gebhart/patrepeval huggingface dataset:
Location Based Distributed Spectral Clustering for Wireless Sensor Networks (2017)

A distributed spectral clustering algorithm to group sensors based on their location in a wireless sensor network (WSN) is proposed. For machine learning and data mining applications in WSN's, gathering data at a fusion center is vulnerable to attacks and creates data congestion. To avoid this, we propose a robust distributed clustering method without a fusion center. The algorithm combines distributed eigenvector computation and distributed K-means clustering. A distributed power iteration method is used to compute the eigenvector of the graph Laplacian. At steady state, all nodes converge to a value in the eigenvector of the algebraic connectivity of the graph Laplacian. Clustering is carried out on the eigenvector using a distributed K-means algorithm. Location information of the sensor is only used to establish the network topology and this information is not exchanged in the network. This algorithm works for any connected graph structure. Simulation results supporting the theory are also provided.
An improved approach to mate-paired library preparation for Illumina sequencing (2013)

High quality data from mate-pair libraries provides long range sequence linkage across the genome, which is crucial for de novo assembly and structural-variant detection. Current commercial methods available for the construction of such libraries have differing limitations and are often linked to a single sequencing platform in a kit format, which may not be cost effective. We present an alternative mate-paired protocol, demonstrated using Illumina sequencing platforms, combining the specificity of hybridisation and ligation, to circularise fragments with high yield. An adapter sequence is incorporated between the junction site of the mate pairs, the length of which is evenly controlled by nick translation. We present a comparison of results from 3 Kb E. coli and Plasmodium falciparum 3D7 mate-pairs made with our protocol, alongside commercial mate-pair methods. Furthermore, we present the results of a set of 3 and 6 Kb mate-pair libraries from seven different mouse strains made with our mate-pair protocol to demonstrate its reliability and robustness.
Ultrasensitive hybridization analysis using fluorescence correlation spectroscopy (1995)

The hybridization of fluorescently tagged 18mer deoxyribonucleotides with complementary DNA templates was analysed by fluorescence correlation spectroscopy (FCS) in a droplet under an epi-illuminated fluorescence microscope at the level of single molecules. The interaction can be monitored by the change in the translational diffusion time of the smaller (18mer) primer when binding to the bigger (7.5 kb) DNA containing the complementary sequence. The hybridization process in the presence of template M13mp18 ssDNA was monitored in a small volume (2 x 10(-16)I) at various temperatures. The Arrhenius plot of the association rate constant shows that the activation energy was 38.8 kcal/mol, but the hybridization process may involve several components. The titration experiment suggested that approximately 2 primers can be associated with one template DNA at 40 degrees C. Results of a simple homology search for the sequences complementary to the primer indicate the existence of additional sites of lower specificity.
Secretion and processing of staphylococcal nuclease by Bacillus subtilis (1987)

We have studied the secretion and processing of Staphylococcus aureus nuclease in Bacillus subtilis. We show that the initial species of nuclease found in the cell supernatants during short-term radioactive labeling (pulse-chase) had a molecular weight of approximately 18,800 and comigrated in a sodium dodecyl sulfate-polyacrylamide gel with staphylococcal nuclease B. This nuclease B form was processed to the mature nuclease A extracellularly by a phenylmethylsulfonyl fluoride-sensitive protease. The nuclease B-processing site is a consensus signal peptidase site, and the processing of nuclease B was coupled to secretion as judged by pulse-chase experiments. The nuclease A was shown by microsequencing of the N terminus to be 2 amino acid residues shorter than the nuclease A described for S. aureus Foggi. The nuclease B form was still the first species found in the culture supernatant after removal of the N-terminal 26 amino acids of the native 60-amino-acid signal peptide. However, removal of the N-terminal 72 amino acids abolishes secretion of any nuclease form and leads to the intracellular accumulation of nuclease.
WILLS, TRUSTS, AND ESTATES Investments, Sales, and Conveyances: Authorize Executors and Trustees to Invest in the Securities of or Other Interests of Certain Investment Companies or Investment Trusts, Provide That Such Fiduciary Power May Be Incorporated by Reference (1992)

