WorldWideScience

Sample records for sample screening pipeline

  1. Building a virtual ligand screening pipeline using free software: a survey.

    Science.gov (United States)

    Glaab, Enrico

    2016-03-01

    Virtual screening, the search for bioactive compounds via computational methods, provides a wide range of opportunities to speed up drug development and reduce the associated risks and costs. While virtual screening is already a standard practice in pharmaceutical companies, its applications in preclinical academic research still remain under-exploited, in spite of an increasing availability of dedicated free databases and software tools. In this survey, an overview of recent developments in this field is presented, focusing on free software and data repositories for screening as alternatives to their commercial counterparts, and outlining how available resources can be interlinked into a comprehensive virtual screening pipeline using typical academic computing facilities. Finally, to facilitate the set-up of corresponding pipelines, a downloadable software system is provided, using platform virtualization to integrate pre-installed screening tools and scripts for reproducible application across different operating systems. © The Author 2015. Published by Oxford University Press.

  2. tcpl: The ToxCast Pipeline for High-Throughput Screening Data

    Science.gov (United States)

    Motivation: The large and diverse high-throughput chemical screening efforts carried out by the US EPAToxCast program requires an efficient, transparent, and reproducible data pipeline.Summary: The tcpl R package and its associated MySQL database provide a generalized platform fo...

  3. Towards Plant Species Identification in Complex Samples: A Bioinformatics Pipeline for the Identification of Novel Nuclear Barcode Candidates.

    Science.gov (United States)

    Angers-Loustau, Alexandre; Petrillo, Mauro; Paracchini, Valentina; Kagkli, Dafni M; Rischitor, Patricia E; Puertas Gallardo, Antonio; Patak, Alex; Querci, Maddalena; Kreysa, Joachim

    2016-01-01

    Monitoring of the food chain to fight fraud and protect consumer health relies on the availability of methods to correctly identify the species present in samples, for which DNA barcoding is a promising candidate. The nuclear genome is a rich potential source of barcode targets, but has been relatively unexploited until now. Here, we show the development and use of a bioinformatics pipeline that processes available genome sequences to automatically screen large numbers of input candidates, identifies novel nuclear barcode targets and designs associated primer pairs, according to a specific set of requirements. We applied this pipeline to identify novel barcodes for plant species, a kingdom for which the currently available solutions are known to be insufficient. We tested one of the identified primer pairs and show its capability to correctly identify the plant species in simple and complex samples, validating the output of our approach.

  4. Towards Plant Species Identification in Complex Samples: A Bioinformatics Pipeline for the Identification of Novel Nuclear Barcode Candidates.

    Directory of Open Access Journals (Sweden)

    Alexandre Angers-Loustau

    Full Text Available Monitoring of the food chain to fight fraud and protect consumer health relies on the availability of methods to correctly identify the species present in samples, for which DNA barcoding is a promising candidate. The nuclear genome is a rich potential source of barcode targets, but has been relatively unexploited until now. Here, we show the development and use of a bioinformatics pipeline that processes available genome sequences to automatically screen large numbers of input candidates, identifies novel nuclear barcode targets and designs associated primer pairs, according to a specific set of requirements. We applied this pipeline to identify novel barcodes for plant species, a kingdom for which the currently available solutions are known to be insufficient. We tested one of the identified primer pairs and show its capability to correctly identify the plant species in simple and complex samples, validating the output of our approach.

  5. From design to screening: a new antimicrobial peptide discovery pipeline.

    Directory of Open Access Journals (Sweden)

    Saadet Albayrak Guralp

    Full Text Available Antimicrobial peptides (AMPs belong to a class of natural microbicidal molecules that have been receiving great attention for their lower propensity for inducing drug resistance, hence, their potential as alternative drugs to conventional antibiotics. By generating AMP libraries, one can study a large number of candidates for their activities simultaneously in a timely manner. Here, we describe a novel methodology where in silico designed AMP-encoding oligonucleotide libraries are cloned and expressed in a cellular host for rapid screening of active molecules. The combination of parallel oligonucleotide synthesis with microbial expression systems not only offers complete flexibility for sequence design but also allows for economical construction of very large peptide libraries. An application of this approach to discovery of novel AMPs has been demonstrated by constructing and screening a custom library of twelve thousand plantaricin-423 mutants in Escherichia coli. Analysis of selected clones by both Sanger-sequencing and 454 high-throughput sequencing produced a significant amount of data for positionally important residues of plantaricin-423 responsible for antimicrobial activity and, moreover, resulted in identification of many novel variants with enhanced specific activities against Listeria innocua. This approach allows for generation of fully tailored peptide collections in a very cost effective way and will have countless applications from discovery of novel AMPs to gaining fundamental understanding of their biological function and characteristics.

  6. Automated pipeline for rapid production and screening of HIV-specific monoclonal antibodies using pichia pastoris.

    Science.gov (United States)

    Shah, Kartik A; Clark, John J; Goods, Brittany A; Politano, Timothy J; Mozdzierz, Nicholas J; Zimnisky, Ross M; Leeson, Rachel L; Love, J Christopher; Love, Kerry R

    2015-12-01

    Monoclonal antibodies (mAbs) that bind and neutralize human pathogens have great therapeutic potential. Advances in automated screening and liquid handling have resulted in the ability to discover antigen-specific antibodies either directly from human blood or from various combinatorial libraries (phage, bacteria, or yeast). There remain, however, bottlenecks in the cloning, expression and evaluation of such lead antibodies identified in primary screens that hinder high-throughput screening. As such, "hit-to-lead identification" remains both expensive and time-consuming. By combining the advantages of overlap extension PCR (OE-PCR) and a genetically stable yet easily manipulatable microbial expression host Pichia pastoris, we have developed an automated pipeline for the rapid production and screening of full-length antigen-specific mAbs. Here, we demonstrate the speed, feasibility and cost-effectiveness of our approach by generating several broadly neutralizing antibodies against human immunodeficiency virus (HIV). © 2015 Wiley Periodicals, Inc.

  7. tcpl: the ToxCast pipeline for high-throughput screening data.

    Science.gov (United States)

    Filer, Dayne L; Kothiya, Parth; Setzer, R Woodrow; Judson, Richard S; Martin, Matthew T

    2017-02-15

    Large high-throughput screening (HTS) efforts are widely used in drug development and chemical toxicity screening. Wide use and integration of these data can benefit from an efficient, transparent and reproducible data pipeline. Summary: The tcpl R package and its associated MySQL database provide a generalized platform for efficiently storing, normalizing and dose-response modeling of large high-throughput and high-content chemical screening data. The novel dose-response modeling algorithm has been tested against millions of diverse dose-response series, and robustly fits data with outliers and cytotoxicity-related signal loss. tcpl is freely available on the Comprehensive R Archive Network under the GPL-2 license. martin.matt@epa.gov.

  8. A cross docking pipeline for improving pose prediction and virtual screening performance

    Science.gov (United States)

    Kumar, Ashutosh; Zhang, Kam Y. J.

    2017-08-01

    Pose prediction and virtual screening performance of a molecular docking method depend on the choice of protein structures used for docking. Multiple structures for a target protein are often used to take into account the receptor flexibility and problems associated with a single receptor structure. However, the use of multiple receptor structures is computationally expensive when docking a large library of small molecules. Here, we propose a new cross-docking pipeline suitable to dock a large library of molecules while taking advantage of multiple target protein structures. Our method involves the selection of a suitable receptor for each ligand in a screening library utilizing ligand 3D shape similarity with crystallographic ligands. We have prospectively evaluated our method in D3R Grand Challenge 2 and demonstrated that our cross-docking pipeline can achieve similar or better performance than using either single or multiple-receptor structures. Moreover, our method displayed not only decent pose prediction performance but also better virtual screening performance over several other methods.

  9. A Pipeline To Enhance Ligand Virtual Screening: Integrating Molecular Dynamics and Fingerprints for Ligand and Proteins.

    Science.gov (United States)

    Spyrakis, Francesca; Benedetti, Paolo; Decherchi, Sergio; Rocchia, Walter; Cavalli, Andrea; Alcaro, Stefano; Ortuso, Francesco; Baroni, Massimo; Cruciani, Gabriele

    2015-10-26

    The importance of taking into account protein flexibility in drug design and virtual ligand screening (VS) has been widely debated in the literature, and molecular dynamics (MD) has been recognized as one of the most powerful tools for investigating intrinsic protein dynamics. Nevertheless, deciphering the amount of information hidden in MD simulations and recognizing a significant minimal set of states to be used in virtual screening experiments can be quite complicated. Here we present an integrated MD-FLAP (molecular dynamics-fingerprints for ligand and proteins) approach, comprising a pipeline of molecular dynamics, clustering and linear discriminant analysis, for enhancing accuracy and efficacy in VS campaigns. We first extracted a limited number of representative structures from tens of nanoseconds of MD trajectories by means of the k-medoids clustering algorithm as implemented in the BiKi Life Science Suite ( http://www.bikitech.com [accessed July 21, 2015]). Then, instead of applying arbitrary selection criteria, that is, RMSD, pharmacophore properties, or enrichment performances, we allowed the linear discriminant analysis algorithm implemented in FLAP ( http://www.moldiscovery.com [accessed July 21, 2015]) to automatically choose the best performing conformational states among medoids and X-ray structures. Retrospective virtual screenings confirmed that ensemble receptor protocols outperform single rigid receptor approaches, proved that computationally generated conformations comprise the same quantity/quality of information included in X-ray structures, and pointed to the MD-FLAP approach as a valuable tool for improving VS performances.

  10. The Behavior of a Co-flow structure to Screen Projects in a Product Pipeline

    National Research Council Canada - National Science Library

    Paulo S Figueiredo; Elisabeth Loiola

    2016-01-01

    .... An application to Product Pipeline Management (PPM) is developed. A two-stage product development pipeline was modeled with a co-flow structure that tracks the number of projects and the related net present value of payoff...

  11. A Pipeline for Large Data Processing Using Regular Sampling for Unstructured Grids

    Energy Technology Data Exchange (ETDEWEB)

    Berres, Anne Sabine [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Adhinarayanan, Vignesh [Virginia Polytechnic Inst. and State Univ. (Virginia Tech), Blacksburg, VA (United States); Turton, Terece [Univ. of Texas, Austin, TX (United States); Feng, Wu [Virginia Polytechnic Inst. and State Univ. (Virginia Tech), Blacksburg, VA (United States); Rogers, David Honegger [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

    2017-05-12

    Large simulation data requires a lot of time and computational resources to compute, store, analyze, visualize, and run user studies. Today, the largest cost of a supercomputer is not hardware but maintenance, in particular energy consumption. Our goal is to balance energy consumption and cognitive value of visualizations of resulting data. This requires us to go through the entire processing pipeline, from simulation to user studies. To reduce the amount of resources, data can be sampled or compressed. While this adds more computation time, the computational overhead is negligible compared to the simulation time. We built a processing pipeline at the example of regular sampling. The reasons for this choice are two-fold: using a simple example reduces unnecessary complexity as we know what to expect from the results. Furthermore, it provides a good baseline for future, more elaborate sampling methods. We measured time and energy for each test we did, and we conducted user studies in Amazon Mechanical Turk (AMT) for a range of different results we produced through sampling.

  12. A scalable, GFP-based pipeline for membrane protein overexpression screening and purification

    NARCIS (Netherlands)

    Drew, David; Slotboom, Dirk-Jan; Friso, Giulia; Reda, Torsten; Genevaux, Pierre; Rapp, Mikaela; Meindl-Beinker, Nadja M.; Lambert, Wietske; Lerch, Mirjam; Daley, Daniel O.; Wijk, Klaas-Jan van; Hirst, Judy; Kunji, Edmund; Gier, Jan-Willem de

    2005-01-01

    We describe a generic, GFP-based pipeline for membrane protein overexpression and purification in Escherichia coli. We exemplify the use of the pipeline by the identification and characterization of E. coli YedZ, a new, membrane-integral flavocytochrome. The approach is scalable and suitable for

  13. A tetra-layer microfluidic system for peptide affinity screening through integrated sample injection.

    Science.gov (United States)

    Wang, Weizhi; Huang, Yanyan; Jin, Yulong; Liu, Guoquan; Chen, Yi; Ma, Huimin; Zhao, Rui

    2013-05-21

    A novel integrated microfluidic system was designed and fabricated for affinity peptide screening with in situ detection. A tetra-layer microfluidic hybrid chip containing two top eccentric diffluent layers, an inter-layer and a bottom screening layer, was developed as the core device of the system. The eccentric diffluent layers were ingeniously invented for the vertical sample delivery from 2 top-inlets into 12 bottom-inlets, which eliminated the use of excessive accessories and complicated pipelines currently used in other systems. By using six pH gradient generators, the magnetic bead-based screening in 36 parallel chambers was simultaneously carried out under 6 different pH conditions from 5.4 to 8.2. This allowed simultaneous screening of 6 compounds and each under 6 different pH conditions. The fabricated chip system was applied to screening of affinity peptides towards β-endorphin antibody. The affinities of the peptide ligands to the antibody were assessed by on-chip confocal detection. The results from the screening study using this system indicated that the pentapeptide with the sequence of YGGFL had the highest affinity towards β-endorphin antibody at pH 7.1, which was further confirmed by the ELISA assay using a 96-well plate format. This microfluidic screening system is automatic, low-cost and reusable for not only peptide screening but also other bioactive compounds screening towards target molecules.

  14. Vipie: web pipeline for parallel characterization of viral populations from multiple NGS samples.

    Science.gov (United States)

    Lin, Jake; Kramna, Lenka; Autio, Reija; Hyöty, Heikki; Nykter, Matti; Cinek, Ondrej

    2017-05-15

    Next generation sequencing (NGS) technology allows laboratories to investigate virome composition in clinical and environmental samples in a culture-independent way. There is a need for bioinformatic tools capable of parallel processing of virome sequencing data by exactly identical methods: this is especially important in studies of multifactorial diseases, or in parallel comparison of laboratory protocols. We have developed a web-based application allowing direct upload of sequences from multiple virome samples using custom parameters. The samples are then processed in parallel using an identical protocol, and can be easily reanalyzed. The pipeline performs de-novo assembly, taxonomic classification of viruses as well as sample analyses based on user-defined grouping categories. Tables of virus abundance are produced from cross-validation by remapping the sequencing reads to a union of all observed reference viruses. In addition, read sets and reports are created after processing unmapped reads against known human and bacterial ribosome references. Secured interactive results are dynamically plotted with population and diversity charts, clustered heatmaps and a sortable and searchable abundance table. The Vipie web application is a unique tool for multi-sample metagenomic analysis of viral data, producing searchable hits tables, interactive population maps, alpha diversity measures and clustered heatmaps that are grouped in applicable custom sample categories. Known references such as human genome and bacterial ribosomal genes are optionally removed from unmapped ('dark matter') reads. Secured results are accessible and shareable on modern browsers. Vipie is a freely available web-based tool whose code is open source.

  15. IMPACT: a whole-exome sequencing analysis pipeline for integrating molecular profiles with actionable therapeutics in clinical samples.

