gebhart/patrepeval huggingface dataset:
RIPML: A Restricted Isometry Property based Approach to Multilabel Learning (2017)

The multilabel learning problem with large number of labels, features, and data-points has generated a tremendous interest recently. A recurring theme of these problems is that only a few labels are active in any given datapoint as compared to the total number of labels. However, only a small number of existing work take direct advantage of this inherent extreme sparsity in the label space. By the virtue of Restricted Isometry Property (RIP), satisfied by many random ensembles, we propose a novel procedure for multilabel learning known as RIPML. During the training phase, in RIPML, labels are projected onto a random low-dimensional subspace followed by solving a least-square problem in this subspace. Inference is done by a k-nearest neighbor (kNN) based approach. We demonstrate the effectiveness of RIPML by conducting extensive simulations and comparing results with the state-of-the-art linear dimensionality reduction based approaches.
Interaction energies for blends of poly(methyl methacrylate), polystyrene, and poly(.alpha.-methylstyrene) by the critical molecular weight method (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTInteraction energies for blends of poly(methyl methacrylate), polystyrene, and poly(.alpha.-methylstyrene) by the critical molecular weight methodT. A. Callaghan and D. R. PaulCite this: Macromolecules 1993, 26, 10, 2439–2450Publication Date (Print):May 1, 1993Publication History Published online1 May 2002Published inissue 1 May 1993https://pubs.acs.org/doi/10.1021/ma00062a008https://doi.org/10.1021/ma00062a008research-articleACS PublicationsRequest reuse permissionsArticle Views1167Altmetric-Citations140LEARN 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
Differential Regulation of G-protein-mediated Signaling by Chemokine Receptors (1996)

Monocyte chemoattractant protein-1 (MCP-1) is a member of a family of chemotactic cytokines that induce directed migration of leukocytes via activation of seven-transmembrane domain receptors. To identify G-proteins that couple to the two forms of the MCP-1 receptor, as well as to related chemokine receptors, we have performed cotransfection experiments in mammalian cells. In COS-7 cells, the type A and type B MCP-1 receptors coupled to Galphai, Galphaq, and Galpha16, whereas the macrophage inflammatory protein-1alpha/RANTES (regulated on activation, normal T cell-expressed and secreted) receptor (C-CR1) coupled to Galphai and Galphaq but failed to couple to Galpha16. In HEK-293 cells, however, the MCP-1 receptors and C-CR1 coupled to Galphaq but failed to couple to Galpha16. In contrast, the interleukin-8 and C5a receptors did not couple to Galphaq in either COS-7 or HEK-293 cells but did couple to Galpha16. Exchange of intracellular loops between the MCP-1 and interleukin-8 receptors to create chimeric receptors revealed that the third loop of the MCP-1 receptor accounted for virtually all of the coupling to Galphaq. We conclude that the MCP-1 and related chemokine receptors couple to multiple G-proteins, that coupling is cell type-specific, and that the third intracellular loop of the C-C type receptors mediates Galphaq coupling.
Complete alanine scanning of the two‐component lantibiotic lacticin 3147: generating a blueprint for rational drug design (2006)

Lantibiotics are post-translationally modified antimicrobial peptides which are active at nanomolar concentrations. Some lantibiotics have been shown to function by targeting lipid II, the essential precursor of cell wall biosynthesis. Given that lantibiotics are ribosomally synthesized and amenable to site-directed mutagenesis, they have the potential to serve as biological templates for the production of novel peptides with improved functionalities. However, if a rational approach to novel lantibiotic design is to be adopted, an appreciation of the roles of each individual amino acid (and each domain) is required. To date no lantibiotic has been subjected to such rigorous analysis. To address this issue we have carried out complete scanning mutagenesis of each of the 59 amino acids in lacticin 3147, a two-component lantibiotic which acts through the synergistic activity of the peptides LtnA1 (30 amino acids) and LtnA2 (29 amino acids). All mutations were performed in situ in the native 60 kb plasmid, pMRC01. A number of mutations resulted in the elimination of detectable bioactivity and seem to represent an invariable core within these and related peptides. Significantly however, of the 59 amino acids, at least 36 can be changed without resulting in a complete loss of activity. Many of these are clustered to form variable domains within the peptides. The information generated in this study represents a blue-print that will be critical for the rational design of lantibiotic-based antimicrobial compounds.
Quantification of acetaldehyde released by lung cancer cells <i>in vitro</i> using selected ion flow tube mass spectrometry (2003)

