits to establish a process control system in terms of the parameters DO, ORP, and pH.
Clinical performance of serum [-2]proPSA derivatives, %p2PSA and PHI, in the detection and management of prostate cancer. (2014)

Prostate-specific antigen (PSA) has been widely used as a serum marker for prostate cancer (PCa) screening or progression monitoring, which dramatically increased rate of early detection while significantly reduced PCa-specific mortality. However, a number of limitations of PSA have been noticed. Low specificity of PSA may lead to overtreatment in men who presenting with a total PSA (tPSA) level of < 10 ng/mL. As a type of free PSA (fPSA), [-2]proPSA is differentially expressed in peripheral zone of prostate gland and found to be elevated in serum of men with PCa. Two p2PSA-based derivatives, prostate health index (PHI) and %p2PSA, which were defined as [(p2PSA/fPSA) × √ tPSA] and [(p2PSA/fPSA) × 100] respectively, have been suggested to be increased in PCa and can better distinguish PCa from benign prostatic diseases than tPSA or fPSA. We performed a systematic review of the available scientific evidences to evaluate the potentials of %p2PSA and PHI in clinical application. Mounting evidences suggested that both %p2PSA and PHI possess higher area under the ROC curve (AUC) and better specificity at a high sensitivity for PCa detection when compare with tPSA and %fPSA. It indicated that measurements of %p2PSA and PHI significantly improved the accuracy of PCa detection and diminished unnecessary biopsies. Furthermore, elevations of %p2PSA and PHI are related to more aggressive diseases. %p2PSA and PHI might be helpful in reducing overtreatment on indolent cases or assessing the progression of PCa in men who undergo active surveillance. Further studies are needed before being applied in routine clinical practice.
Crystallization Technology Handbook (2001)

Fundamentals of Crystallization Interaction Between Balances, Processes, and Product Quality Design of Crystallizers and Crystallization Processes Control of Crystallizers Reaction Crystallization Additives and Impurities Crystallization from the Melt Thermal Analysis and Economics of Processes Appendix 1: Physical Properties Appendix II: Examples of Large-Scale lndustrial Crystallizers.
Boundary scan test used at board level: moving towards reality (2002)

The author addresses the need for adapted design and test tools when using boundary scan in board-level circuit design and testing these assemblies. Test pattern generation is dealt with, the data flow around this generation software is discussed, and a format for test vectors is presented. Details are given for different approaches to test pattern generation, and a program for checking correctness of vectors is introduced. Also, a PC-based BST (boundary scan testing) validation tool capable of addressing the first needs of a designer is described. It is concluded that, although using BST pays off very rapidly, a lot of details in the total design and test trajectory have to be cleared up. Coupling between tools and availability of software capable of dealing with BST according to a selected strategy are items that have to be checked.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Extension of a Nuphar piperidine synthesis to quinolizidines and an indolizidine (1980)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTExtension of a Nuphar piperidine synthesis to quinolizidines and an indolizidineR. T. LaLonde, N. Muhammad, C. F. Wong, and E. R. SturialeCite this: J. Org. Chem. 1980, 45, 18, 3664–3671Publication Date (Print):August 1, 1980Publication History Published online1 May 2002Published inissue 1 August 1980https://pubs.acs.org/doi/10.1021/jo01306a024https://doi.org/10.1021/jo01306a024research-articleACS PublicationsRequest reuse permissionsArticle Views498Altmetric-Citations32LEARN 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
Ganoderma lucidum (Curt.: Fr.) P. Karst. (Aphyllophoromycetideae)-A Mushrooming Medicinal Mushroom (1999)

The medicinal properties of Ganoderma lucidum (Curt.: Fr.) P. Karst. have been recognized for many centuries in China and other parts of Asia. During the last two decades, there has been a sharp increase in the level of commercial interest in G. lucidum products, not only in Asian countries but also in North America and Europe. Latest available estimates put the annual value of G. lucidum products worldwide at more than US $1.6 billion. This increased demand has stimulated improvements in artificial cultivation methods, of which currently the most widely adopted are the wood log, short wood segment, tree stump, sawdust bag, and bottle procedures. The application of modern analytical techniques has revealed the mushroom to contain numerous bioactive compounds including polysaccharides, triterpenes, and immunomodulatory proteins. Many of these compounds have anticancer and antitumor properties that appear to be based on an enhancement of the host immune system rather than on a direct cytocidal effect. Further expansion of the market for G. lucidum products will require the introduction of more reproducible protocols for mushroom production and downstream processing to improve quality control and ensure enduring public trust.
The Chemistry of Nitrate Esters (1955)

ADVERTISEMENT RETURN TO ISSUEArticleNEXTThe Chemistry of Nitrate EstersRobert Boschan, Raymond T. Merrow, and Robert W. van DolahCite this: Chem. Rev. 1955, 55, 3, 485–510Publication Date (Print):June 1, 1955Publication History Published online1 May 2002Published inissue 1 June 1955https://pubs.acs.org/doi/10.1021/cr50003a001https://doi.org/10.1021/cr50003a001research-articleACS PublicationsRequest reuse permissionsArticle Views2591Altmetric-Citations171LEARN 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
Regularized ROC method for disease classification and biomarker selection with microarray data (2005)

We propose a novel method for biomarker selection and classification using the ROC technique for microarray data. The proposed method uses a sigmoid approximation to the area under the ROC curve as the objective function for classification and the threshold gradient descent regularization method for estimation and biomarker selection. Tuning parameter selection based on the V-fold cross validation and predictive performance evaluation are also investigated. The proposed approach is demonstrated with a simulation study, the Colon data and the Estrogen data. The proposed approach yields parsimonious models with excellent classification performance.
Water soluble blue-green lasing dyes for flashlamp-pumped dye lasers (1980)

2-(4-Pyridyl)-5-phenyloxazole (4PyPO) and its pyridinium salts have been investigated for laser action in the violet and blue-green spectral regions, respectively. The phenyloxazolyl pyridinium salts show good lasing characteristics, broad tuning ranges, and superior photochemical stability when compared with coumarin 175 in water. Recommendations were made on how the lasing maxima could be blue or red shifted and how the output power and photochemical stability of the new classes of laser dyes could be made to approach that of C8F, which is one of the most photochemically stable lasing dyes reported to date. Because of the reactivity of the nonbonding electrons on the pyridyl group of 4PyPO, hundreds of new laser dyes are possible from the parent dye. A new generation of water soluble, low threshold multifluorophoric laser dyes capable of intramolecular energy transfer and intramolecular triplet state quenching was proposed.
Characterization of a <i>sar</i> Homolog of <i>Staphylococcus epidermidis</i> (1998)

Coagulase-negative staphylococci are common nosocomial pathogens. A regulatory element, designated sar, partially controls exoprotein synthesis in coagulase-positive Staphylococcus aureus by modulating the expression of another regulatory locus, called agr. We report here the cloning of a sar homolog in S. epidermidis. The major open reading frame within sar in S. epidermidis is highly homologous (84%) to the S. aureus SarA protein. Primer extension studies revealed three sar transcripts (0.64, 0.76, and 0.85 kb) initiated from three distinct promoters. The interpromoter region in S. epidermidis differs from its S. aureus counterpart, possibly suggesting target gene differences and a disparate pattern for sar activation. Remarkably, the S. epidermidis sar homolog interacts with an agr promoter fragment of S. aureus in gel shift assays. Additionally, S. epidermidis sar fragments could restore hemolysin production in an S. aureus sar mutant. As typical virulence determinants controlled by sar in S. aureus are not present in S. epidermidis, an examination of functional and structural similarities and divergence of sar in staphylococci will be of major interest.