    Science.gov (United States)

    Hintzsche, Jennifer; Kim, Jihye; Yadav, Vinod; Amato, Carol; Robinson, Steven E; Seelenfreund, Eric; Shellman, Yiqun; Wisell, Joshua; Applegate, Allison; McCarter, Martin; Box, Neil; Tentler, John; De, Subhajyoti; Robinson, William A; Tan, Aik Choon

    2016-07-01

    Currently, there is a disconnect between finding a patient's relevant molecular profile and predicting actionable therapeutics. Here we develop and implement the Integrating Molecular Profiles with Actionable Therapeutics (IMPACT) analysis pipeline, linking variants detected from whole-exome sequencing (WES) to actionable therapeutics. The IMPACT pipeline contains 4 analytical modules: detecting somatic variants, calling copy number alterations, predicting drugs against deleterious variants, and analyzing tumor heterogeneity. We tested the IMPACT pipeline on whole-exome sequencing data in The Cancer Genome Atlas (TCGA) lung adenocarcinoma samples with known EGFR mutations. We also used IMPACT to analyze melanoma patient tumor samples before treatment, after BRAF-inhibitor treatment, and after BRAF- and MEK-inhibitor treatment. IMPACT Food and Drug Administration (FDA) correctly identified known EGFR mutations in the TCGA lung adenocarcinoma samples. IMPACT linked these EGFR mutations to the appropriate FDA-approved EGFR inhibitors. For the melanoma patient samples, we identified NRAS p.Q61K as an acquired resistance mutation to BRAF-inhibitor treatment. We also identified CDKN2A deletion as a novel acquired resistance mutation to BRAFi/MEKi inhibition. The IMPACT analysis pipeline predicts these somatic variants to actionable therapeutics. We observed the clonal dynamic in the tumor samples after various treatments. We showed that IMPACT not only helped in successful prioritization of clinically relevant variants but also linked these variations to possible targeted therapies. IMPACT provides a new bioinformatics strategy to delineate candidate somatic variants and actionable therapies. This approach can be applied to other patient tumor samples to discover effective drug targets for personalized medicine.IMPACT is publicly available at http://tanlab.ucdenver.edu/IMPACT. © The Author 2016. Published by Oxford University Press on behalf of the American Medical

  16. Human papillomavirus self-sampling for screening nonattenders

    DEFF Research Database (Denmark)

    Lam, Janni Uyen Hoa; Rebolj, Matejka; Ejegod, Ditte Møller

    2017-01-01

    In organized cervical screening programs, typically 25% of the invited women do not attend. The Copenhagen Self-sampling Initiative (CSi) aimed to gain experiences on participation among screening nonattenders in the Capital Region of Denmark. Here, we report on the effectiveness of different com...

  17. A low power time-interleaved 10-bit 250-MSPS charge domain pipelined ADC for IF sampling

    Science.gov (United States)

    Zhenhai, Chen; Hongwen, Qian; Songren, Huang; Hong, Zhang; Zongguang, Yu

    2013-06-01

    A 10-bit 250-MSPS two-channel time-interleaved charge-domain (CD) pipelined analog-to-digital converter (ADC) is presented. MOS bucket-brigade device (BBD) based CD pipelined architecture is used to achieve low power consumption. An all digital low power DLL is used to alleviate the timing mismatches and to reduce the aperture jitter. A new bootstrapped MOS switch is designed in the sample and hold circuit to enhance the IF sampling capability. The ADC achieves a spurious free dynamic range (SFDR) of 67.1 dB, signal-to-noise ratio (SNDR) of 55.1 dB for a 10.1 MHz input, and SFDR of 61.6 dB, SNDR of 52.6 dB for a 355 MHz input at full sampling rate. Differential nonlinearity (DNL) is +0.5/-0.4 LSB and integral nonlinearity (INL) is +0.8/-0.75 LSB. Fabricated in a 0.18-μm 1P6M CMOS process, the prototype 10-bit pipelined ADC occupies 1.8 × 1.3 mm2 of active die area, and consumes only 68 mW at 1.8 V supply.

  18. Noninvasive prenatal testing using a novel analysis pipeline to screen for all autosomal fetal aneuploidies improves pregnancy management.

    Science.gov (United States)

    Bayindir, Baran; Dehaspe, Luc; Brison, Nathalie; Brady, Paul; Ardui, Simon; Kammoun, Molka; Van der Veken, Lars; Lichtenbelt, Klaske; Van den Bogaert, Kris; Van Houdt, Jeroen; Peeters, Hilde; Van Esch, Hilde; de Ravel, Thomy; Legius, Eric; Devriendt, Koen; Vermeesch, Joris R

    2015-10-01

    Noninvasive prenatal testing by massive parallel sequencing of maternal plasma DNA has rapidly been adopted as a mainstream method for detection of fetal trisomy 21, 18 and 13. Despite the relative high accuracy of current NIPT testing, a substantial number of false-positive and false-negative test results remain. Here, we present an analysis pipeline, which addresses some of the technical as well as the biologically derived causes of error. Most importantly, it differentiates high z-scores due to fetal trisomies from those due to local maternal CNVs causing false positives. This pipeline was retrospectively validated for trisomy 18 and 21 detection on 296 samples demonstrating a sensitivity and specificity of 100%, and applied prospectively to 1350 pregnant women in the clinical diagnostic setting with a result reported in 99.9% of cases. In addition, values indicative for trisomy were observed two times for chromosome 7 and once each for chromosomes 15 and 16, and once for a segmental trisomy 18. Two of the trisomies were confirmed to be mosaic, one of which contained a uniparental disomy cell line. As placental trisomies pose a risk for low-grade fetal mosaicism as well as uniparental disomy, genome-wide noninvasive aneuploidy detection is improving prenatal management.

  19. Screening for Sexually Transmitted Infection Pathogens in Semen Samples

    Directory of Open Access Journals (Sweden)

    RW Peeling

    2005-01-01

    Full Text Available The transmission of sexually transmitted infection (STI pathogens from an infected donor to the recipient of a semen donation in assisted conception may result not only in acute infection but also in long-term reproductive complications or adverse outcomes of pregnancy, including infection of the offspring. Screening for bacterial STI pathogens, Chlamydia trachomatis and Neisseria gonorrhoeae is strongly recommended because these pathogens can cause serious reproductive complications in the recipients of semen donations and infection in their offspring. Screening for these pathogens should be performed using the most sensitive methods, such as nucleic acid amplified tests. False-negative results due to inhibitory substances in the semen sample should be monitored using amplification controls. Where specimen transport is not a problem and culture facilities are available, N gonorrhoeae can also be detected by culture. Laboratories performing screening should subscribe to proficiency programs and have strict quality controls. Although Trichomonas vaginalis, group B streptococcus and genital mycoplasmas have been associated with adverse outcomes of pregnancy, the frequent finding of these organisms in healthy individuals brings into question the validity of mandatory inclusion of these organisms in the screening panel. Although viral STI pathogens and Treponema pallidum -- the causative agent of syphilis -- may be detected in semen, their presence may be more sensitively detected through antibody testing of the donor. Screening donors for HIV, hepatitis B and syphilis by serology is uniformly recommended in all of the guidelines, but the value of screening either donors or semen samples for cytomegalovirus, herpes simplex viruses and human papilloma viruses is less clear.

  20. Pipeline engineering

    CERN Document Server

    Liu, Henry

    2003-01-01

    PART I: PIPE FLOWSINTRODUCTIONDefinition and Scope Brief History of PipelinesExisting Major PipelinesImportance of PipelinesFreight (Solids) Transport by PipelinesTypes of PipelinesComponents of PipelinesAdvantages of PipelinesReferencesSINGLE-PHASE INCOMPRESSIBLE NEWTONIAN FLUIDIntroductionFlow RegimesLocal Mean Velocity and Its Distribution (Velocity Profile)Flow Equations for One-Dimensional AnalysisHydraulic and Energy Grade LinesCavitation in Pipeline SystemsPipe in Series and ParallelInterconnected ReservoirsPipe NetworkUnsteady Flow in PipeSINGLE-PHASE COMPRESSIBLE FLOW IN PIPEFlow Ana

  1. Incremental Sampling Methodology: Applications for Background Screening Assessments.

    Science.gov (United States)

    Pooler, Penelope S; Goodrum, Philip E; Crumbling, Deana; Stuchal, Leah D; Roberts, Stephen M

    2018-01-01

    This article presents the findings from a numerical simulation study that was conducted to evaluate the performance of alternative statistical analysis methods for background screening assessments when data sets are generated with incremental sampling methods (ISMs). A wide range of background and site conditions are represented in order to test different ISM sampling designs. Both hypothesis tests and upper tolerance limit (UTL) screening methods were implemented following U.S. Environmental Protection Agency (USEPA) guidance for specifying error rates. The simulations show that hypothesis testing using two-sample t-tests can meet standard performance criteria under a wide range of conditions, even with relatively small sample sizes. Key factors that affect the performance include unequal population variances and small absolute differences in population means. UTL methods are generally not recommended due to conceptual limitations in the technique when applied to ISM data sets from single decision units and due to insufficient power given standard statistical sample sizes from ISM. © 2017 Society for Risk Analysis.

  2. Screening for enterotoxigenic Bacteroides fragilis in stool samples.

    Science.gov (United States)

    Keenan, Jacqueline I; Aitchison, Alan; Purcell, Rachel V; Greenlees, Rosie; Pearson, John F; Frizelle, Frank A

    2016-08-01

    Bacteroides fragilis is a commensal bacterium found in the gut of most humans, however enterotoxigenic B. fragilis strains (ETBF) have been associated with diarrhoea and colorectal cancer (CRC). The purpose of this study was to establish a method of screening for the Bacteroides fragilis toxin (bft) gene in stool samples, as a means of determining if carriage of ETBF is detected more often in CRC patients than in age-matched healthy controls. Stool samples from 71 patients recently diagnosed with CRC, and 71 age-matched controls, were screened by standard and quantitative PCR using primers specific for the detection of the bft gene. Bacterial template DNA from stool samples was prepared by two methods: a sweep, where all colonies growing on Bacteroides Bile Esculin agar following stool culture for 48 h at 37 °C in an anaerobic environment were swept into sterile water and heat treated; and a direct DNA extraction from each stool sample. The bft gene was detected more frequently from DNA isolated from bacterial sweeps than from matched direct DNA extractions. qPCR was found to be more sensitive than standard PCR in detecting bft. The cumulative total of positive qPCR assays from both sample types revealed that 19 of the CRC patients had evidence of the toxin gene in their stool sample (27%), compared to seven of the age-matched controls (10%). This difference was significant (P = 0.016). Overall, ETBF carriage was detected more often in CRC patient stool samples compared to controls, but disparate findings from the different DNA preparations and testing methods suggests that poor sensitivity may limit molecular detection of ETBF in stool samples. Copyright © 2016 Elsevier Ltd. All rights reserved.

  3. Toward fully automated high performance computing drug discovery: a massively parallel virtual screening pipeline for docking and molecular mechanics/generalized Born surface area rescoring to improve enrichment.

    Science.gov (United States)

    Zhang, Xiaohua; Wong, Sergio E; Lightstone, Felice C

    2014-01-27

    In this work we announce and evaluate a high throughput virtual screening pipeline for in-silico screening of virtual compound databases using high performance computing (HPC). Notable features of this pipeline are an automated receptor preparation scheme with unsupervised binding site identification. The pipeline includes receptor/target preparation, ligand preparation, VinaLC docking calculation, and molecular mechanics/generalized Born surface area (MM/GBSA) rescoring using the GB model by Onufriev and co-workers [J. Chem. Theory Comput. 2007, 3, 156-169]. Furthermore, we leverage HPC resources to perform an unprecedented, comprehensive evaluation of MM/GBSA rescoring when applied to the DUD-E data set (Directory of Useful Decoys: Enhanced), in which we selected 38 protein targets and a total of ∼0.7 million actives and decoys. The computer wall time for virtual screening has been reduced drastically on HPC machines, which increases the feasibility of extremely large ligand database screening with more accurate methods. HPC resources allowed us to rescore 20 poses per compound and evaluate the optimal number of poses to rescore. We find that keeping 5-10 poses is a good compromise between accuracy and computational expense. Overall the results demonstrate that MM/GBSA rescoring has higher average receiver operating characteristic (ROC) area under curve (AUC) values and consistently better early recovery of actives than Vina docking alone. Specifically, the enrichment performance is target-dependent. MM/GBSA rescoring significantly out performs Vina docking for the folate enzymes, kinases, and several other enzymes. The more accurate energy function and solvation terms of the MM/GBSA method allow MM/GBSA to achieve better enrichment, but the rescoring is still limited by the docking method to generate the poses with the correct binding modes.

  4. Rapid detection of Naegleria fowleri in water distribution pipeline biofilms and drinking water samples.

    Science.gov (United States)

    Puzon, Geoffrey J; Lancaster, James A; Wylie, Jason T; Plumb, Iason J

    2009-09-01

    Rapid detection of pathogenic Naegleria fowler in water distribution networks is critical for water utilities. Current detection methods rely on sampling drinking water followed by culturing and molecular identification of purified strains. This culture-based method takes an extended amount of time (days), detects both nonpathogenic and pathogenic species, and does not account for N. fowleri cells associated with pipe wall biofilms. In this study, a total DNA extraction technique coupled with a real-time PCR method using primers specific for N. fowleri was developed and validated. The method readily detected N. fowleri without preculturing with the lowest detection limit for N. fowleri cells spiked in biofilm being one cell (66% detection rate) and five cells (100% detection rate). For drinking water, the detection limit was five cells (66% detection rate) and 10 cells (100% detection rate). By comparison, culture-based methods were less sensitive for detection of cells spiked into both biofilm (66% detection for pipe wall biofilm samples obtained from a distribution network enabled the detection of N. fowleri in under 6 h, versus 3+ daysforthe culture based method. Further, comparison of the real-time PCR data from the field samples and the standard curves enabled an approximation of N. fowleri cells in the biofilm and drinking water. The use of such a method will further aid water utilities in detecting and managing the persistence of N. fowleri in water distribution networks.

  5. Technology recommendations for pre-screening of IAEA swipe samples

    Energy Technology Data Exchange (ETDEWEB)

    Steeb, Jennifer L. [Argonne National Lab. (ANL), Argonne, IL (United States); Smith, Nicholas A. [Argonne National Lab. (ANL), Argonne, IL (United States); Lee, Denise L. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Huckabay, Heath A. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Ticknor, Brian W. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2015-01-01

    Argonne and Oak Ridge National Laboratories have prepared an analysis of recommended, possible, and not recommended technologies for pre-screening and prioritizing IAEA swipes. The analytical techniques listed under the recommended technology list are the most promising techniques available to date. The recommended list is divided into two sections: Argonne’s recommended techniques and Oak Ridge’s recommended techniques. This list was divided based upon the expertise of staff in each subject area and/or the instrumentation available at each laboratory. The following section, titled Possible Techniques, is a list of analytical techniques that could be used for pre-screening and prioritizing swipes if additional instrumentation and effort were provided. These techniques are not necessarily top priority, but should not be discounted for future or expanded efforts. Lastly, a list of not recommended techniques is provided to outline the analytical methods and instrumentation that were investigated by each lab but deemed not suitable for this task. In addition to the recommendation list, a short procedure is provided outlining the steps followed for destructive analysis by the Network of Analytical Laboratories (NWAL) for determination of uranium concentrations, isotopic content of sample and swipe. Swipes generated for this project will be given to ORNL’s NWAL laboratory for analysis after analysis by other techniques at both laboratories.

  6. Technologies for pre-screening IAEA swipe samples

    Energy Technology Data Exchange (ETDEWEB)

    Smith, Nicholas A. [Argonne National Lab. (ANL), Argonne, IL (United States); Steeb, Jennifer L. [Argonne National Lab. (ANL), Argonne, IL (United States); Lee, Denise L. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Huckabay, Heath A. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Ticknor, Brian W. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2015-11-09

    During the course of International Atomic Energy Agency (IAEA) inspections, many samples are taken for the purpose of verifying the declared facility activities and identifying any possible undeclared activities. One of these sampling techniques is the environmental swipe sample. Due to the large number of samples collected, and the amount of time that is required to analyze them, prioritizing these swipes in the field or upon receipt at the Network of Analytical Laboratories (NWAL) will allow sensitive or mission-critical analyses to be performed sooner. As a result of this study, technologies were placed into one of three categories: recommended, promising, or not recommended. Both neutron activation analysis (NAA) and X-ray fluorescence (XRF) are recommended for further study and possible field deployment. These techniques performed the best in initial trials for pre-screening and prioritizing IAEA swipes. We learned that for NAA more characterization of cold elements (such as calcium and magnesium) would need to be emphasized, and for XRF it may be appropriate to move towards a benchtop XRF versus a handheld XRF due to the increased range of elements available on benchtop equipment. Promising techniques that will require additional research and development include confocal Raman microscopy, fluorescence microscopy, and infrared (IR) microscopy. These techniques showed substantive responses to uranium compounds, but expensive instrumentation upgrades (confocal Raman) or university engagement (fluorescence microscopy) may be necessary to investigate the utility of the techniques completely. Point-and-shoot (handheld) Raman and attenuated total reflectance–infrared (ATR-IR) measurements are not recommended, as they have not shown enough promise to continue investigations.

  7. ImagePlane: an automated image analysis pipeline for high-throughput screens using the planarian Schmidtea mediterranea.