The Act provides that corporate trustees or executors shall not be precluded from investing in securities or other interests of certain investment companies or investment trusts because of other services provided to those companies or trusts by the trustees or executors. Further, the Act provides that the fiduciary power to invest in such companies or trusts may be incorporated by reference in a will or trust agreement.
Characterization of monoclonal antibody PAM4 reactive with a pancreatic cancer mucin (1994)

A monoclonal antibody (MAb), PAM4, having reactivity with pancreatic carcinoma has been developed. PAM4 is an IgG1 immunoglobulin produced by immunization of mice with mucin purified from the xenografted RIP1 human pancreatic carcinoma. An immunohistochemical study of normal adult tissues showed the PAM4 reactive epitope to be restricted to the gastrointestinal tract and absent from normal pancreas. In neoplastic tissue, PAM4 was reactive with 85% of the pancreatic carcinomas, approximately half of the colon cancers and none of the breast, ovarian, prostate, renal and liver cancers. PAM4 was, in general, non-reactive with pancreatitis specimens whereas CA19.9 and DUPAN2 were strongly reactive with each one. Treatment of the mucin antigen by heating, reduction of disulfide bonds, or protease digestion abolished immunoreactivity with PAM4. Treatment of the mucin by neuraminidase or periodate oxidation reduced immunoreactivity but did not completely abolish it. Our data are consistent with the proposal that the PAM4 epitope is a conformationally dependent peptide epitope and that certain carbohydrate structures are necessary in order to maintain the correct peptide conformation. The high specificity and intense reactivity of PAM4 with pancreatic carcinoma tissue suggests that the antibody may prove useful for in vitro diagnostic assays as well as in vivo targeting of diagnostic and therapeutic agents.
PPD‐Specific Proliferative Response in Humans: I. Analysis of PPD‐Specific Proliferative Cells from Tuberculous Pleurisy Patients and Healthy Controls with Monoclonal Antibodies Specific for Human T Subsets (1982)

Peripheral mononuclear cells (PBL) from tuberculin reaction (TR)-negative tuberculous pleurisy patients proliferated poorly with PPD, while the cells of pleural effusion from these patients showed a proliferative response to PPD as well as did the healthy control PBL. Surface antigens of peripheral blood and pleural effusion were examined by using monoclonal antibodies. The Leu 1-positive cell population can be divided into four groups, namely (1) Leu 1+, Leu2a+, Leu 3a+, (2) Leu 1+, Leu 2a+, Leu 3a-, (3) Leu 1+, Leu 2a-, Leu3a+, and (4) Leu 1+, Leu 2a-, Leu 3a- cell populations. Results of analysis of surface antigens of PPD-specific proliferative cells in peripheral blood and pleural effusion from tuberculous pleurisy patients as well as healthy controls indicate that the PPD-specific proliferative response is mediated by Leu 1+, Leu 2a-, Leu 3a+ cells and Leu 1+, Leu 2a-, Leu3a- cells.
Near on-line detection of enteric bacteria using lux recombinant bacteriophage (1991)

The potential for a revolution in microbiol testing can be perceived with the near on-line detection of indicator microorganisms. By definition, these are microorganisms present in significant numbers within a food which, while not pathogenic, can be related through increasing count to the increased probability of pathogen contamination. We have used recombinant lux+ bacteriophage to detect enteric indicator bacteria without recovery or enrichment in 50 min, provided that they are present at levels greater than 104 g−1 or cm−2. After a 4-h enrichment, samples having enteric counts of 10 g−1 or cm−2 can be distinguished from background.
Au-Free AlGaN/GaN Power Diode on 8-in Si Substrate With Gated Edge Termination (2013)