The production of volatile compounds from cancer cell lines in vitro has been investigated using selected ion flow tube mass spectrometry (SIFT-MS). This technique enables on-line quantitative analyses of the headspace above cell/medium cultures. This paper reports the discovery that acetaldehyde is released by the lung cancer cell lines SK-MES and CALU-1. The concentration of acetaldehyde in the headspace of the medium/cell culture was measured after 16 h incubation at 37 degrees C and found to be proportional to the number of cancer cells in the medium (typically 10(8)). From these data, the acetaldehyde production rates of the SK-MES cells and the CALU-1 cells in vitro are determined to be 1 x 10(6) and 1.5-3 x 10(6) molecules/cell/min, respectively. The potential value of this new technique in cell biology and in industrial cell biotechnology is discussed.
Preparation and Rheological Properties of Core-shell Particles Magnetic Fluid (2008)

Magnetic fluids were prepared using monodispersed iron/silica(Fe/SiO2) ellipsoidal composite particles which were modified by Tween-20 and dispersed in an oily medium as the magnetic materials.The rheological properties of the magnetic fluids were studied by rheometer.The results showed that when the shear rate was small,viscosity of the magnetic fluids raised with the increase of the magnetic field strength.When the shear rate was large,viscosity became very samll and no longer changed with the increase of the magnetic field strength.When the magnetic field strength was certain,the magnetic fluids showed obvious shear thinning.Under small oscillator shear loads,the viscoelastic behavior of the magnetic fluids was different from that of the normal ones.
THE STRUCTURE OF MINIMYCIN, A NOVEL CARBON-LINKED NUCLEOSIDE ANTIBIOTIC RELATED TO β-PSEUDOURIDINE (1972)

Structural elucidation of minimycin, a novel C-ribonucleoside antibiotic, which was established as 5-β-D-ribofuranosyl-1, 3-oxazin-2, 4-dione (I), and structural relationship to β-pseudouridine are described.
Efficient DNA transformation of Bradyrhizobium japonicum by electroporation (1990)

Intact cells of Bradyrhizobium japonicum USDA 110 were transformed with a 30-kilobase plasmid to efficiencies of 10(6) to 10(7) transformants per microgram by high-voltage electroporation. The technique was reliable and simple, with single colonies arising from transformed cells within 5 days of antibiotic selection. Plasmid DNA from B. japonicum transformed the Bradyrhizobium (Arachis) sp. with high efficiency, while the same plasmid extracted from Escherichia coli transformed B. japonicum at very low efficiency. The electrical conditions that resulted in the highest efficiencies were high voltage (10.5 to 12.5 kV/cm) and short pulse length (6 to 7 ms). A linear increase in the number of transformants was observed as DNA concentration was increased over 4 orders of magnitude; saturation appeared to begin between 120 ng/ml and 1.2 micrograms/ml. This novel method of transformation should enhance B. japonicum genetic research by providing a valuable alternative to conjugal mating, which is currently the only efficient, widely used means of introducing DNA into this organism.
The cost of caring for end-stage kidney disease patients (1998)