    Science.gov (United States)

    Flygare, Steven; Campbell, Michael; Ross, Robert Mars; Moore, Barry; Yandell, Mark

    2013-08-01

    ImagePlane is a modular pipeline for automated, high-throughput image analysis and information extraction. Designed to support planarian research, ImagePlane offers a self-parameterizing adaptive thresholding algorithm; an algorithm that can automatically segment animals into anterior-posterior/left-right quadrants for automated identification of region-specific differences in gene and protein expression; and a novel algorithm for quantification of morphology of animals, independent of their orientations and sizes. ImagePlane also provides methods for automatic report generation, and its outputs can be easily imported into third-party tools such as R and Excel. Here we demonstrate the pipeline's utility for identification of genes involved in stem cell proliferation in the planarian Schmidtea mediterranea. Although designed to support planarian studies, ImagePlane will prove useful for cell-based studies as well.

  8. Noninvasive prenatal testing using a novel analysis pipeline to screen for all autosomal fetal aneuploidies improves pregnancy management

    OpenAIRE

    Bayindir, Baran; Dehaspe, Luc; Brison, Nathalie; Brady, Paul; Ardui, Simon; Kammoun, Molka; Van der Veken, Lars; Lichtenbelt, Klaske; Van den Bogaert, Kris; Van Houdt, Jeroen; Peeters, Hilde; Van Esch, Hilde; de Ravel, Thomy; Legius, Eric; Devriendt, Koen

    2015-01-01

    Noninvasive prenatal testing by massive parallel sequencing of maternal plasma DNA has rapidly been adopted as a mainstream method for detection of fetal trisomy 21, 18 and 13. Despite the relative high accuracy of current NIPT testing, a substantial number of false-positive and false-negative test results remain. Here, we present an analysis pipeline, which addresses some of the technical as well as the biologically derived causes of error. Most importantly, it differentiates high z-scores d...

  9. Cost-effectiveness of one versus two sample faecal immunochemical testing for colorectal cancer screening.

    Science.gov (United States)

    Goede, S Lucas; van Roon, Aafke H C; Reijerink, Jacqueline C I Y; van Vuuren, Anneke J; Lansdorp-Vogelaar, Iris; Habbema, J Dik F; Kuipers, Ernst J; van Leerdam, Monique E; van Ballegooijen, Marjolein

    2013-05-01

    The sensitivity and specificity of a single faecal immunochemical test (FIT) are limited. The performance of FIT screening can be improved by increasing the screening frequency or by providing more than one sample in each screening round. This study aimed to evaluate if two-sample FIT screening is cost-effective compared with one-sample FIT. The MISCAN-colon microsimulation model was used to estimate costs and benefits of strategies with either one or two-sample FIT screening. The FIT cut-off level varied between 50 and 200 ng haemoglobin/ml, and the screening schedule was varied with respect to age range and interval. In addition, different definitions for positivity of the two-sample FIT were considered: at least one positive sample, two positive samples, or the mean of both samples being positive. Within an exemplary screening strategy, biennial FIT from the age of 55-75 years, one-sample FIT provided 76.0-97.0 life-years gained (LYG) per 1000 individuals, at a cost of € 259,000-264,000 (range reflects different FIT cut-off levels). Two-sample FIT screening with at least one sample being positive provided 7.3-12.4 additional LYG compared with one-sample FIT at an extra cost of € 50,000-59,000. However, when all screening intervals and age ranges were considered, intensifying screening with one-sample FIT provided equal or more LYG at lower costs compared with two-sample FIT. If attendance to screening does not differ between strategies it is recommended to increase the number of screening rounds with one-sample FIT screening, before considering increasing the number of FIT samples provided per screening round.

  10. Leadership Pipeline

    DEFF Research Database (Denmark)

    Elmholdt, Claus Westergård

    2012-01-01

    Artiklen analyserer grundlaget for Leadership Pipeline modellen med henblik på en vurdering af substansen bag modellen, og perspektiverne for generalisering af modellen til en dansk organisatorisk kontekst.......Artiklen analyserer grundlaget for Leadership Pipeline modellen med henblik på en vurdering af substansen bag modellen, og perspektiverne for generalisering af modellen til en dansk organisatorisk kontekst....

  11. Human papillomavirus self-sampling for screening nonattenders

    DEFF Research Database (Denmark)

    Lam, Janni Uyen Hoa; Rebolj, Matejka; Ejegod, Ditte Møller

    2017-01-01

    region of Denmark were identified via the organized national invitation module. Screening history was obtained via the nationwide pathology registry. Twenty-four thousand women were invited, and as an alternative to the regular communication platforms (letter and phone), women could request a home test...

  12. External validity study of a personality disorders screening test in a community sample

    OpenAIRE

    Carvalho, Lucas de Francisco

    2017-01-01

    Abstract Background A screening test for personality disorders was recently developed in Brazil, the Dimensional Clinical Personality Inventory – screening version (IDCP-SV). However, no relationship between this screening measure and other scales or external criteria was tested. Objective To seek for validity evidence based on related criteria (e.g., other psychological tests) and external criteria (e.g., sample demographics). Methods Sample comprised 804 participants from São Paulo (B...

  13. A novel multi-scale adaptive sampling-based approach for energy saving in leak detection for WSN-based water pipelines

    Science.gov (United States)

    Saqib, Najam us; Faizan Mysorewala, Muhammad; Cheded, Lahouari

    2017-12-01

    In this paper, we propose a novel monitoring strategy for a wireless sensor networks (WSNs)-based water pipeline network. Our strategy uses a multi-pronged approach to reduce energy consumption based on the use of two types of vibration sensors and pressure sensors, all having different energy levels, and a hierarchical adaptive sampling mechanism to determine the sampling frequency. The sampling rate of the sensors is adjusted according to the bandwidth of the vibration signal being monitored by using a wavelet-based adaptive thresholding scheme that calculates the new sampling frequency for the following cycle. In this multimodal sensing scheme, the duty-cycling approach is used for all sensors to reduce the sampling instances, such that the high-energy, high-precision (HE-HP) vibration sensors have low duty cycles, and the low-energy, low-precision (LE-LP) vibration sensors have high duty cycles. The low duty-cycling (HE-HP) vibration sensor adjusts the sampling frequency of the high duty-cycling (LE-LP) vibration sensor. The simulated test bed considered here consists of a water pipeline network which uses pressure and vibration sensors, with the latter having different energy consumptions and precision levels, at various locations in the network. This is all the more useful for energy conservation for extended monitoring. It is shown that by using the novel features of our proposed scheme, a significant reduction in energy consumption is achieved and the leak is effectively detected by the sensor node that is closest to it. Finally, both the total energy consumed by monitoring as well as the time to detect the leak by a WSN node are computed, and show the superiority of our proposed hierarchical adaptive sampling algorithm over a non-adaptive sampling approach.

  14. The SEGUE Stellar Parameter Pipeline. IV. Validation with an Extended Sample of Galactic Globular and Open Clusters

    Energy Technology Data Exchange (ETDEWEB)

    Smolinski, Jason P.; Beers, Timothy C.; Lee, Young Sun; /Michigan State U. /Michigan State U., JINA; An, Deokkeun; /Ewha Women' s U., Seoul; Bickerton, Steven J.; /Princeton U., Astrophys. Sci. Dept.; Johnson, Jennifer A.; /Ohio State U., Dept. Astron.; Loomis, Craig P.; /Princeton U., Astrophys. Sci. Dept.; Rockosi, Constance M.; /Lick Observ.; Sivarani, Thirupathi; /Bangalore, Indian Inst. Astrophys.; Yanny, Brian; /Fermilab

    2010-08-01

    Spectroscopic and photometric data for likely member stars of five Galactic globular clusters (M 3, M 53, M 71, M 92, and NGC 5053) and three open clusters (M 35, NGC 2158, and NGC 6791) are processed by the current version of the SEGUE Stellar Parameter Pipeline (SSPP), in order to determine estimates of metallicities and radial velocities for the clusters. These results are then compared to values from the literature. We find that the mean metallicity (<[Fe/H]>) and mean radial velocity (hRVi) estimates for each cluster are almost all within 2{sigma} of the adopted literature values; most are within 1{sigma}. We also demonstrate that the new version of the SSPP achieves small, but noteworthy, improvements in <[Fe/H]> estimates at the extrema of the cluster metallicity range, as compared to a previous version of the pipeline software. These results provide additional confidence in the application of the SSPP for studies of the abundances and kinematics of stellar populations in the Galaxy.

  15. NMR screening and crystal quality of bacterially expressed prokaryotic and eukaryotic proteins in a structural genomics pipeline

    Science.gov (United States)

    Page, Rebecca; Peti, Wolfgang; Wilson, Ian A.; Stevens, Raymond C.; Wüthrich, Kurt

    2005-01-01

    In the Joint Center for Structural Genomics, one-dimensional (1D) 1H NMR spectroscopy is routinely used to characterize the folded state of protein targets and, thus, serves to guide subsequent crystallization efforts and to identify proteins for NMR structure determination. Here, we describe 1D 1H NMR screening of a group of 79 mouse homologue proteins, which correlates the NMR data with the outcome of subsequent crystallization experiments and crystallographic structure determination. Based on the 1D 1H NMR spectra, the proteins are classified into four groups, “A” to “D.” A-type proteins are candidates for structure determination by NMR or crystallography; “B”-type are earmarked for crystallography; “C” indicates folded globular proteins with broadened line shapes; and “D” are nonglobular, “unfolded” polypeptides. The results obtained from coarse- and fine-screen crystallization trials imply that only A- and B-type proteins should be used for extensive crystallization trials in the future, with C and D proteins subjected only to coarse-screen crystallization trials. Of the presently studied 79 soluble protein targets, 63% yielded A- or B-quality 1D 1H NMR spectra. Although similar yields of crystallization hits were obtained for all four groups, A to D, crystals from A- and B-type proteins diffracted on average to significantly higher resolution than crystals produced from C- or D-type proteins. Furthermore, the output of refined crystal structures from this test set of proteins was 4-fold higher for A- and B-type than for C- and D-type proteins. PMID:15677718

  16. Leadership Pipeline

    DEFF Research Database (Denmark)

    Elmholdt, Claus Westergård

    2013-01-01

    I artiklen undersøges det empiriske grundlag for Leader- ship Pipeline. Først beskrives Leadership Pipeline modellen om le- delsesbaner og skilleveje i opadgående transitioner mellem orga- nisatoriske ledelsesniveauer (Freedman, 1998; Charan, Drotter and Noel, 2001). Dernæst sættes fokus på det...... forholdet mellem kontinuitet- og diskontinuitet i ledel- seskompetencer på tværs af organisatoriske niveauer præsenteres og diskuteres. Afslutningsvis diskuteres begrænsningerne i en kompetencebaseret tilgang til Leadership Pipeline, og det foreslås, at succesfuld ledelse i ligeså høj grad afhænger af...

  17. Screening and evaluation of fruit samples for four pesticide residues.

    Science.gov (United States)

    Blasco, Cristina; Font, Guillermina; Mañes, Jordi; Picó, Yolanda

    2005-01-01

    The occurrence of 4 pesticide residues, imidacloprid, carbendazim, methiocarb, and hexythiazox, was assessed in several fruits (oranges, tangerines, watermelons, and date plums) from the Valencian Community (Spain). A total of 227 samples--56 oranges, 134 tangerines, 13 watermelons, and 24 date plums--were taken from an agricultural cooperative representative of the area studied during 2001. The pesticides were determined by liquid chromatography/mass spectrometry after sample extraction with ethyl acetate and anhydrous sodium sulfate. Recoveries of 4 pesticides at 2 fortification levels (0.02 and 0.2 mg/kg), the lower of which was the quantification limit, ranged from 60 to 108%. Concentrations of imidacloprid, carbendazim, methiocarb, and hexythiazox ranged from 0.02 to 0.75 mg/kg in 184 samples (54 oranges, 119 tangerines, 3 watermelons, and 8 date plums). Nineteen samples contained methiocarb or hexythiazox residues that exceeded the maximum residue limits. Calculation of the estimated daily intakes of the 4 pesticides studied and their comparison with the Acceptable Daily Intakes established by the Food and Agriculture Organization of the World Health Organization demonstrated the safety of fruit consumption and showed the importance of monitoring for pesticide residues.

  18. An Optimization-Based Reconfigurable Design for a 6-Bit 11-MHz Parallel Pipeline ADC with Double-Sampling S&H

    Directory of Open Access Journals (Sweden)

    Wilmar Carvajal

    2012-01-01

    Full Text Available This paper presents a 6 bit, 11 MS/s time-interleaved pipeline A/D converter design. The specification process, from block level to elementary circuits, is gradually covered to draw a design methodology. Both power consumption and mismatch between the parallel chain elements are intended to be reduced by using some techniques such as double and bottom-plate sampling, fully differential circuits, RSD digital correction, and geometric programming (GP optimization of the elementary analog circuits (OTAs and comparators design. Prelayout simulations of the complete ADC are presented to characterize the designed converter, which consumes 12 mW while sampling a 500 kHz input signal. Moreover, the block inside the ADC with the most stringent requirements in power, speed, and precision was sent to fabrication in a CMOS 0.35 μm AMS technology, and some postlayout results are shown.

  19. Fluorimetric screening assay for protein carbonyl evaluation in biological samples.

    Science.gov (United States)

    Stocker, P; Ricquebourg, E; Vidal, N; Villard, C; Lafitte, D; Sellami, L; Pietri, S

    2015-08-01

    Many assays are available for the detection of protein carbonyls (PCs). Currently, the measurement of PC groups after their derivatization with 2,4-dinitrophenol hydrazine (DNPH) is widely used for measuring protein oxidation in biological samples. However, this method includes several washing steps. In this context, we have developed a rapid, sensitive, and accurate fluorimetric method adapted to 96-well microplates for the convenient assessment of protein carbonyl level in biological samples. The method reported here is based on the reaction of carbonyl content in proteins with 7-hydrazino-4-nitrobenzo-2,1,3-oxadiazole (NBDH) to form highly fluorescent derivatives via hydrazone formation. PCs were determined using the DNPH and NBDH assays in fully reduced bovine serum albumin (BSA) and plasma and liver homogenates obtained from healthy control rats up the addition of various amounts of HOCl-oxidized BSA (OxBSA). Using the NBDH assay, PC concentrations as low as 0.2 nmol/mg were detected with precision as low as 5%. Matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectroscopy was used to successfully identify the formation of the NBDH adducts after derivatization with standard oxidized peptides. Finally, the two methods were further used for PC determination in plasma and liver samples from diabetic and normal rats, showing that the NBDH assay can be reliably used in biological experiments. Copyright © 2015 Elsevier Inc. All rights reserved.

  20. Treatment screening for internal corrosion control of PETROBRAS oil pipelines; Selecao de tratamento para controle da corrosao interna de oleodutos da PETROBRAS

    Energy Technology Data Exchange (ETDEWEB)

    Andrade, Cynthia de Azevedo; Muller, Eduardo Gullo [PETROBRAS, Rio de Janeiro, RJ (Brazil). Centro de Pesquisas; Antunes, Warlley Ligorio; Shioya, Nilce Hiromi; Salvador, Angelica Dias [PETROBRAS, RJ (Brazil). Unidade de Negocios da Bacia de Campos

    2005-07-01

    The use of corrosion inhibitors is spread out in oil and gas industry and is the most common methodology to control pipeline internal corrosion. However, their effectiveness depends on the pipeline material, inhibitor composition, flow type and scale characteristics. When a pipeline has heavy scale deposits, thick bacterial biofilm, or oxygen contamination, the corrosion control via filmic inhibitors is not effective. So, the only way to control internal corrosion of an oil pipeline is to primary identifies the corrosive agent and the main corrosion mechanism. The monitoring of the inhibitor efficiency and the determination of minimal residual concentration to prevent corrosion, are also fundamental. In this paper, is presented the criteria used to identify the main corrosion mechanism of oil pipelines, the treatment proposed in each case and the techniques employed in real time corrosion monitoring. (author)

  1. Screening of various diesel particulate matter samples from various commodity mines

    CSIR Research Space (South Africa)

    Mahlangu, Vusi J

    2016-09-01

    Full Text Available This paper presents qualitative analysis results of diesel particulate matter (DPM) from various mining commodities in South Africa. The objective of this work was to determine the concentrations of elements in DPM samples. For this screening...