High-performance AlGaN/GaN diodes are realized on 8-in Si wafers with Au-free CMOS-compatible technology. The diodes are cointegrated on the same substrate together with the AlGaN/GaN metal-insulator-semiconductor high electron mobility transistors and with only one extra lithographic step. The diode anode and the transistor gate are processed together and the same metallization is used for both, avoiding extra metal deposition dedicated to the Schottky junction. A gated edge termination allows obtaining low reverse leakage current (within 1 μA/mm at -600 V), which is several orders of magnitude lower than the one of conventional Schottky diodes processed on the same wafer. Recess is implemented at the anode, resulting in low diode turn-on voltage values.
Methods for true power minimization (2002)

This paper presents methods for efficient power minimization at circuit and micro-architectural levels. The potential energy savings are strongly related to the energy profile of a circuit. These savings are obtained by using gate sizing, supply voltage, and threshold voltage optimization, to minimize energy consumption subject to a delay constraint. The true power minimization is achieved when the energy reduction potentials of all tuning variables are balanced. We derive the sensitivity of energy to delay for each of the tuning variables connecting its energy saving potential to the physical properties of the circuit. This helps to develop understanding of optimization performance and identify the most efficient techniques for energy reduction. The optimizations are applied to some examples that span typical circuit topologies including inverter chains, SRAM decoders, and adders. At a delay of 20% larger than the minimum, energy savings of 40% to 70% are possible, indicating that achieving peak performance is expensive in terms of energy. Energy savings of about 50% can be achieved without delay penalty with the balancing of sizes, supplies, and thresholds.
Expression of PEX11β Mediates Peroxisome Proliferation in the Absence of Extracellular Stimuli (1998)

Mammalian cells typically contain hundreds of peroxisomes but can increase peroxisome abundance further in response to extracellular stimuli. We report here the identification and characterization of two novel human peroxisomal membrane proteins, PEX11alpha and PEX11beta. Overexpression of the human PEX11beta gene alone was sufficient to induce peroxisome proliferation, demonstrating that proliferation can occur in the absence of extracellular stimuli and may be mediated by a single gene. Time course studies indicated that PEX11beta induces peroxisome proliferation through a multistep process involving peroxisome elongation and segregation of PEX11beta from other peroxisomal membrane proteins, followed by peroxisome division. Overexpression of PEX11alpha also induced peroxisome proliferation but at a much lower frequency than PEX11beta in our experimental system. The patterns of PEX11alpha and PEX11beta expression were examined in the rat, the animal in which peroxisome proliferation has been examined most extensively. Levels of PEX11beta mRNA were similar in all tissues examined and were unaffected by peroxisome-proliferating agents. Conversely, PEX11alpha mRNA levels varied widely among different tissues, were highest in tissues that are sensitive to peroxisome-proliferating agents, and were induced more than 10-fold in response to the peroxisome proliferators clofibrate and di(2-ethylhexyl) phthalate. Taken together, these data implicate PEX11beta in the constitutive control of peroxisome abundance and suggest that PEX11alpha may regulate peroxisome abundance in response to extracellular stimuli.
Intentional self‐injury in school age children (1980)

This paper reports a study of 50 school age children, who had attempted self‐harm and been referred consecutively to the Psychiatric Department of a Teaching Children's Hospital. In addition to this detailed study of these children and their families, comparison is made with other studies of young people who had attempted self‐harm. The study shows a high incidence of children from families of above average size, and from one‐parent families often with a sick or absentee father. Unemployment was high amongst fathers or breadwinners. Economic difficulties were common. Also shown is a high level of sickness in adults of the family, a high level of psychiatric morbidity in first‐degree relatives, and a relatively high occurrence of incidents of self‐harm in family members. Anti‐social behaviour was not uncommon amongst children of first‐degree relatives. Problems of management are discussed, particularly those arising since they are still of school age and, therefore, both legally and economically dependent upon their families. The consequence in terms of the calls made upon the resources of Child and Adolescent Psychiatric Departments, and the need for skilled interaction with the Educational and Social Services, is emphasised.
Quinone Imides. IV. p-Quinone Monosulfonimides (1951)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTQuinone Imides. IV. p-Quinone MonosulfonimidesRoger Adams and J. H. LookerCite this: J. Am. Chem. Soc. 1951, 73, 3, 1145–1149Publication Date (Print):March 1, 1951Publication History Published online1 May 2002Published inissue 1 March 1951https://pubs.acs.org/doi/10.1021/ja01147a078https://doi.org/10.1021/ja01147a078research-articleACS PublicationsRequest reuse permissionsArticle Views455Altmetric-Citations35LEARN 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
Biological function of pathogenesis-related proteins: Four tobacco pathogenesis-related proteins are chitinases (1987)