The costs of care for end-stage renal disease patients continue to rise because of increased numbers of patients. Efforts to contain these costs have focused on the development of capitated payment schemes, in which all costs for the care of these patients are covered in a single payment. To determine the effect of a capitated reimbursement scheme on care of dialysis patients (both hemodialysis [HD] and peritoneal dialysis [PD]), complete financial records (all reimbursements for inpatient and outpatient care, as well as physician collections) of dialysis patients at a single medical center over 1 year were analyzed. For the period from July 1994 to July 1995, annualized cost per dialysis patient-year averaged $63,340, or 9.8% higher than the corrected estimate from the U.S. Renal Data Service (USRDS; $57,660). The "most expensive" 25% of patients engendered 44 to 48% of the total costs, and inpatient costs accounted for 37 to 40% of total costs. Nearly half of the inpatient costs resulted from only two categories (room charges and inpatient dialysis), whereas other categories each made up a small fraction of the inpatient costs. PD patients were far less expensive to care for than HD patients, due to reduced hospital days and lower cost of outpatient dialysis. Care for a university-based dialysis population was only slightly more expensive than estimates predicted from the USRDS. These results validate the USRDS spending data and suggest that they can be used effectively for setting capitated rates. Efforts to control costs without sacrificing quality of care must center on reducing inpatient costs, particularly room charges and the cost of inpatient dialysis.
Evidence of β-MoO<sub>3</sub>formation during thermal treatment of silica-supported 12-molybdophosphoric acid catalysts (1994)

Unsupported and silica-supported H3PMo12O40 catalysts show a wide temperature range for decomposition on thermal treatment allowing the formation of monoclinic β-MoO3(characterized by Raman spectroscopy and X-ray powder diffraction); this new supported phase leads specifically to dimethoxymethane in the methanol oxidation reaction.
Time Series Anomaly Detection from a Markov Chain Perspective (2019)

This paper introduces a new method for the pattern-wise anomaly detection problem, which aims to find segments whose behaviors are different from the rest of the segments in the time series (as opposed to finding a single data-point in classic anomaly detection problems). An important motivation for studying this problem is to find anomalies whose data-points are within the normal range but they create an unusual pattern. To this end, normal characteristics of the data are found by clustering the overlapping subsequences of the training dataset and analyzing their orders by Markov chains. The trained model is used to assess how well the testing dataset suits the baseline behavior. The designed anomaly detection framework is capable of discovering unusual patterns in both streaming data (online) and stored data (offline). The performance of the methodology is evaluated by applying it to three datasets from different fields: a medical dataset (electrocardiogram), a utility usage dataset, and a New York City taxi demand dataset. The detected anomaly in the medical data agrees with the results of the studies in the literature. A domain expert confirmed the accuracy of the results for the utility usage data, and the anomalies of the New York City taxi demand data referred to major US holidays.
Nonparametric Quantile Regression (2010)

A summary is not available for this content so a preview has been provided. Please use the Get access link above for information on how to access this content.
HS-142-1, a potent antagonist of natriuretic peptides in vitro and in vivo. (1994)

To determine whether HS-142-1 (HS), a potent atrial natriuretic peptide (ANP) receptor antagonist, also inhibits the effects of brain natriuretic peptide (BNP), urodilatin (URO), and C-type natriuretic peptide, in vitro studies were carried out, demonstrating that HS inhibited production of cGMP by rat fetal lung fibroblast cells induced by ANP, BNP, URO, and C-type natriuretic peptide. Acute clearance studies were conducted in euvolemic Munich-Wistar rats under inactin anesthesia to characterize the effects of HS in vivo. In response to ANP, BNP, or URO (4 micrograms/kg priming dose plus 0.5 micrograms/kg per minute for 20 min), urine flow, absolute sodium excretion rates, and fractional sodium excretion exhibited similar increases (four- to fivefold) in vehicle-treated rats; these responses were, however, completely abolished by prior HS treatment. The tendency for GFR to rise during the infusion of natriuretic peptides (NP) was also blocked after HS. By contrast, HS did not block the renal effects of L-arginine, a precursor of nitric oxide, or of furosemide. Furthermore, the inhibition of endogenous NP by HS was associated with small but significant reductions in GFR and absolute and fractional sodium excretion in normal rats under euvolemic but not hydropenic conditions. These studies provide evidence that the observed effects of HS in vivo and in vitro are mediated exclusively by receptors of NP. Together, these data support the view that HS is a highly specific ligand for NP receptors, capable of antagonizing the renal effects not only of exogenous ANP, but also those of BNP and URO.
Efficient Resource Management by Exploiting D2D Communication for 5G Networks (2016)