  2. Predictive Properties of the Gesell School Readiness Screening Test within Samples from Two Treatment Contexts.

    Science.gov (United States)

    Banerji, Madhabi

    The predictive properties of the Gesell School Readiness Screening Test (GSRT) were examined, taking into account the stated purposes of the test and the context of test use. Two samples were used: (1) a control sample of 55 students (21 males and 34 females) whose GSRT scores were not used for placement or tracking; and (2) a treatment sample of…

  3. Screening assay of residual antibiotics in livestock samples by LC-MS/MS.

    Science.gov (United States)

    Nakajima, Takayuki; Sasamoto, Takeo; Hayashi, Hiroshi; Kanda, Maki; Takeba, Kazue; Kanai, Setsuko; Kusano, Tomoko; Matsushima, Yoko; Takano, Ichiro

    2012-01-01

    A LC-MS/MS screening assay of multi-class antibiotics was developed for 19 residual antibiotics in livestock samples. Sample preparation employed the QuEChERS (Quick, Easy, Cheap, Effective, Rugged and Safe) approach using 0.5% formic acid in acetonitrile-methanol (8 : 2), with salting-out using magnesium sulfate, trisodium citrate and sodium chloride. Recovery values from 5 different livestock samples ranged from 45.5 to 121.6%, and the RSDs were under 18% at two concentration levels. The limit of quantification values of 19 analytes were under 10 µg/kg in all livestock samples, and the procedure can detect almost all analytes under the MRL. Screening capability was confirmed by employing spiked samples. This new screening assay for residual antibiotics in livestock samples is expected to be useful for routine laboratory tests.

  4. Recommended Immunological Assays to Screen for Ricin-Containing Samples

    Directory of Open Access Journals (Sweden)

    Stéphanie Simon

    2015-11-01

    Full Text Available Ricin, a toxin from the plant Ricinus communis, is one of the most toxic biological agents known. Due to its availability, toxicity, ease of production and absence of curative treatments, ricin has been classified by the Centers for Disease Control and Prevention (CDC as category B biological weapon and it is scheduled as a List 1 compound in the Chemical Weapons Convention. An international proficiency test (PT was conducted to evaluate detection and quantification capabilities of 17 expert laboratories. In this exercise one goal was to analyse the laboratories’ capacity to detect and differentiate ricin and the less toxic, but highly homologuous protein R. communis agglutinin (RCA120. Six analytical strategies are presented in this paper based on immunological assays (four immunoenzymatic assays and two immunochromatographic tests. Using these immunological methods “dangerous” samples containing ricin and/or RCA120 were successfully identified. Based on different antibodies used the detection and quantification of ricin and RCA120 was successful. The ricin PT highlighted the performance of different immunological approaches that are exemplarily recommended for highly sensitive and precise quantification of ricin.

  5. Pipeline Power

    OpenAIRE

    Hubert, Franz; Cobanli, Onur

    2012-01-01

    We use cooperative game theory to analyze the impact of three controversial pipeline projects on the power structure in the Eurasian trade of natural gas. Two of them, Nord Stream and South Stream, allow Russian gas to bypass transit countries, Ukraine and Belarus. Nord Stream’s strategic value turns out to be huge, justifying the high investment cost for Germany and Russia. The additional leverage obtained through South Stream, in contrast, appears small. The third project, Nabucco, aims at ...

  6. Estimating screening-mammography receiver operating characteristic (ROC) curves from stratified random samples of screening mammograms: a simulation study.

    Science.gov (United States)

    Zur, Richard M; Pesce, Lorenzo L; Jiang, Yulei

    2015-05-01

    To evaluate stratified random sampling (SRS) of screening mammograms by (1) Breast Imaging Reporting and Data System (BI-RADS) assessment categories, and (2) the presence of breast cancer in mammograms, for estimation of screening-mammography receiver operating characteristic (ROC) curves in retrospective observer studies. We compared observer study case sets constructed by (1) random sampling (RS); (2) SRS with proportional allocation (SRS-P) with BI-RADS 1 and 2 noncancer cases accounting for 90.6% of all noncancer cases; (3) SRS with disproportional allocation (SRS-D) with BI-RADS 1 and 2 noncancer cases accounting for 10%-80%; and (4) SRS-D and multiple imputation (SRS-D + MI) with missing BI-RADS 1 and 2 noncancer cases imputed to recover the 90.6% proportion. Monte Carlo simulated case sets were drawn from a large case population modeled after published Digital Mammography Imaging Screening Trial data. We compared the bias, root-mean-square error, and coverage of 95% confidence intervals of area under the ROC curve (AUC) estimates from the sampling methods (200-2000 cases, of which 25% were cancer cases) versus from the large case population. AUC estimates were unbiased from RS, SRS-P, and SRS-D + MI, but biased from SRS-D. AUC estimates from SRS-P and SRS-D + MI had 10% smaller root-mean-square error than RS. Both SRS-P and SRS-D + MI can be used to obtain unbiased and 10% more efficient estimate of screening-mammography ROC curves. Copyright © 2015 AUR. Published by Elsevier Inc. All rights reserved.

  7. The HLA-net GENE[RATE] pipeline for effective HLA data analysis and its application to 145 population samples from Europe and neighbouring areas.

    Science.gov (United States)

    Nunes, J M; Buhler, S; Roessli, D; Sanchez-Mazas, A

    2014-05-01

    In this review, we present for the first time an integrated version of the Gene[rate] computer tools which have been developed during the last 5 years to analyse human leukocyte antigen (HLA) data in human populations, as well as the results of their application to a large dataset of 145 HLA-typed population samples from Europe and its two neighbouring areas, North Africa and West Asia, now forming part of the Gene[va] database. All these computer tools and genetic data are, from now, publicly available through a newly designed bioinformatics platform, HLA-net, here presented as a main achievement of the HLA-NET scientific programme. The Gene[rate] pipeline offers user-friendly computer tools to estimate allele and haplotype frequencies, to test Hardy-Weinberg equilibrium (HWE), selective neutrality and linkage disequilibrium, to recode HLA data, to convert file formats, to display population frequencies of chosen alleles and haplotypes in selected geographic regions, and to perform genetic comparisons among chosen sets of population samples, including new data provided by the user. Both numerical and graphical outputs are generated, the latter being highly explicit and of publication quality. All these analyses can be performed on the pipeline after scrupulous validation of the population sample's characterisation and HLA typing reporting according to HLA-NET recommendations. The Gene[va] database offers direct access to the HLA-A, -B, -C, -DQA1, -DQB1, -DRB1 and -DPB1 frequencies and summary statistics of 145 population samples having successfully passed these HLA-NET 'filters', and representing three European subregions (South-East, North-East and Central-West Europe) and two neighbouring areas (North Africa, as far as Sudan, and West Asia, as far as South India). The analysis of these data, summarized in this review, shows a substantial genetic variation at the regional level in this continental area. These results have main implications for population genetics

  8. A low power and low signal 4 bit 50MS/s double sampling pipelined ADC for monolithie active pixel sensors

    CERN Document Server

    Dahoumane, M; Bouvier, J; Lagorio, E; Hostachy, J Y; Gallin-Martel, L; Hostachy, J Y; Rossetto, O; Hu, Y; Ghazlane, H; Dallet, D

    2007-01-01

    A 4 bit very low power and low incoming signal analog to digital converter (ADC) using a double sampling switched capacitor technique, designed for use in CMOS monolithic active pixels sensor readout, has been implemented in 0.35μm CMOS technology. A non-resetting sample and hold stage is integrated to amplify the incoming signal by 4. This first stage compensates both the amplifier offset effect and the input common mode voltage fluctuations. The converter is composed of a 2.5 bit pipeline stage followed by a 2 bit flash stage. This prototype consists of 4 ADC double-channels; each one is sampling at 50MS/s and dissipates only 2.6mW at 3.3V supply voltage. A bias pulsing stage is integrated in the circuit. Therefore, the analog part is switched OFF or ON in less than 1μs. The size for the layout is 80μm*0.9mm. This corresponds to the pitch of 4 pixel columns, each one is 20μm wide.

  9. External validity study of a personality disorders screening test in a community sample

    Directory of Open Access Journals (Sweden)

    Lucas de Francisco Carvalho

    Full Text Available Abstract Background A screening test for personality disorders was recently developed in Brazil, the Dimensional Clinical Personality Inventory – screening version (IDCP-SV. However, no relationship between this screening measure and other scales or external criteria was tested. Objective To seek for validity evidence based on related criteria (e.g., other psychological tests and external criteria (e.g., sample demographics. Methods Sample comprised 804 participants from São Paulo (Brazil, most female and college students, with mean age equal to 29.65 (SD = 10.73. They answered the IDCP-SV and another screening for personality disorders (IPDS, a depression measure (EBADEP-screening, a scale assessing reasoning for living (EMVIVER, and a self-report for personality disorders categories assessment (SCID-II-PQ. Results IDCP-SV identified 46.4% of community sample as positive for personality disorders. The positive group showed the great mean for almost all comparisions, including psychological tests and the demographics characteristics, including large expressive effect sizes. Discussion Data suggest that the IDCP-SV discriminates a similar percentage of people from the community to what was reported previously using other screening measures; besides, the mean comparisons between groups showed good discriminative capacity by IDCP-SV items.

  10. Microfluidic devices for sample clean-up and screening of biological samples

    NARCIS (Netherlands)

    Tetala, K.K.R.

    2009-01-01

    Analytical chemistry plays an important role in the separation and identification of analytes from raw samples (e.g. plant extracts, blood), but the whole analytical process is tedious, difficult to automate and time consuming. To overcome these drawbacks, the concept of μTAS (miniaturized total

  11. Validity of a Screening Question for Head Tremor: An Analysis of Four Essential Tremor Case Samples

    Science.gov (United States)

    Louis, Elan D.; Michalec, Monika

    2014-01-01

    Background The goal of this study was to assess the validity of a screening question for head tremor in essential tremor (ET). There are no published data on this topic, and the knowledge will guide future epidemiological investigations of this disorder. Methods These analyses utilized four distinct patient samples: a population-based study in northern Manhattan, a study of the environmental epidemiology of ET, a genetics study, and a brain repository. Sensitivity was the proportion of ET cases with head tremor on examination who self-reported head tremor. Results The sensitivity of the screening question for head tremor was lowest in the population-based study (31.6%), and higher as well as somewhat similar across the remaining studies (46.7% to 62.2%). Higher sensitivity was associated with tremor of longer duration, presence of voice tremor on examination, female gender, and lower education. The use of the screening question would have increased case ascertainment during the screening phase of these four studies by 1.9%, 4.1%, 10.2% and 20.3%. Conclusions A screening question for head tremor had low to moderate sensitivity in ET. The use of such a screening questionnaire, however, has the potential to increase case ascertainment by as much as 20% in some screening settings. PMID:25323630

  12. Efficacy of self-sampling in promoting participation to cervical cancer screening also in subsequent round.

    Science.gov (United States)

    Del Mistro, Annarosa; Frayle, Helena; Ferro, Antonio; Fantin, Gianpiero; Altobelli, Emma; Giorgi Rossi, Paolo

    2017-03-01

    Offering self-sampling devices improves participation of under-screened women. We evaluated participation in routine screening following the self-sampling intervention in two organized population-based screening programmes located in North-East Italy. Data on participation at 3-years-interval after a randomized clinical trial assessing the response to two strategies offering self-samplers (sent at home or offered free at local pharmacy) with a control action (sending reminders for a cervical specimen taken at the clinic) in 30-64 yr-old women non-respondent to the regular call-recall invitation were analyzed. Up to April 2016, 2300 women out of the 2995 recruited in the trial in 2011 were re-invited to perform a screening test at clinic; overall, 698 women adhered. Participation was similar in the three arms (29-32%), and highest (47-68%) among those who participated in the previous round. Over the two rounds, 44.6%, 32.3% and 30.3% women had at least one test in the self-sampling at home, self-sampling at pharmacy and test at the clinic arms, respectively. Our data indicate that the beneficial effect of offering self-sampling devices to nonparticipating women is maintained over time. Self-samplers are useful to increase overall coverage; their sporadic use does not seem to increase the proportion of women regularly repeating the test.

  13. Delay in blood sampling for routine newborn screening is associated with increased risk of schizophrenia

    DEFF Research Database (Denmark)

    Nordentoft, Merete; Tidselbak Larsen, Janne; Pedersen, Carsten Bøcker

    2015-01-01

    BACKGROUND: The Danish Neonatal Screening Biobank, containing dried blood spot samples from all newborn in Denmark, is a unique source of data that can be utilized for analyses of genetic and environmental exposures related to schizophrenia and other mental disorders. In previous analyses, we hav...... in future analyses of genetic and environmental risk factors....

  14. Chorionic villus sampling for abnormal screening compared to historical indications: prevalence of abnormal karyotypes.

    Science.gov (United States)

    Marshall, Nicole E; Fraley, Gwen; Feist, Cori; Burns, Michael J; Pereira, Leonardo

    2012-08-01

    To determine the prevalence of abnormal karyotype results in women undergoing chorionic villus sampling (CVS) for abnormal first trimester screening compared to CVS for historical indications (advanced maternal age (AMA) or prior aneuploidy). Retrospective cohort of all patients undergoing CVS at Oregon Health & Science University from January 2006 to June 2010. Patients were separated based on CVS indication: (1) positive ultrasound (U/S) or serum screening; or (2) AMA or prior aneuploidy with normal or no screening. Prevalence of abnormal karyotype results were compared between groups. Fetal karyotyping was successful in 500 of 506 CVS procedures performed. 203 CVS were performed for positive screening with 69 abnormal karyotypes (34.0%). 264 CVS were performed for historical indications with 11 abnormal karyotypes (4.2%). This difference was statistically significant (χ(2) 71.9, p abnormal U/S and/or serum screening (35 U/S, 4 serum, 3 U/S and serum). Combined ultrasound and serum screening should be recommended to all women, including AMA women, prior to undergoing invasive testing to improve risk-based counseling and minimize morbidity.

  15. Self-Sampling for Human Papillomavirus Testing among Non-Attenders Increases Attendance to the Norwegian Cervical Cancer Screening Programme

    DEFF Research Database (Denmark)

    Enerly, Espen; Bonde, Jesper; Schee, Kristina

    2016-01-01

    Increasing attendance to screening offers the best potential for improving the effectiveness of well-established cervical cancer screening programs. Self-sampling at home for human papillomavirus (HPV) testing as an alternative to a clinical sampling can be a useful policy to increase attendance....... To determine whether self-sampling improves screening attendance for women who do not regularly attend the Norwegian Cervical Cancer Screening Programme (NCCSP), 800 women aged 25-69 years in the Oslo area who were due to receive a 2nd reminder to attend regular screening were randomly selected and invited...... were 33.4% in the intervention group and 23.2% in the control group, with similar attendance rates for both self-sampling devices. Women in the self-sampling subgroup responded favorably to both self-sampling devices and cited not remembering receiving a call for screening as the most dominant reason...