Four endochitinases (poly[1,4-(N-acetyl-beta-D-glucosaminide)] glycanohydrolase, EC 3.2.1.14) have been purified from leaves of Nicotiana tabacum cv. Samsun NN reacting hypersensitively to tobacco mosaic virus. Two of them are acidic proteins of molecular weights 27,500 and 28,500 and have been identified as 2 of the 10 pathogenesis-related proteins that are known to accumulate in tobacco in response to stress or pathogen attack. These two pathogenesis-related proteins, named "P" and "Q" when their biological function was unknown, account for one-third of tobacco mosaic virus-induced chitinase activity of tobacco leaves. They are serologically closely related to the two other chitinases, which can be considered as new basic pathogenesis-related proteins. These two basic chitinases exhibit higher molecular weights (32,000 and 34,000) and higher specific enzyme activity than the two acidic isoforms.
Fabrication of Microarray of Gel-Immobilized Compounds on a Chip by Copolymerization (1999)

The manufacturing of microchips containing oligonucleotides and proteins immobilized within gel pads, ranging in size from 10 x 10 to 100 x 100 microns, is described. The microchips are produced by photo- or persulfate-induced copolymerization of unsaturated derivatives of biomolecules with acrylamide-bisacrylamide mixture. Oligonucleotides containing 5'-allyl or 5'-butenediol units were synthesized using standard phosphoramidite chemistry. Acryloyl residues were attached to a protein by a two-step procedure. Photopolymerization was induced by illumination of the monomer solution containing initiator with UV light through the mask. The mask was applied directly over the monomer solution or projected through a microscope. Alternatively, copolymerization was carried out in drops of aqueous solution of monomers containing ammonium persulfate. Drops with different allyl-oligonucleotides were distributed on a glass slide, and the polymerization was induced by diffusion of N,N,N',N'-tetramethylethylenediamine (TEMED) from a hexane solution that covered the aqueous drops.
Yeast Population Dynamics in Spontaneous and Inoculated Alcoholic Fermentations of Zametovka Must (2002)

Inoculated fermentations, which are more rapid and more reliable than spontaneous fermentations, and assure predictable wine quality, are nowadays prevalent in Slovenia’s large-scale wine production. However, spontaneous fermentation strengthens local characteristics of wine and offers opportunities for technological innovation. In the 1999 vintage, spontaneous and inoculated fermentations of Zametovka (Vitis vinifera) grape must were studied. Zametovka is the main red variety in production of traditional Slovene red blend wine, Cvicek. The diversity of yeast species and strains in both of the investigated fermentations was determined by molecular and traditional identification methods. The outset of alcoholic fermentation, yeast growth kinetics, and yeast population dynamics presents the main differences between the examined fermentations. Yeast population diversity was higher in the spontaneous process. Dominant yeast isolates from spontaneous fermentation were identified as Candida stellata, Hanseniaspora uvarum and Saccharomyces cerevisiae; whereas Saccharomyces bayanus, Pichia kluyveri, Pichia membranifaciens and Torulaspora delbrueckiim were found less frequently. Dominant species in the inoculated fermentation was Saccharomyces cerevisiae; other species found in smaller numbers were Candida stellata, Hanseniaspora uvarum and Debaryomyces hansenii var. hansenii. Using PFGE, we were able to distinguish among 15 different Saccharomyces cerevisiae strains and three different Saccharomyces bayanus strains isolated from spontaneous fermentation, whereas, in the case of inoculated fermentation, only two Saccharomyces cerevisiae strains were found. Their chromosomal patterns coincide with the chromosomal patterns of the starter culture strains.
RNA polymerase: regulation of transcript elongation and termination (1991)