Device-to-device (D2D) communication is a promising technology for 5G networks, providing high data rates, increased spectral and energy efficiency, and reduced end-to-end delay and transmission power. However, in current cellular systems, the performance of cell edge devices suffers when multimedia content is directly uploaded toward the base station side due to poor link quality. This requires a greater number of resource blocks and additional upload time, thus degrading the quality of service. To reduce the number of resource blocks and upload time, this paper proposes an efficient resource management scheme that exploits D2D communication in the uplink case. This scheme consists of two phases. In the first phase, in the case of poor link quality, a novel relay selection scheme is used in the multihop (two-hop) communication strategy; in the second phase, an effective new resource allocation scheme is used in multihop communication. This scheme minimizes packet loss, upload time, and number of resource blocks, whereas it increases the throughput of the network. Simulation result demonstrates the superiority of the proposed scheme over other schemes in the literature.
DNA-Encoded Chemical Libraries: A Selection System Based on Endowing Organic Compounds with Amplifiable Information (2018)

The discovery of organic ligands that bind specifically to proteins is a central problem in chemistry, biology, and the biomedical sciences. The encoding of individual organic molecules with distinctive DNA tags, serving as amplifiable identification bar codes, allows the construction and screening of combinatorial libraries of unprecedented size, thus facilitating the discovery of ligands to many different protein targets. Fundamentally, one links powers of genetics and chemical synthesis. After the initial description of DNA-encoded chemical libraries in 1992, several experimental embodiments of the technology have been reduced to practice. This review provides a historical account of important milestones in the development of DNA-encoded chemical libraries, a survey of relevant ongoing research activities, and a glimpse into the future.
ChemInform Abstract: GROWTH OF SINGLE‐CRYSTALLINE EPITAXIAL GROUP II FLUORIDE FILMS ON INDIUM PHOSPHIDE(001) BY MOLECULAR‐BEAM EPITAXY (1984)

Abstract Das MBE‐Wachstum von dielektrischen MF 2 ‐Filmen (M: Ba, Sr, Ca oder Ba x Sr 1‐x ) wurde durch Elektronenbeugung (RHEED) untersucht.
[Comparison between local and systemic administration of cyclosporin A on the effective level in conjunctiva, aqueous humor and serum]. (1995)

Cyclosporine is an important tool for the therapy of immunological diseases of the cornea and conjunctiva, as well as the treatment of patients with high-risk corneal grafts. However, potentially severe systemic side effects are disadvantageous. The purpose of our study was to determine if topical ocular application leads to about the same concentrations in ocular tissues as systemic application. Therefore, the concentration of cyclosporine in conjunctiva, aqueous humor and blood was measured by radioimmunoassay in six patients with systemic administration of cyclosporine and ten patients who received one drop of topical cyclosporine 2% four times prior to cataract surgery. All patients with systemic application showed measurable concentrations of cyclosporine in blood, as did four patients in the group receiving topical cyclosporine. There was no significant difference between both groups concerning cyclosporine concentration in aqueous humor. The level of cyclosporine in the conjunctiva was significantly higher after topical application (P < 0.02). In conclusion, therapy with cyclosporine eye drops results in levels in the conjunctiva and aqueous humor that are comparable to or even higher than those after systemic application if the last application was no more than 18h prior to the measurement. Therefore, topical ocular application of cyclosporine, which reduces or eliminates the drug's systemic side effects, can be used to induce local immunosuppressive activity, particularly in the treatment of superficial immunological diseases and after limbal allograft transplantation.
Replacement of the catalytic nucleophile cysteine-296 by serine in class II polyhydroxyalkanoate synthase from Pseudomonas aeruginosa-mediated synthesis of a new polyester: identification of catalytic residues (2003)