  16. Influence of Spirituality and Modesty on Acceptance of Self-Sampling for Cervical Cancer Screening.

    Science.gov (United States)

    Dareng, Eileen O; Jedy-Agba, Elima; Bamisaye, Patience; Isa Modibbo, Fatima; Oyeneyin, Lawal O; Adewole, Ayodele S; Olaniyan, Olayinka B; Dakum, Patrick S; Pharoah, Paul D; Adebamowo, Clement A

    2015-01-01

    Whereas systematic screening programs have reduced the incidence of cervical cancer in developed countries, the incidence remains high in developing countries. Among several barriers to uptake of cervical cancer screening, the roles of religious and cultural factors such as modesty have been poorly studied. Knowledge about these factors is important because of the potential to overcome them using strategies such as self-collection of cervico-vaginal samples. In this study we evaluate the influence of spirituality and modesty on the acceptance of self-sampling for cervical cancer screening. We enrolled 600 participants in Nigeria between August and October 2014 and collected information on spirituality and modesty using two scales. We used principal component analysis to extract scores for spirituality and modesty and logistic regression models to evaluate the association between spirituality, modesty and preference for self-sampling. All analyses were performed using STATA 12 (Stata Corporation, College Station, Texas, USA). Some 581 (97%) women had complete data for analysis. Most (69%) were married, 50% were Christian and 44% were from the south western part of Nigeria. Overall, 19% (110/581) of the women preferred self-sampling to being sampled by a health care provider. Adjusting for age and socioeconomic status, spirituality, religious affiliation and geographic location were significantly associated with preference for self-sampling, while modesty was not significantly associated. The multivariable OR (95% CI, p-value) for association with self-sampling were 0.88 (0.78-0.99, 0.03) for spirituality, 1.69 (1.09-2.64, 0.02) for religious affiliation and 0.96 (0.86-1.08, 0.51) for modesty. Our results show the importance of taking cultural and religious beliefs and practices into consideration in planning health interventions like cervical cancer screening. To succeed, public health interventions and the education to promote it must be related to the target

  17. Semiautomated TaqMan PCR screening of GMO labelled samples for (unauthorised) GMOs.

    Science.gov (United States)

    Scholtens, Ingrid M J; Molenaar, Bonnie; van Hoof, Richard A; Zaaijer, Stephanie; Prins, Theo W; Kok, Esther J

    2017-06-01

    In most countries, systems are in place to analyse food products for the potential presence of genetically modified organisms (GMOs), to enforce labelling requirements and to screen for the potential presence of unauthorised GMOs. With the growing number of GMOs on the world market, a larger diversity of methods is required for informative analyses. In this paper, the specificity of an extended screening set consisting of 32 screening methods to identify different crop species (endogenous genes) and GMO elements was verified against 59 different GMO reference materials. In addition, a cost- and time-efficient strategy for DNA isolation, screening and identification is presented. A module for semiautomated analysis of the screening results and planning of subsequent event-specific tests for identification has been developed. The Excel-based module contains information on the experimentally verified specificity of the element methods and of the EU authorisation status of the GMO events. If a detected GMO element cannot be explained by any of the events as identified in the same sample, this may indicate the presence of an unknown unauthorised GMO that may not yet have been assessed for its safety for humans, animals or the environment.

  18. Prevalence of Human Papillomavirus in Self-Taken Samples from Screening Nonattenders

    DEFF Research Database (Denmark)

    Lam, J U H; Rebolj, M; Ejegod, D M

    2017-01-01

    on the physician-taken follow-up sample. The CLART and Onclarity assays agreed on 64% (95% confidence interval [CI], 60 to 68%) of the HPV-positive self-taken samples. When the HC2 assay results were added into a three-way comparison, the level of agreement decreased to 27% (95% CI, 24 to 29%). Our findings......The Copenhagen Self-Sampling Initiative (CSi) has shown how human papillomavirus (HPV)-based self-sampling can be used to increase screening participation among 23,632 nonattenders in the Capital Region of Denmark. In this study, we describe HPV prevalence and genotype frequency in 4,824 self......-samples as determined by three HPV assays (the CLART, Onclarity, and Hybrid Capture 2 [HC2] assays) and compare the results with those for physician-taken follow-up samples. The HPV self-sample findings were also compared to the findings for a reference population of 3,347 routinely screened women from the Horizon...

  19. Barrier screens: a method to sample blood-fed and host-seeking exophilic mosquitoes

    Directory of Open Access Journals (Sweden)

    Burkot Thomas R

    2013-02-01

    Full Text Available Abstract Background Determining the proportion of blood meals on humans by outdoor-feeding and resting mosquitoes is challenging. This is largely due to the difficulty of finding an adequate and unbiased sample of resting, engorged mosquitoes to enable the identification of host blood meal sources. This is particularly difficult in the south-west Pacific countries of Indonesia, the Solomon Islands and Papua New Guinea where thick vegetation constitutes the primary resting sites for the exophilic mosquitoes that are the primary malaria and filariasis vectors. Methods Barrier screens of shade-cloth netting attached to bamboo poles were constructed between villages and likely areas where mosquitoes might seek blood meals or rest. Flying mosquitoes, obstructed by the barrier screens, would temporarily stop and could then be captured by aspiration at hourly intervals throughout the night. Results In the three countries where this method was evaluated, blood-fed females of Anopheles farauti, Anopheles bancroftii, Anopheles longirostris, Anopheles sundaicus, Anopheles vagus, Anopheles kochi, Anopheles annularis, Anopheles tessellatus, Culex vishnui, Culex quinquefasciatus and Mansonia spp were collected while resting on the barrier screens. In addition, female Anopheles punctulatus and Armigeres spp as well as male An. farauti, Cx. vishnui, Cx. quinquefasciatus and Aedes species were similarly captured. Conclusions Building barrier screens as temporary resting sites in areas where mosquitoes were likely to fly was an extremely time-effective method for collecting an unbiased representative sample of engorged mosquitoes for determining the human blood index.

  20. Underground pipeline corrosion

    CERN Document Server

    Orazem, Mark

    2014-01-01

    Underground pipelines transporting liquid petroleum products and natural gas are critical components of civil infrastructure, making corrosion prevention an essential part of asset-protection strategy. Underground Pipeline Corrosion provides a basic understanding of the problems associated with corrosion detection and mitigation, and of the state of the art in corrosion prevention. The topics covered in part one include: basic principles for corrosion in underground pipelines, AC-induced corrosion of underground pipelines, significance of corrosion in onshore oil and gas pipelines, n

  1. Rapid screening of 90Sr activity in water and milk samples using Cherenkov radiation.

    Science.gov (United States)

    Stamoulis, K C; Ioannides, K G; Karamanis, D T; Patiris, D C

    2007-01-01

    A method for screening 90Sr in milk samples is proposed. This method is based on a liquid scintillation technique taking advantage of Cherenkov radiation, which is produced in a liquid medium and then detected by the photomultipliers of a Liquid Scintillation Counter (LSC). Twenty millilitres of water and milk samples spiked with various concentrations of 90Sr/90Y in equilibrium were added in plastic vials and then were measured with an LSC (TriCarb 3170 TR/SL). The derived efficiencies were 49% for water samples and 14% for milk samples. The detection limit was 470 mBq L(-1)(90)Sr for water, without any pretreatment. Milk contains potassium, which also produces Cherenkov radiation due to the presence of 40K. For this reason, the interference of 40K in the measurements of 90Sr in milk samples was also investigated. The detection limit for milk was 1.7 Bq L(-1)90Sr.

  2. Dried urine spots - A novel sampling technique for comprehensive LC-MSn drug screening.

    Science.gov (United States)

    Michely, Julian A; Meyer, Markus R; Maurer, Hans H

    2017-08-22

    Dried matrix spot (DMS) technique as alternative sampling strategy, especially dried urine spots (DUS), might be an alternative for drug screening. So far only particular drugs or drug classes were covered in DMS screenings. Therefore, workup of DUS for a broad comprehensive library-based LC-MSn screening was developed. It consisted of enzymatic on-spot deconjugation followed by liquid extraction and LC-MSn analysis. This workup was compared to established urine precipitation (UP) and validated according to international guidelines for qualitative approaches, using exemplary compounds of several drug classes (antidepressants, benzodiazepines, cardiovascular drugs, neuroleptics, opioids, stimulants, etc.) with a broad range of (physico-)chemical properties and chromatographic behaviors. On-spot conjugate cleavage and liquid extraction was sufficient for most compounds and the validation results comparable to those obtained after simple UP. For demonstrating the applicability, 103 authentic urine samples, six rat urine samples after low dose substance administrations, and two proficiency tests for systematic toxicological urinalysis were worked up with the new DUS approach or by UP without or with conjugate cleavage. In the authentic urine samples, 112 different drugs out of 43 categories plus metabolites were identified via the used LC-MSn library. With the new DUS approach, 5% less positive hits could be found compared to the UP approach and 15% less than the latter after conjugate cleavage. The differences should be caused mainly by smaller urine volumes used for DUS. In the two proficiency tests, all 15 drugs could be detected. Unfortunately, all three approaches were not able to detect very low-dosed substances in rat urine samples. However, they could be detected using a more sensitive LC-high resolution-MS/MS approach showing that the DUS workup was also suitable for those. In conclusion, DUS might be an alternative sampling technique for comprehensive drug

  3. Fast screening of ketamine in biological samples based on molecularly imprinted photonic hydrogels

    Energy Technology Data Exchange (ETDEWEB)

    Meng, Liang [Department of Forensic Science, People' s Public Security University of China, Beijing (China); Meng, Pinjia, E-mail: mengpinjia@163.com [Department of Forensic Science, People' s Public Security University of China, Beijing (China); Zhang, Qingqing; Wang, Yanji [Department of Forensic Science, People' s Public Security University of China, Beijing (China)

    2013-04-10

    Graphical abstract: A novel label-free colorimetric chemosensor: with the increase in the concentration of ketamine, the Bragg diffraction peak of MIPHs gradually shifted to the longer wavelength region. Accompanying the peak shift, the color change of MIPHs was also observed obviously: from green to red. Highlights: ► We developed the label-free colorimetric MIPHs for handy and fast screening of ketamine. ► The obvious color change of MIPHs was observed upon ketamine. ► The MIPHs exhibited good sensing abilities in an aqueous environment. ► The sensing mechanisms of the water-compatible MIPHs were investigated. ► The MIPHs were employed to screening ketamine in real biological samples. -- Abstract: A novel label-free colorimetric chemosensor was developed for handy and fast screening of ketamine with high sensitivity and specificity based on molecularly imprinted photonic hydrogels (MIPHs) that combined the colloidal-crystal with molecular imprinting technique. The unique inverse opal arrays with a thin polymer wall in which the imprinted nanocavities of ketamine moleculars distributed allowed high sensitive, quick responsive, specific detection of the target analyte, and good regenerating ability in an aqueous environment. Due to the hierarchical inverse opal structural characteristics, the specific ketamine molecular recognition process can induce obvious swelling of the MIPHs to be directly transferred into visually perceptible optical signal (change in color) which can be detected by the naked eye through Bragg diffractive shifts of ordered macroporous arrays. In order to enhance the recognition ability in aqueous environments, the MIPHs were designed as water-compatible and synthesized in a water–methanol system. The molecular recognition mechanisms were investigated. The proposed MIPHs were successfully employed to screen trace level ketamine in human urine and saliva samples, exhibiting high sensitivity, rapid response, and specificity in the

  4. High-grade cervical intraepithelial neoplasia in human papillomavirus self-sampling of screening non-attenders

    DEFF Research Database (Denmark)

    Lam, J U H; Elfström, K M; Ejegod, D. M.

    2017-01-01

    BACKGROUND: Self-sampling for human papillomavirus (HPV) offered to women who do not participate in cervical cancer screening is an increasingly popular method to increase screening coverage. The rationale behind self-sampling is that unscreened women harbour a high proportion of undetected...

  5. Factor Structure, Internal Consistency, and Screening Sensitivity of the GARS-2 in a Developmental Disabilities Sample

    Directory of Open Access Journals (Sweden)

    Martin A. Volker

    2016-01-01

    Full Text Available The Gilliam Autism Rating Scale-Second Edition (GARS-2 is a widely used screening instrument that assists in the identification and diagnosis of autism. The purpose of this study was to examine the factor structure, internal consistency, and screening sensitivity of the GARS-2 using ratings from special education teaching staff for a sample of 240 individuals with autism or other significant developmental disabilities. Exploratory factor analysis yielded a correlated three-factor solution similar to that found in 2005 by Lecavalier for the original GARS. Though the three factors appeared to be reasonably consistent with the intended constructs of the three GARS-2 subscales, the analysis indicated that more than a third of the GARS-2 items were assigned to the wrong subscale. Internal consistency estimates met or exceeded standards for screening and were generally higher than those in previous studies. Screening sensitivity was .65 and specificity was .81 for the Autism Index using a cut score of 85. Based on these findings, recommendations are made for instrument revision.

  6. Gestational age at biochemical sampling in first trimester screening for trisomy 18 and 13

    DEFF Research Database (Denmark)

    Petersen, Olav Bjørn; Ekelund, Charlotte; Kirkegaard, Ida

    Objective: To determine if gestational age at serum sampling affect the discriminative value of PAPP-A and free β hCG in relation to trisomy 18 (T18) and trisomy 13 (T13). Methods: We retrospectively searched for T18 and T13 cases in the Astraia database at two large Fetal Medicne Centres...... in Denmark (Copenhagen University Hospital, Rigshospitalet, and Aarhus University Hospital, Skejby). First trimester screening data was retrieved, including cytogenetic and biochemical results (PAPP-A and free β hCG). Regression analysis was applied to model the relationship between log MoM values of PAPP......-A and free β hCG. We also reviewed prospective data from the centres above as well from Copenhagen University Hospital, Hvidovre, with repeated biochemical sampling: An with early BC sample taken prior to the NT scan, and a late BC sample taken at the time of the NT scan. Results: In the retrospective data...

  7. On-chip polarimetry for high-throughput screening of nanoliter and smaller sample volumes

    Science.gov (United States)

    Bornhop, Darryl J. (Inventor); Dotson, Stephen (Inventor); Bachmann, Brian O. (Inventor)

    2012-01-01

    A polarimetry technique for measuring optical activity that is particularly suited for high throughput screening employs a chip or substrate (22) having one or more microfluidic channels (26) formed therein. A polarized laser beam (14) is directed onto optically active samples that are disposed in the channels. The incident laser beam interacts with the optically active molecules in the sample, which slightly alter the polarization of the laser beam as it passes multiple times through the sample. Interference fringe patterns (28) are generated by the interaction of the laser beam with the sample and the channel walls. A photodetector (34) is positioned to receive the interference fringe patterns and generate an output signal that is input to a computer or other analyzer (38) for analyzing the signal and determining the rotation of plane polarized light by optically active material in the channel from polarization rotation calculations.

  8. Combining in silico and in cerebro approaches for virtual screening and pose prediction in SAMPL4

    Science.gov (United States)

    Voet, Arnout R. D.; Kumar, Ashutosh; Berenger, Francois; Zhang, Kam Y. J.

    2014-04-01

    The SAMPL challenges provide an ideal opportunity for unbiased evaluation and comparison of different approaches used in computational drug design. During the fourth round of this SAMPL challenge, we participated in the virtual screening and binding pose prediction on inhibitors targeting the HIV-1 integrase enzyme. For virtual screening, we used well known and widely used in silico methods combined with personal in cerebro insights and experience. Regular docking only performed slightly better than random selection, but the performance was significantly improved upon incorporation of additional filters based on pharmacophore queries and electrostatic similarities. The best performance was achieved when logical selection was added. For the pose prediction, we utilized a similar consensus approach that amalgamated the results of the Glide-XP docking with structural knowledge and rescoring. The pose prediction results revealed that docking displayed reasonable performance in predicting the binding poses. However, prediction performance can be improved utilizing scientific experience and rescoring approaches. In both the virtual screening and pose prediction challenges, the top performance was achieved by our approaches. Here we describe the methods and strategies used in our approaches and discuss the rationale of their performances.

  9. Bleach treatment of sputum samples aids pulmonary tuberculosis screening among HIV-infected patients in Laos.

    Science.gov (United States)

    Thammavong, C; Paboriboune, P; Bouchard, B; Harimanana, A; Babin, F-X; Phimmasone, P; Berland, J-L; Buisson, Y

    2011-10-01

    Laos has a high prevalence of tuberculosis (TB) and a slowly increasing prevalence of human immunodeficiency virus/acquired immunedeficiency syndrome (HIV/AIDS). Sputum smear microscopy is the only method currently available for routine screening of pulmonary TB, although it only detects one in three cases among persons living with HIV (PLWH). Bleach treatment of sputum samples (bleach method) has been shown to significantly improve the sensitivity of the test; however, its effectiveness in PLWH remains to be determined in Laos. To determine the performance of the bleach method as a diagnostic tool for pulmonary TB in PLWH and to assess its cost-effectiveness in Laos. Of 174 sputum samples collected from 92 patients, 29 were culture-positive for Mycobacterium tuberculosis in 17 patients. The sensitivity of the direct method and the bleach method was respectively 59% and 93%, and specificity was 100% for both methods. The incremental cost-effectiveness ratio for screening an additional case was US$17.40. The bleach method is simple, cheap, easy to perform and cost-effective in PLWH. Its implementation in laboratories involved in routine screening of pulmonary TB among PLWH would allow practitioners to start the treatment of this life-threatening co-infection earlier.