Expanded interest in studying the mechanisms of elongation and termination during transcription has come as a result of several recent findings that highlight the importance of the regulation of these processes in human health. Several cellular proto-oncogenes contain regulated blocks to elongation (1), and the human immunodeficiency viruses also control gene expression in part by regulating the efficiency of elongation in response to the trans-activating protein, TAT (2). This review considers these recent findings and compares potential mechanisms of regulation used by prokaryotic and eukaryotic RNA polymerases during elongation and termination. In all these systems, many of the detailed mechanisms of transcription elongation and termination are still to be defined; however, we have tried to group examples that may share some common regulatory elements into simplified categories.
Engineering an Antibiotic to Fight Cancer: Optimization of the Novobiocin Scaffold to Produce Anti-proliferative Agents (2011)

Development of the DNA gyrase inhibitor, novobiocin, into a selective Hsp90 inhibitor was accomplished through structural modifications to the amide side chain, coumarin ring, and sugar moiety. These species exhibit ∼700-fold improved anti-proliferative activity versus the natural product as evaluated by cellular efficacies against breast, colon, prostate, lung, and other cancer cell lines. Utilization of structure-activity relationships established for three novobiocin synthons produced optimized scaffolds, which manifest midnanomolar activity against a panel of cancer cell lines and serve as lead compounds that manifest their activities through Hsp90 inhibition.
Sierpinski monopole antenna with controlled bandspacing and input impedance (1999)

A novel configuration of the Sierpinski triangular gasket antenna is proposed. A quasi-log-periodic performance was achieved for the operating bands of GSM, DECT and WLAN by using a new band spacing control technique. This design enhances the input matching performance to well over –10 dB with a 50 Ω feed.
Nucleofection Is an Efficient Nonviral Transfection Technique for Human Bone Marrow–Derived Mesenchymal Stem Cells (2005)

Viral-based techniques are the most efficient systems to deliver DNA into stem cells because they show high gene transduction and transgene expression in many cellular models. However, the use of viral vectors has several disadvantages mainly involving safety risks. Conversely, nonviral methods are rather inefficient for most primary cells. The Nucleofector technology, a new nonviral electroporation-based gene transfer technique, has proved to be an efficient tool for transfecting hard-to-transfect cell lines and primary cells. However, little is known about the capacity of this technique to transfect adult stem cells. In this study, we applied the Nucleofector technology to engineer human bone marrow- derived mesenchymal stem cells (hMSCs). Using a green fluorescent protein reporter vector, we demonstrated a high transgene expression level using U-23 and C-17 pulsing programs: 73.7%+/-2.9% and 42.5%+/-3.4%, respectively. Cell recoveries and viabilities were 38.7%+/-2.9%, 44.5%+/-3.9% and 91.4%+/-1.3%, 94.31%+/-0.9% for U-23 and C-17, respectively. Overall, the transfection efficiencies were 27.4%+/-2.9% (U-23) and 16.6%+/-1.4% (C-17) compared with 3.6%+/-2.4% and 5.4%+/-3.4% of other nonviral transfection systems, such as FUGENE6 and DOTAP, respectively (p<.005 for all comparisons). Nucleofection did not affect the immunophenotype of hM-SCs, their normal differentiation potential, or ability to inhibit T-cell alloreactivity. Moreover, the interleukin-12 gene could be successfully transfected into hMSCs, and the immunomodulatory cytokine was produced in great amount for at least 3 weeks without impairment of its biological activity. In conclusion, nucleofection is an efficient nonviral transfection technique for hMSCs, which then may be used as cellular vehicles for the delivery of biological agents.