The class II PHA (polyhydroxyalkanoate) synthases [PHA(MCL) synthases (medium-chain-length PHA synthases)] are mainly found in pseudomonads and catalyse synthesis of PHA(MCL)s using CoA thioesters of medium-chain-length 3-hydroxy fatty acids (C6-C14) as a substrate. Only recently PHA(MCL) synthases from Pseudomonas oleovorans and Pseudomonas aeruginosa were purified and in vitro activity was achieved. A threading model of the P. aeruginosa PHA(MCL) synthase PhaC1 was developed based on the homology to the epoxide hydrolase (1ek1) from mouse which belongs to the alpha/beta-hydrolase superfamily. The putative catalytic residues Cys-296, Asp-452, His-453 and His-480 were replaced by site-specific mutagenesis. In contrast to class I and III PHA synthases, the replacement of His-480, which aligns with the conserved base catalyst of the alpha/beta-hydrolases, with Gln did not affect in vivo enzyme activity and only slightly in vitro enzyme activity. The second conserved histidine His-453 was then replaced by Gln, and the modified enzyme showed only 24% of wild-type in vivo activity, which indicated that His-453 might functionally replace His-480 in class II PHA synthases. Replacement of the postulated catalytic nucleophile Cys-296 by Ser only reduced in vivo enzyme activity to 30% of wild-type enzyme activity and drastically changed substrate specificity. Moreover, the C296S mutation turned the enzyme sensitive towards PMSF inhibition. The replacement of Asp-452 by Asn, which is supposed to be required as general base catalyst for elongation reaction, did abolish enzyme activity as was found for the respective amino acid residue of class I and III enzymes. In the threading model residues Cys-296, Asp-452, His-453 and His-480 reside in the core structure with the putative catalytic nucleophile Cys-296 localized at the highly conserved gamma-turns of the alpha/beta-hydrolases. Inhibitor studies indicated that catalytic histidines reside in the active site. The conserved residue Trp-398 was replaced by Phe and Ala, respectively, which caused inactivation of the enzyme indicating an essential role of this residue. In the threading model this residue was found to be surface-exposed. No evidence for post-translational modification by 4-phosphopantetheine was obtained. Overall, these data suggested that in class II PHA synthases the conserved histidine which was found as general base catalyst in the catalytic triad of enzymes related to the alpha/beta-hydrolase superfamily, was functionally replaced by His-453 which is conserved among all PHA synthases.
Rapid one-step recombinational cloning (2008)

As an increasing number of genes and open reading frames of unknown function are discovered, expression of the encoded proteins is critical toward establishing function. Accordingly, there is an increased need for highly efficient, high-fidelity methods for directional cloning. Among the available methods, site-specific recombination-based cloning techniques, which eliminate the use of restriction endonucleases and ligase, have been widely used for high-throughput (HTP) procedures. We have developed a recombination cloning method, which uses truncated recombination sites to clone PCR products directly into destination/expression vectors, thereby bypassing the requirement for first producing an entry clone. Cloning efficiencies in excess of 80% are obtained providing a highly efficient method for directional HTP cloning.
Gluconacetobacter entanii sp. nov., isolated from submerged high-acid industrial vinegar fermentations. (2000)

Acetic acid bacteria have been isolated from submerged high-acid spirit vinegar fermentations in the Southern part of Germany. Four strains (LTH 4560T, LTH 4341, LTH 4551 and LTH 4637) were characterized in more detail and it was revealed that they have in common certain properties such as requirement of acetic acid, ethanol and glucose for growth, and no over-oxidation of acetate. Growth occurs only at total concentrations (sum of acetic acid and ethanol) exceeding 6.0%. A method for their preservation was developed. Comparative analysis of the 16S rRNA revealed sequence similarities of >99% between strain LTH 4560T and the type strains of the related species Gluconacetobacter hansenii. However, low levels of DNA relatedness (<41 %) were determined in DNA-DNA similarity studies. In addition, specific physiological characteristics permitted a clear identification of the strains within established species of acetic acid bacteria. The strains could also be differentiated on the basis of the distribution of IS element 1031 C within the chromosome. Based on these results, the new species Gluconacetobacter entanii sp. nov. is proposed for strain LTH 4560T ( = DSM 13536T). A 16S-rRNA-targeted oligonucleotide probe was constructed that was specific for G. entanii, and the phylogenetic position of the new species was derived from a 16S-rRNA-based tree.