  10. Combining in silico and in cerebro approaches for virtual screening and pose prediction in SAMPL4.

    Science.gov (United States)

    Voet, Arnout R D; Kumar, Ashutosh; Berenger, Francois; Zhang, Kam Y J

    2014-04-01

    The SAMPL challenges provide an ideal opportunity for unbiased evaluation and comparison of different approaches used in computational drug design. During the fourth round of this SAMPL challenge, we participated in the virtual screening and binding pose prediction on inhibitors targeting the HIV-1 integrase enzyme. For virtual screening, we used well known and widely used in silico methods combined with personal in cerebro insights and experience. Regular docking only performed slightly better than random selection, but the performance was significantly improved upon incorporation of additional filters based on pharmacophore queries and electrostatic similarities. The best performance was achieved when logical selection was added. For the pose prediction, we utilized a similar consensus approach that amalgamated the results of the Glide-XP docking with structural knowledge and rescoring. The pose prediction results revealed that docking displayed reasonable performance in predicting the binding poses. However, prediction performance can be improved utilizing scientific experience and rescoring approaches. In both the virtual screening and pose prediction challenges, the top performance was achieved by our approaches. Here we describe the methods and strategies used in our approaches and discuss the rationale of their performances.

  11. The Berlin Inventory of Gambling behavior - Screening (BIG-S): Validation using a clinical sample.

    Science.gov (United States)

    Wejbera, Martin; Müller, Kai W; Becker, Jan; Beutel, Manfred E

    2017-05-18

    Published diagnostic questionnaires for gambling disorder in German are either based on DSM-III criteria or focus on aspects other than life time prevalence. This study was designed to assess the usability of the DSM-IV criteria based Berlin Inventory of Gambling Behavior Screening tool in a clinical sample and adapt it to DSM-5 criteria. In a sample of 432 patients presenting for behavioral addiction assessment at the University Medical Center Mainz, we checked the screening tool's results against clinical diagnosis and compared a subsample of n=300 clinically diagnosed gambling disorder patients with a comparison group of n=132. The BIG-S produced a sensitivity of 99.7% and a specificity of 96.2%. The instrument's unidimensionality and the diagnostic improvements of DSM-5 criteria were verified by exploratory and confirmatory factor analysis as well as receiver operating characteristic analysis. The BIG-S is a reliable and valid screening tool for gambling disorder and demonstrated its concise and comprehensible operationalization of current DSM-5 criteria in a clinical setting.

  12. CRISPR-DAV: CRISPR NGS data analysis and visualization pipeline.

    Science.gov (United States)

    Wang, Xuning; Tilford, Charles; Neuhaus, Isaac; Mintier, Gabe; Guo, Qi; Feder, John N; Kirov, Stefan

    2017-12-01

    The simplicity and precision of CRISPR/Cas9 system has brought in a new era of gene editing. Screening for desired clones with CRISPR-mediated genomic edits in a large number of samples is made possible by next generation sequencing (NGS) due to its multiplexing. Here we present CRISPR-DAV (CRISPR Data Analysis and Visualization) pipeline to analyze the CRISPR NGS data in a high throughput manner. In the pipeline, Burrows-Wheeler Aligner and Assembly Based ReAlignment are used for small and large indel detection, and results are presented in a comprehensive set of charts and interactive alignment view. CRISPR-DAV is available at GitHub and Docker Hub repositories: https://github.com/pinetree1/crispr-dav.git and https://hub.docker.com/r/pinetree1/crispr-dav/. xuning.wang@bms.com.

  13. Target and suspect screening of psychoactive substances in sewage-based samples by UHPLC-QTOF.

    Science.gov (United States)

    Baz-Lomba, J A; Reid, Malcolm J; Thomas, Kevin V

    2016-03-31

    The quantification of illicit drug and pharmaceutical residues in sewage has been shown to be a valuable tool that complements existing approaches in monitoring the patterns and trends of drug use. The present work delineates the development of a novel analytical tool and dynamic workflow for the analysis of a wide range of substances in sewage-based samples. The validated method can simultaneously quantify 51 target psychoactive substances and pharmaceuticals in sewage-based samples using an off-line automated solid phase extraction (SPE-DEX) method, using Oasis HLB disks, followed by ultra-high performance liquid chromatography coupled to quadrupole time-of-flight mass spectrometry (UHPLC-QTOF) in MS(e). Quantification and matrix effect corrections were overcome with the use of 25 isotopic labeled internal standards (ILIS). Recoveries were generally greater than 60% and the limits of quantification were in the low nanogram-per-liter range (0.4-187 ng L(-1)). The emergence of new psychoactive substances (NPS) on the drug scene poses a specific analytical challenge since their market is highly dynamic with new compounds continuously entering the market. Suspect screening using high-resolution mass spectrometry (HRMS) simultaneously allowed the unequivocal identification of NPS based on a mass accuracy criteria of 5 ppm (of the molecular ion and at least two fragments) and retention time (2.5% tolerance) using the UNIFI screening platform. Applying MS(e) data against a suspect screening database of over 1000 drugs and metabolites, this method becomes a broad and reliable tool to detect and confirm NPS occurrence. This was demonstrated through the HRMS analysis of three different sewage-based sample types; influent wastewater, passive sampler extracts and pooled urine samples resulting in the concurrent quantification of known psychoactive substances and the identification of NPS and pharmaceuticals. Copyright © 2016 Elsevier B.V. All rights reserved.

  14. Barriers to breast cancer screening among a sample of Egyptian females

    Directory of Open Access Journals (Sweden)

    Heba M. Mamdouh

    2014-01-01

    Full Text Available Background: Breast cancer (BC is usually diagnosed in late stages in countries with limited resources. Early detection of BC is likely to improve the outcome of the disease for women in these areas. Objective: The aim of this study was to understand the possible personal, economic, and systems barriers to BC screening in a sample of Egyptian women. Materials and Methods: A cross-sectional study was conducted in family health centers representing the seven districts of Alexandria governorate, Egypt. A total of 612 women were randomly selected from the chosen centers. Results: In this sample of Egyptian women, the most frequently identified potential barriers to BC screening were the following: 81.8% would not seek care until they were ill, 77% were unwilling to have a mammogram until it was recommended by the doctor, 71.4% blamed the, lack of privacy, 69.2% thought that medical checkups were not worthwhile, and 64.6% blamed the cost of services. The study further revealed that women of lower education, women in the lower income category, women who did not do paid work, those who had poor knowledge of the risks of BC, and women with no family history of BC were more likely to perceive different screening barriers compared with their counterparts. Conclusion: Many potential personal, economic, and health system barriers were identified. Addressing these barriers by increasing the awareness of BC and dealing with the misconceptions that the women have can help the policy makers to design more culturally relevant strategies to motivate women to utilize screening services.

  15. Self-Sampling for Human Papillomavirus Testing among Non-Attenders Increases Attendance to the Norwegian Cervical Cancer Screening Programme.

    Directory of Open Access Journals (Sweden)

    Espen Enerly

    Full Text Available Increasing attendance to screening offers the best potential for improving the effectiveness of well-established cervical cancer screening programs. Self-sampling at home for human papillomavirus (HPV testing as an alternative to a clinical sampling can be a useful policy to increase attendance. To determine whether self-sampling improves screening attendance for women who do not regularly attend the Norwegian Cervical Cancer Screening Programme (NCCSP, 800 women aged 25-69 years in the Oslo area who were due to receive a 2nd reminder to attend regular screening were randomly selected and invited to be part of the intervention group. Women in this group received one of two self-sampling devices, Evalyn Brush or Delphi Screener. To attend screening, women in the intervention group had the option of using the self-sampling device (self-sampling subgroup or visiting their physician for a cervical smear. Self-sampled specimens were split and analyzed for the presence of high-risk (hr HPV by the CLART® HPV2 test and the digene® Hybrid Capture (HC2 test. The control group consisted of 2593 women who received a 2nd reminder letter according to the current guidelines of the NCCSP. The attendance rates were 33.4% in the intervention group and 23.2% in the control group, with similar attendance rates for both self-sampling devices. Women in the self-sampling subgroup responded favorably to both self-sampling devices and cited not remembering receiving a call for screening as the most dominant reason for previous non-attendance. Thirty-two of 34 (94.1% hrHPV-positive women in the self-sampling subgroup attended follow-up. In conclusion, self-sampling increased attendance rates and was feasible and well received. This study lends further support to the proposal that self-sampling may be a valuable alternative for increasing cervical cancer screening coverage in Norway.

  16. Evaluation of ELISA screening test for detecting aflatoxin in biogenic dust samples

    Energy Technology Data Exchange (ETDEWEB)

    Durant, J.T.

    1996-05-01

    Aflatoxin is a carcinogenic chemical that is sometimes produced when agricultural commodities are infested by the fungi Aspergillus flavus and A. Parasiticus. Aflatoxin has been found to be present in air samples taken around persons handling materials likely to be contaminated. The purpose of this investigation was to demonstrate the feasibility of using an Enzyme Linked Immunosorbent Assay (ELISA) test kit that was developed to screen for aflatoxin in bulk agricultural commodities, to an air sample. Samples were taken from two environments likely to be contaminated with aflatoxin, a dairy farm feed mixing operation and a peanut bagging operation. The dust collected from these environments was considered to be biogenic, in that it originated primarily from biological materials.

  17. Target and suspect screening of psychoactive substances in sewage-based samples by UHPLC-QTOF

    Energy Technology Data Exchange (ETDEWEB)

    Baz-Lomba, J.A., E-mail: jba@niva.no [Norwegian Institute for Water Research, Gaustadalléen 21, NO-0349, Oslo (Norway); Faculty of Medicine, University of Oslo, PO box 1078 Blindern, 0316, Oslo (Norway); Reid, Malcolm J.; Thomas, Kevin V. [Norwegian Institute for Water Research, Gaustadalléen 21, NO-0349, Oslo (Norway)

    2016-03-31

    The quantification of illicit drug and pharmaceutical residues in sewage has been shown to be a valuable tool that complements existing approaches in monitoring the patterns and trends of drug use. The present work delineates the development of a novel analytical tool and dynamic workflow for the analysis of a wide range of substances in sewage-based samples. The validated method can simultaneously quantify 51 target psychoactive substances and pharmaceuticals in sewage-based samples using an off-line automated solid phase extraction (SPE-DEX) method, using Oasis HLB disks, followed by ultra-high performance liquid chromatography coupled to quadrupole time-of-flight mass spectrometry (UHPLC-QTOF) in MS{sup e}. Quantification and matrix effect corrections were overcome with the use of 25 isotopic labeled internal standards (ILIS). Recoveries were generally greater than 60% and the limits of quantification were in the low nanogram-per-liter range (0.4–187 ng L{sup −1}). The emergence of new psychoactive substances (NPS) on the drug scene poses a specific analytical challenge since their market is highly dynamic with new compounds continuously entering the market. Suspect screening using high-resolution mass spectrometry (HRMS) simultaneously allowed the unequivocal identification of NPS based on a mass accuracy criteria of 5 ppm (of the molecular ion and at least two fragments) and retention time (2.5% tolerance) using the UNIFI screening platform. Applying MS{sup e} data against a suspect screening database of over 1000 drugs and metabolites, this method becomes a broad and reliable tool to detect and confirm NPS occurrence. This was demonstrated through the HRMS analysis of three different sewage-based sample types; influent wastewater, passive sampler extracts and pooled urine samples resulting in the concurrent quantification of known psychoactive substances and the identification of NPS and pharmaceuticals. - Highlights: • A novel reiterative workflow

  18. Rapid screening of clenbuterol in urine samples by desorption electrospray ionization tandem mass spectrometry.

    Science.gov (United States)

    Lin, Ziqing; Zhang, Sichun; Zhao, Mengxia; Yang, Chengdui; Chen, Depu; Zhang, Xinrong

    2008-06-01

    Rapid screening of clenbuterol in urine was performed by combining desorption electrospray ionization (DESI) and tandem mass spectrometry (MS/MS). Optimization experiments were carried out including the selection of substrates, spray solutions, nebulizing gas pressures, high-voltage power supplies and flow rates of spray solution. The limit of detection (LOD), defined as the lowest quantity that can be detected, was 5.0 pg for the pure compound. Using DESI coupled with solid-phase extraction (SPE), the linear response range was from 10 to 400 ng/mL (R(2) = 0.993) and the concentration LOD for urine sample was 2.0 ng/mL. The analysis for one spiked urine sample was achieved within 4 min. In addition to the fast analysis speed, MS/MS provided structural information for the confirmation of clenbuterol. Urine samples from different people were investigated and the recoveries were within 100 +/- 20%. The developed method can potentially be used for screening of clenbuterol in doping control.

  19. Reasons for non-attendance to cervical screening and preferences for HPV self-sampling in Dutch women

    NARCIS (Netherlands)

    Bosgraaf, R.P.; Ketelaars, P.J.W.; Verhoef, V.M.; Massuger, L.F.A.G.; Meijer, C.J.W.; Melchers, W.J.G.; Bekkers, R.L.M.

    2014-01-01

    OBJECTIVES: High attendance rates in cervical screening are essential for effective cancer prevention. Offering HPV self-sampling to non-responders increases participation rates. The objectives of this study were to determine why non-responders do not attend regular screening, and why they do or do

  20. The potential role of self-sampling for high-risk human papillomavirus detection in cervical cancer screening

    NARCIS (Netherlands)

    Schmeink, C.E.; Bekkers, R.L.M.; Massuger, L.F.A.G.; Melchers, W.J.G.

    2011-01-01

    High-risk human papillomavirus (hr-HPV) detection will become an important tool in the screening for cervical cancer. Self-sampling is an inexpensive and well-accepted method for HPV detection that will increase participation of nonresponders in current screening programs. Even more, because

  1. Comparison of tree coring and soil gas sampling for screening of contaminated sites

    DEFF Research Database (Denmark)

    Nielsen, Mette Algreen; Stalder, Marcel; Riis, Charlotte

    when (with respect to compounds, soil properties, and locations) one method is preferred over the other. Fields sampling was performed at European sites contaminated with fuel components or chlorinated solvents from former site activities (industrial production, gas stations, air base or gas plant......Site characterization is often time consuming and a financial burden for the site owners, which raises a demand for rapid and inexpensive (pre)screening methods. Phytoscreening by tree coring has shown to be a useful tool to detect subsurface contamination, especially of chlorinated solvents....... However the application and dissemination of the method is still limited. On the other hand, soil gas sampling for mapping of volatile organic compounds in the subsurface is a common and commercially applied method. Both methods are semi-quantitative, low-invasive and inexpensive, which makes them...

  2. Toxicological screening for drugs of abuse in samples adulterated with household chemicals.

    Science.gov (United States)

    Uebel, Reinhard A; Wium, Cherylynn A

    2002-07-01

    Urine samples that tested positive for two drugs of abuse, namely cannabis and methaqualone, were reassayed in the presence or absence of common household chemicals: Jik (sodium hypochlorite), Dettol (chloroxylenol), G-cide Plus (glutaraldehyde), Perle Hand Soap, ethanol, isopropanol and peroxide (20 volumes). These chemicals are frequently used for the adulteration of urine samples. Department of Pharmacology, University of Stellenbosch. Household chemicals, at three different concentrations, were added to urine samples that tested positive for methaqualone and cannabis. Samples were reanalysed on an ETS Plus Analyser (Syva Company, San Jose, Ca.) using Emit drugs-of-abuse urine test reagents. Most of the chemicals tested influenced the outcome of positive toxicological screening results for these drugs. G-cide (glutaraldehyde) and Perle Hand Soap had the largest effect (false-negative) on the methaqualone test. Dettol (chloroxylenol) and Perle Hand Soap had the largest effect on the cannabis test. Higher concentrations of the adulterant were not always an indication of the extent of modification of the test result. The addition of certain chemicals (ethanol, isopropanol and peroxide) to the urine samples tested for methaqualone interfered with the test to such an extent that it gave invalid test results.

  3. Psychometric Properties of a Screening Instrument for Domestic Violence in a Sample of Iranian Women.

    Science.gov (United States)

    Azadarmaki, Taghi; Kassani, Aziz; Menati, Rostam; Hassanzadeh, Jafar; Menati, Walieh

    2016-03-01

    Domestic violence against women is regarded as an important health problem among women and a serious concern in issues related to human rights. To date, a few screening tools for domestic violence exist for Iranian married women, but they assess only some of the domestic violence components. The present study aimed to design and determine the validity and reliability of a screening instrument for domestic violence in a sample of Iranian women. The present study was a cross-sectional psychometric evaluation conducted on 350 married women in Ilam, Iran, in 2014. The samples were selected through multistage sampling and the main method was cluster sampling. A 20-item, self-administered questionnaire was validated by exploratory factor analysis (EFA) and confirmatory factor analysis (CFA). An Eigen value > 1 and a loading factor > 0.3 for each component were considered as indices for extracting domestic violence components. Reliability was calculated by test-retest and Cronbach's alpha. Also, the content validity index (CVI) and content validity ratio (CVR) were used to measure content validity. The data were analyzed using SPSS-13 and LISREL 8.8 software programs. The self-administered instrument was completed by 334 women. The CFA and EFA methods confirmed embedding items and the three-factor structure of the instrument including psychological, physical, and sexual violence, which explained 66% of the total variance of the domestic violence. The ICC and Cronbach's alpha coefficients were > 0.7 for the components of the questionnaire. The test-retest also revealed strong correlations for each of the domestic violence components (r > 0.6). The used instrument for measuring domestic violence had desirable validity and reliability and can be used as a suitable instrument in health and social researches in the local population.

  4. Micro-TLC Approach for Fast Screening of Environmental Samples Derived from Surface and Sewage Waters.

    Science.gov (United States)

    Zarzycki, Paweł K; Slączka, Magdalena M; Włodarczyk, Elżbieta; Baran, Michał J

    2013-01-01

    In this work we demonstrated analytical capability of micro-planar (micro-TLC) technique comprising one and two-dimensional (2D) separation modes to generate fingerprints of environmental samples originated from sewage and ecosystems waters. We showed that elaborated separation and detection protocols are complementary to previously invented HPLC method based on temperature-dependent inclusion chromatography and UV-DAD detection. Presented 1D and 2D micro-TLC chromatograms of SPE (solid-phase extraction) extracts were optimized for fast and low-cost screening of water samples collected from lakes and rivers located in the area of Middle Pomerania in northern part of Poland. Moreover, we studied highly organic compounds loaded in the treated and untreated sewage waters obtained from municipal wastewater treatment plant "Jamno" near Koszalin City (Poland). Analyzed environmental samples contained number of substances characterized by polarity range from estetrol to progesterone as well as chlorophyll-related dyes previously isolated and pre-purified by simple SPE protocol involving C18 cartridges. Optimization of micro-TLC separation and quantification protocols of such samples were discussed from the practical point of view using simple separation efficiency criteria including total peaks number, log(product Δ hR F ), signal intensity and peak asymmetry. Outcomes of the presented analytical approach, especially using detection involving direct fluorescence (UV366/Vis) and phosphomolybdic acid (PMA) visualization are compared with UV-DAD HPLC-generated data reported previously. Chemometric investigation based on principal components analysis revealed that SPE extracts separated by micro-TLC and detected under fluorescence and PMA visualization modes can be used for robust sample fingerprinting even after long-term storage of the extracts (up to 4 years) at subambient temperature (-20 °C). Such approach allows characterization of wide range of sample components

  5. Offering self-sampling to non-attendees of organized primary HPV screening: When do harms outweigh the benefits?

    NARCIS (Netherlands)

    K. Rozemeijer (Kirsten); I.M.C.M. de Kok (Inge); S.K. Naber (Steffie); F.J. van Kemenade (Folkert); C. Penning (Corine); J.M. van Rosmalen (Joost); M. van Ballegooijen (Marjolein)

    2015-01-01

    textabstractBackground: Human papillomavirus (HPV) self-sampling might be a promising tool to increase effectiveness of primary HPV screening programs when offered to non-attendees. However, effectiveness could decrease if regular attendees "switch" to self-sampling, because self-sampling test

  6. Validation of the Autism Spectrum Screening Questionnaire in a Total Population Sample

    Science.gov (United States)

    Posserud, Maj-Britt; Lundervold, Astri J.; Gillberg, Christopher

    2009-01-01

    There is a lack of instruments validated for screening of autism spectrum disorders (ASD) in general populations and primary care settings. The Autism Spectrum Screening Questionnaire (ASSQ) has previously been shown to have good screening properties in clinical settings. We used the ASSQ to screen a total population of 7-9 year-olds (N = 9430)…

  7. Test of tree core sampling for screening of toxic elements in soils from a Norwegian site.

    Science.gov (United States)

    Algreen, Mette; Rein, Arno; Legind, Charlotte N; Amundsen, Carl Einar; Karlson, Ulrich Gosewinkel; Trapp, Stefan

    2012-04-01

    Tree core samples have been used to delineate organic subsurface plumes. In 2009 and 2010, samples were taken at trees growing on a former dump site in Norway and analyzed for arsenic (As), cadmium (Cd), chromium (Cr), copper (Cu), nickel (Ni), and zinc (Zn). Concentrations in wood were in averages (dw) 30 mg/kg for Zn, 2 mg/kg for Cu, and wood samples from the polluted test site were compared to those derived from a reference site. For all except one case, mean concentrations from the test site were higher than those from the reference site, but the difference was small and not always significant. Differences between tree species were usually higher than differences between reference and test site. Furthermore, all these elements occur naturally, and Cu, Ni, and Zn are essential minerals. Thus, all trees will have a natural background of these elements, and the occurrence alone does not indicate soil pollution. For the interpretation of the results, a comparison to wood samples from an unpolluted reference site with same species and similar soil conditions is required. This makes the tree core screening method less reliable for heavy metals than, e.g., for chlorinated solvents.

  8. Prevalence of Bordetella pertussis and Bordetella parapertussis in Samples Submitted for RSV Screening

    Directory of Open Access Journals (Sweden)

    Walsh, Paul

    2008-08-01

    Full Text Available BACKGROUND: The clinical presentation of Bordetella pertussis can overlap with that of respiratory syncytial virus (RSV; however, management differs.HYPOTHESIS: First, the prevalence of B. pertussis is less than 2% among patients screened for RSV, and second the prevalence of B. parapertussis is also less than 2% among these patients.METHODS: Nasal washings submitted to a clinical laboratory for RSV screening were tested for B. pertussis and B. parapertussis, using species-specific real-time polymerase chain reaction (PCR assays. These were optimized to target conserved regions within a complement gene and the CarB gene, respectively. A Bordetella spp. genus-specific real-time PCR assay was designed to detect the Bhur gene of B. pertussis, B. parapertussis, and B. bronchiseptica. RSV A and B subtypes were tested by reverse transcription-PCR.RESULTS: Four hundred and eighty-nine clinical samples were tested. There was insufficient material to complete testing for one B. pertussis, 10 RSV subtype A, and four RSV subtype B assays. Bordetella pertussis was detected in 3/488 (0.6% (95% CI 0.1% to 1.8%, while B. parapertussis was detected in 5/489 (1.0% (95% CI 0.3% to 2.4%. Dual infection of B. pertussis with RSV and of B. parapertussis with RSV occurred in two and in three cases respectively. RSV was detected by PCR in 127 (26.5%.CONCLUSION: The prevalence of B. pertussis in nasal washings submitted for RSV screening was less than 2%. The prevalence of parapertussis may be higher than 2%. RSV with B. pertussis and RSV with B. parapertussis coinfection do occur.

  9. Empirical validation of the CRAFFT Abuse Screening Test in a Spanish sample.

    Science.gov (United States)

    Rial, Antonio; Kim-Harris, Sion; Knight, John R; Araujo, Manuel; Gómez, Patricia; Braña, Teresa; Varela, Jesús; Golpe, Sandra

    2018-01-15

    The CRAFFT Substance Abuse Screening Instrument, developed by the Center for Adolescents Substance Abuse Research (CeASAR) (Knight et al., 1999), is a screening tool for high-risk alcohol and drug risk consumption designed for use with adolescents. Since its publication it has been the subject of translations and validations in different countries, populations and contexts that have demonstrated its enormous potential. However, there is still no empirical validation study that would ensure its good psychometric performance in Spain. The aim of this paper is to develop an adapted version of the CRAFFT in Spanish and to analyze its psychometric properties in a sample of Spanish adolescents. For this purpose an individual interview was conducted on 312 adolescents aged between 12 and 18 years of age (M = 15.01; SD = 1.83) from the Galician community. The interview included a part of the Adolescent Diagnostic Interview (ADI) and the Problem Oriented Screening Instrument for Teenagers (POSIT). The results obtained, similar to those found in other countries, allow us to report that the Spanish version of the CRAFFT has a good psychometric behaviorproperties. It was found to have a satisfactory internal consistency with a Cronbach’s alpha value of .74. In terms of sensitivity and specificity, values of 74.4% and 96.4% respectively, were obtained and the area under the ROC curve was .946. The Spanish version of the CRAFFT is made available to researchers and professionals in the field of addictive behaviors, so that it can be used with the necessary psychometric guarantees.

  10. Policy Analysis Screening System (PASS) demonstration: sample queries and terminal instructions

    Energy Technology Data Exchange (ETDEWEB)

    None

    1979-10-16

    This document contains the input and output for the Policy Analysis Screening System (PASS) demonstration. This demonstration is stored on a portable disk at the Environmental Impacts Division. Sample queries presented here include: (1) how to use PASS; (2) estimated 1995 energy consumption from Mid-Range Energy-Forecasting System (MEFS) data base; (3) pollution projections from Strategic Environmental Assessment System (SEAS) data base; (4) diesel auto regulations; (5) diesel auto health effects; (6) oil shale health and safety measures; (7) water pollution effects of SRC; (8) acid rainfall from Energy Environmental Statistics (EES) data base; 1990 EIA electric generation by fuel type; sulfate concentrations by Federal region; forecast of 1995 SO/sub 2/ emissions in Region III; and estimated electrical generating capacity in California to 1990. The file name for each query is included.

  11. Screening of bovine milk samples for sub-clinical mastitis and antibiogram of bacterial isolates

    Directory of Open Access Journals (Sweden)

    Harini H. and Sumathi B.R.

    Full Text Available The study was undertaken to find out the incidence of subclinical mastitis (SCM and to assess the antibiotic sensitivity pattern of the causative organisms in lactating cows in and around Kanakapura taluk, Ramanagara district of Karnataka state. The prevalence of subclinical mastitis was assessed by the results of 3 different screening tests and bacteriological evaluation was done for the milk samples that were found positive. The predominant bacterial isolates recovered were Staphylococcus aureus (58% and Escherichia coli (23.5% followed by Staphylococcus epidermidis (8%, Streptococcus sp. (5.5%, Klebsiella sp. (3% and Bacillus sp. (2%. The in vitro antibiogram studies of bacterial isolates revealed higher sensitivity for ciprofloxacin (89%, ofloxacin (85%, enrofloxacin (82%, gentamicin (80% and chloramphenicol (75%, resistant to colistin, neomycin, streptomycin, penicillin and tetracycline. [Vet. World 2011; 4(8.000: 358-359

  12. Characterization of superconducting nanometric multilayer samples for superconducting rf applications: First evidence of magnetic screening effect

    Directory of Open Access Journals (Sweden)

    C. Z. Antoine

    2010-12-01

    Full Text Available The best rf bulk niobium accelerating cavities have nearly reached their ultimate limits at rf equatorial magnetic field H≈200  mT close to the thermodynamic critical field H_{c}. In 2006 Gurevich proposed to use nanoscale layers of superconducting materials with high values of H_{c}>H_{c}^{Nb} for magnetic shielding of bulk niobium to increase the breakdown magnetic field of superconducting rf cavities. Depositing good quality layers inside a whole cavity is rather difficult, so as a first step, characterization of single layer coating and multilayers was conducted on high quality sputtered samples by applying the technique used for the preparation of superconducting electronics circuits. The samples were characterized by x-ray reflectivity, dc resistivity (PPMS, and dc magnetization (SQUID measurements. Dc magnetization curves of a 250 nm thick Nb film have been measured, with and without a magnetron sputtered coating of a single or multiple stack of 15 nm MgO and 25 nm NbN layers. The Nb samples with/without the coating exhibit different behaviors and clearly show an enhancement of the magnetic penetration field. Because SQUID measurements are influenced by edge and shape effects, we propose to develop a specific local magnetic measurement of H_{C1} based on ac third harmonic analysis in order to reveal the true screening effect of multilayers.

  13. Rapid screening for Mycobacterium tuberculosis complex in clinical elephant trunk wash samples.

    Science.gov (United States)

    Magnuson, Roberta J; Linke, Lyndsey M; Isaza, Ramiro; Salman, Mo D

    2017-06-01

    Mycobacterium tuberculosis can infect and be transmitted between elephants and humans. In elephants, the 'gold standard' reference test for detection of tuberculosis is culture, which takes a minimum of eight weeks for results and has limited sensitivity. A screening test that is rapid, easily implemented, and accurate is needed to aid in diagnosis of tuberculosis in elephants. Ninety-nine clinical trunk wash samples obtained from 33 elephants were utilized to validate three molecular extraction techniques followed by a polymerase chain reaction for detection of M. tuberculosis. Diagnostic sensitivity and specificity were estimated compared to culture. Kappa coefficients were determined between molecular results and various culture categories and serological test results. An internal amplification control was developed and assessed to monitor for PCR inhibition. One molecular test (the Column method) outperformed the other two, with diagnostic sensitivity and kappa agreement estimates of 100% (CI 57-100) and 0.46 (CI 0.2-0.74), respectively, compared to culture alone. The percentage of molecular-positive/culture-negative samples was 8.4% overall. The molecular extraction technique followed by PCR provides a much-needed rapid screening tool for detection of tuberculosis in elephants. Immediate procedures can be implemented to further assess PCR-positive animals and provide personnel biosecurity. While a positive result is not a definitive test for elephant tuberculosis, the molecular test results can be used to support current diagnostic procedures applied by veterinarians for treatment decisions to prevent the spread of tuberculosis in elephants. Copyright © 2017 Elsevier Ltd. All rights reserved.

  14. Efficacy of screens in removing long fibers from an aerosol stream – sample preparation technique for toxicology studies

    Science.gov (United States)

    Ku, Bon Ki; Deye, Gregory J.; Turkevich, Leonid A.

    2015-01-01

    Fiber dimension (especially length) and biopersistence are thought to be important variables in determining the pathogenicity of asbestos and other elongate mineral particles. In order to prepare samples of fibers for toxicology studies, it is necessary to develop and evaluate methods for separating fibers by length in the micrometer size range. In this study, we have filtered an aerosol of fibers through nylon screens to investigate whether such screens can efficiently remove the long fibers (L >20 μm, a typical macrophage size) from the aerosol stream. Such a sample, deficient in long fibers, could then be used as the control in a toxicology study to investigate the role of length. A well-dispersed aerosol of glass fibers (a surrogate for asbestos) was generated by vortex shaking a Japan Fibrous Material Research Association (JFMRA) glass fiber powder. Fibers were collected on a mixed cellulose ester (MCE) filter, imaged with phase contrast microscopy (PCM) and lengths were measured. Length distributions of the fibers that penetrated through various screens (10, 20 and 60 μm mesh sizes) were analyzed; additional study was made of fibers that penetrated through double screen and centrally blocked screen configurations. Single screens were not particularly efficient in removing the long fibers; however, the alternative configurations, especially the centrally blocked screen configuration, yielded samples substantially free of the long fibers. PMID:24417374

  15. Efficacy of screens in removing long fibers from an aerosol stream--sample preparation technique for toxicology studies.

    Science.gov (United States)

    Ku, Bon Ki; Deye, Gregory J; Turkevich, Leonid A

    2014-02-01

    Fiber dimension (especially length) and biopersistence are thought to be important variables in determining the pathogenicity of asbestos and other elongate mineral particles. In order to prepare samples of fibers for toxicology studies, it is necessary to develop and evaluate methods for separating fibers by length in the micrometer size range. In this study, we have filtered an aerosol of fibers through nylon screens to investigate whether such screens can efficiently remove the long fibers (L >20 µm, a typical macrophage size) from the aerosol stream. Such a sample, deficient in long fibers, could then be used as the control in a toxicology study to investigate the role of length. A well-dispersed aerosol of glass fibers (a surrogate for asbestos) was generated by vortex shaking a Japan Fibrous Material Research Association (JFMRA) glass fiber powder. Fibers were collected on a mixed cellulose ester (MCE) filter, imaged with phase contrast microscopy (PCM) and lengths were measured. Length distributions of the fibers that penetrated through various screens (10, 20 and 60 µm mesh sizes) were analyzed; additional study was made of fibers that penetrated through double screen and centrally blocked screen configurations. Single screens were not particularly efficient in removing the long fibers; however, the alternative configurations, especially the centrally blocked screen configuration, yielded samples substantially free of the long fibers.

  16. Effect of length biased sampling of unobserved sojourn times on the survival distribution when disease is screen detected.

    Science.gov (United States)

    Kafadar, Karen; Prorok, Philip C

    2009-07-20

    Data can arise as a length-biased sample rather than as a random sample; e.g. a sample of patients in hospitals or of network cable lines (experimental units with longer stays or longer lines have greater likelihoods of being sampled). The distribution arising from a single length-biased sampling (LBS) time has been derived (e.g. (The Statistical Analysis of Discrete Time Events. Oxford Press: London, 1972)) and applies when the observed outcome relates to the random variable subjected to LBS. Zelen (Breast Cancer: Trends in Research and Treatment. Raven Press: New York, 1976; 287-301) noted that cases of disease detected from a screening program likewise form a length-biased sample among all cases, since longer sojourn times afford greater likelihoods of being screen detected. In contrast to the samples on hospital stays and cable lines, however, the length-biased sojourns (preclinical durations) cannot be observed, although their subsequent clinical durations (survival times) are. This article quantifies the effect of LBS of the sojourn times (or pre-clinical durations) on the distribution of the observed clinical durations when cases undergo periodic screening for the early detection of disease. We show that, when preclinical and clinical durations are positively correlated, the mean, median, and quartiles of the distribution of the clinical duration from screen-detected cases can be substantially inflated-even in the absence of any benefit on survival from the screening procedure. Screening studies that report mean survival time need to take account of the fact that, even in the absence of any real benefit, the mean survival among cases in the screen-detected group will be longer than that among interval cases or among cases that arise in the control arm, above and beyond lead time bias, simply by virtue of the LBS phenomenon

  17. Application of Atomic Dielectric Resonance Spectroscopy for the screening of blood samples from patients with clinical variant and sporadic CJD.

    Science.gov (United States)

    Fagge, Timothy J; Barclay, G Robin; Stove, G Colin; Stove, Gordon; Robinson, Michael J; Head, Mark W; Ironside, James W; Turner, Marc L

    2007-08-30

    Sub-clinical variant Creutzfeldt-Jakob disease (vCJD) infection and reports of vCJD transmission through blood transfusion emphasise the need for blood screening assays to ensure the safety of blood and transplanted tissues. Most assays aim to detect abnormal prion protein (PrPSc), although achieving required sensitivity is a challenge. We have used innovative Atomic Dielectric Resonance Spectroscopy (ADRS), which determines dielectric properties of materials which are established by reflectivity and penetration of radio/micro waves, to analyse blood samples from patients and controls to identify characteristic ADR signatures unique to blood from vCJD and to sCJD patients. Initial sets of blood samples from vCJD, sCJD, non-CJD neurological diseases and normal healthy adults (blood donors) were screened as training samples to determine group-specific ADR characteristics, and provided a basis for classification of blinded sets of samples. Blood sample groups from vCJD, sCJD, non-CJD neurological diseases and normal healthy adults (blood donors) screened by ADRS were classified with 100% specificity and sensitivity, discriminating these by a co-variance expert analysis system. ADRS appears capable of recognising and discriminating serum samples from vCJD, sCJD, non-CJD neurological diseases, and normal healthy adults, and might be developed to provide a system for primary screening or confirmatory assay complementary to other screening systems.

  18. Application of Atomic Dielectric Resonance Spectroscopy for the screening of blood samples from patients with clinical variant and sporadic CJD

    Directory of Open Access Journals (Sweden)

    Ironside James W

    2007-08-01

    Full Text Available Abstract Background Sub-clinical variant Creutzfeldt-Jakob disease (vCJD infection and reports of vCJD transmission through blood transfusion emphasise the need for blood screening assays to ensure the safety of blood and transplanted tissues. Most assays aim to detect abnormal prion protein (PrPSc, although achieving required sensitivity is a challenge. Methods We have used innovative Atomic Dielectric Resonance Spectroscopy (ADRS, which determines dielectric properties of materials which are established by reflectivity and penetration of radio/micro waves, to analyse blood samples from patients and controls to identify characteristic ADR signatures unique to blood from vCJD and to sCJD patients. Initial sets of blood samples from vCJD, sCJD, non-CJD neurological diseases and normal healthy adults (blood donors were screened as training samples to determine group-specific ADR characteristics, and provided a basis for classification of blinded sets of samples. Results Blood sample groups from vCJD, sCJD, non-CJD neurological diseases and normal healthy adults (blood donors screened by ADRS were classified with 100% specificity and sensitivity, discriminating these by a co-variance expert analysis system. Conclusion ADRS appears capable of recognising and discriminating serum samples from vCJD, sCJD, non-CJD neurological diseases, and normal healthy adults, and might be developed to provide a system for primary screening or confirmatory assay complementary to other screening systems.

  19. BPC Trenchless Pipeline System

    Energy Technology Data Exchange (ETDEWEB)

    Campbell, Martin

    2011-03-15

    The BPC trenchless system features pipeline installation through directional drilling utilizing horizontal directional boring along with state of the art mapping and product coating integrity surveys after pipe placement. The trenchless system developed by BPC reduces environmental disturbances, with savings in reclaiming pipeline right-of-ways such as re-seeding and contouring. It is felt that with smaller pipelines of less than 1,000 metres, a reduction in environmental footprint is now technically feasible using this technology.

  20. A screening sampling plan to detect Mycobacterium avium subspecies paratuberculosis-positive dairy herds.

    Science.gov (United States)

    Serraino, A; Arrigoni, N; Ostanello, F; Ricchi, M; Marchetti, G; Bonilauri, P; Bonfante, E; Giacometti, F

    2014-01-01

    Mycobacterium avium ssp. paratuberculosis (MAP) is the etiological agent of paratuberculosis, a chronic contagious bacterial disease primarily affecting dairy cattle. Paratuberculosis represents a dual problem for the milk production chain: in addition to economic losses to affected herds, MAP may have zoonotic potential. Infected herds must be identified in order to implement programs designed to reduce the incidence of disease within and between herds and to prevent MAP from entering the food chain. The objective of this study was to evaluate the sensitivity and specificity of a screening sampling plan (SSP) to detect MAP-positive dairy herds by repetitive analysis of bulk tank milk (BTM) samples by ELISA and in-line milk filter (ILMF) samples by PCR. Samples from BTM and ILMF were collected twice from 569 dairy herds in southern Italy. Additionally, 12,016 individual milk samples were collected: 9,509 from 102 SSP-positive herds (SSP MAP-positive) and 2,507 from 21 randomly selected SSP-negative herds (SSP MAP-negative). There was a total of 126 SSP MAP-positive herds (i.e., 21.3% SSP MAP-positive herds; 95% confidence interval=18.0-24.9); the within-herd apparent prevalence (AP) ranged between 0.00 and 22.73% (mean 6.07%). A significant difference in within-herd AP was shown between SSP MAP-positive herds and SSP MAP-negative herds. A highly significant association was shown between the median AP herd status (>5%) and positivity to at least one ILMF or BTM sample. The SSP detected a minimum of 56.25% of low AP herds (AP ≤ 2.0%) up to a maximum of 100% of herds with a within-herd AP ≥ 8.0%. Overall, the SSP detected 85.57% of herds in which at least one individual milk sample was positive by ELISA. The proposed SSP was an inexpensive and useful tool to detect MAP-positive herds with a higher risk of infection diffusion and milk contamination. Although the SSP cannot be used for MAP-free certification of herds, it could be useful to prioritize appropriate

  1. European guidelines for quality assurance in cervical cancer screening: recommendations for collecting samples for conventional and liquid-based cytology.

    NARCIS (Netherlands)

    Arbyn, M.; Herbert, A.; Schenck, U.; Nieminen, P.; Jordan, J.; Mcgoogan, E.; Patnick, J.; Bergeron, C.; Baldauf, J.J.; Klinkhamer, P.; Bulten, J.; Martin-Hirsch, P.

    2007-01-01

    The current paper presents an annex in the second edition of the European Guidelines for Quality Assurance in Cervical Cancer Screening. It provides guidance on how to make a satisfactory conventional Pap smear or a liquid-based cytology (LBC) sample. Practitioners taking samples for cytology should

  2. Simultaneous screening and detection of drugs in small blood samples and bloodstains.

    Science.gov (United States)

    Schütz, Harald; Gotta, Jan Christoph; Erdmann, Freidoon; Risse, Manfred; Weiler, Günter

    2002-05-23

    A gas chromatography-mass spectrometry (GC-MS) method is described for the screening and detection of morphine, codeine, cocaine, benzoylecgonine, methylecgonine, cocaethylene, delta-9-tetrahydrocannabinol (THC), 11-nor-9-carboxy-THC (THC-COOH), 11-hydroxy-THC (11-OH-THC), amphetamine, methamphetamine, 3,4-methylenedioxyamphetamine (MDA), 3,4-methylenedioxymetamphetamine (MDMA) and N-methyl-1-(3,4-methylenedioxyphenyl)-2-butanamine (MBDB) in small blood samples and bloodstains using solid phase SPE columns and a pipetting robot (Gilson Aspec XL). The detection limits are in the order of 1.62-4.10 ng/50 microl spot (amphetamines), 0.15-0.82 ng/50 microl spot (cannabinoids), 1.67-4.70 ng/50 microl spot (cocaine and derivatives) and 4.53-4.91 ng/50 microl spot (opiates) and the correlation factors are between 0.9957 and 0.9999. The method has proven useful in forensic cases with only small sample volumes or bloodstains. Copyright 2002 Elsevier Science Ireland Ltd.

  3. Validation of the Rasch-based Depression Screening in a large scale German general population sample

    Directory of Open Access Journals (Sweden)

    Norra Christine

    2010-09-01

    Full Text Available Abstract Background The study aimed at presenting normative data for both parallel forms of the "Rasch-based Depression Screening (DESC", to examine its Rasch model conformity and convergent and divergent validity based on a representative sample of the German general population. Methods The sample was selected with the assistance of a demographic consulting company applying a face to face interview (N = 2509; mean age = 49.4, SD = 18.2; 55.8% women. Adherence to Rasch model assumptions was determined with analysis of Rasch model fit (infit and outfit, unidimensionality, local independence (principal component factor analysis of the residuals, PCFAR and differential item functioning (DIF with regard to participants' age and gender. Norm values were calculated. Convergent and divergent validity was determined through intercorrelations with the depression and anxiety subscales of the Hospital Anxiety and Depression Scale (HADS-D and HADS-A. Results Fit statistics were below critical values (rDESC-I = .61 and rDESC-II = .60, whereas correlations with HADS-A were rDESC-I = .62 and rDESC-II = .60. Conclusions This study provided further support for the psychometric quality of the DESC. Both forms of the DESC adhered to Rasch model assumptions and showed intercorrelations with HADS subscales that are in line with the literature. The presented normative data offer important advancements for the interpretation of the questionnaire scores and enhance its usefulness for clinical and research applications.

  4. Reasons for non-attendance to cervical screening and preferences for HPV self-sampling in Dutch women.

    Science.gov (United States)

    Bosgraaf, Remko P; Ketelaars, Pleun J W; Verhoef, Viola M J; Massuger, Leon F A G; Meijer, Chris J L M; Melchers, Willem J G; Bekkers, Ruud L M

    2014-07-01

    High attendance rates in cervical screening are essential for effective cancer prevention. Offering HPV self-sampling to non-responders increases participation rates. The objectives of this study were to determine why non-responders do not attend regular screening, and why they do or do not participate when offered a self-sampling device. A questionnaire study was conducted in the Netherlands from October 2011 to December 2012. A total of 35,477 non-responders were invited to participate in an HPV self-sampling study; 5347 women did opt out. Finally, 30,130 women received a questionnaire and self-sampling device. The analysis was based on 9484 returned questionnaires (31.5%) with a self-sample specimen, and 682 (2.3%) without. Among women who returned both, the main reason for non-attendance to cervical screening was that they forgot to schedule an appointment (3068; 32.3%). The most important reason to use the self-sampling device was the opportunity to take a sample in their own time-setting (4763; 50.2%). A total of 30.9% of the women who did not use the self-sampling device preferred after all to have a cervical smear taken instead. Organisational barriers are the main reason for non-attendance in regular cervical screening. Important reasons for non-responders to the regular screening to use a self-sampling device are convenience and self-control. Copyright © 2014 Elsevier Inc. All rights reserved.

  5. Chorionic villus sampling in the cell-free DNA aneuploidy screening era: careful selection criteria can maximise the clinical utility of screening and invasive testing.

    Science.gov (United States)

    Kane, Stefan C; Reidy, Karen L; Norris, Fiona; Nisbet, Deborah L; Kornman, Louise H; Palma-Dias, Ricardo

    2017-04-01

    To quantify the impact of cell-free DNA (cfDNA) screening on chorionic villus sampling (CVS) test indications and outcomes in a tertiary maternity service. Retrospective cohort study of all CVS procedures performed for any indication on singleton pregnancies at The Royal Women's Hospital, Melbourne, and at Women's Ultrasound Melbourne, Australia, between August 2008 and February 2015. Karyotypes were classified according to pathogenicity and detectability by standard cfDNA screening panels. A total of 2051 CVS procedures, 25 373 twelve-week scans and 2394 cfDNA tests were performed. The CVS rate per 12-week scan fell from 9.8 to 3.9% following introduction of cfDNA screening. The yield of pathogenic chromosomal anomalies per CVS increased from 12.9 to 25.2%, with 70% of pathogenic results now comprising T21, up from 52%. Sixteen (5.3%) of the pathogenic chromosomal abnormalities identified on CVS would not have been predicted by current cfDNA tests. There is an evolving tension between improved screening performance for common aneuploidies offered by cfDNA testing, and the increasing diagnostic utility of molecular karyotyping. However, the risk of not identifying pathogenic chromosomal abnormalities is low if cfDNA screening is offered in the absence of a structural fetal anomaly, increased nuchal translucency or relevant family history. © 2017 John Wiley & Sons, Ltd. © 2017 John Wiley & Sons, Ltd.

  6. Pipeline system operability review

    Energy Technology Data Exchange (ETDEWEB)

    Eriksson, Kjell [Det Norske Veritas (Norway); Davies, Ray [CC Technologies, Dublin, OH (United States)

    2005-07-01

    Pipeline operators are continuously working to improve the safety of their systems and operations. In the US both liquid and gas pipeline operators have worked with the regulators over many years to develop more systematic approaches to pipeline integrity management. To successfully manage pipeline integrity, vast amounts of data from different sources needs to be collected, overlaid and analyzed in order to assess the current condition and predict future degradation. The efforts undertaken by the operators has had a significant impact on pipeline safety, nevertheless, during recent years we have seen a number of major high profile accidents. One can therefore ask how effective the pipeline integrity management systems and processes are. This paper will present one methodology 'The Pipeline System Operability Review' that can evaluate and rate the effectiveness of both the management systems and procedures, as well as the technical condition of the hardware. The result from the review can be used to compare the performance of different pipelines within one operating company, as well as benchmark with international best practices. (author)

  7. Human papillomavirus self-sampling for screening nonattenders: Opt-in pilot implementation with electronic communication platforms.

    Science.gov (United States)

    Lam, Janni Uyen Hoa; Rebolj, Matejka; Møller Ejegod, Ditte; Pedersen, Helle; Rygaard, Carsten; Lynge, Elsebeth; Thirstrup Thomsen, Louise; Krüger Kjaer, Susanne; Bonde, Jesper

    2017-05-15

    In organized cervical screening programs, typically 25% of the invited women do not attend. The Copenhagen Self-sampling Initiative (CSi) aimed to gain experiences on participation among screening nonattenders in the Capital Region of Denmark. Here, we report on the effectiveness of different communication platforms used in the pilot with suggestions for strategies prior to a full-implementation. Moreover, an innovative approach using self-sampling brushes with unique radio frequency identification chips allowed for unprecedented levels patient identification safety. Nonattenders from the capital region of Denmark were identified via the organized national invitation module. Screening history was obtained via the nationwide pathology registry. Twenty-four thousand women were invited, and as an alternative to the regular communication platforms (letter and phone), women could request a home test via a mobile-friendly webpage. Instruction material and video-animation in several languages were made available online. Chi-square test was used to test differences. Out of all invited, 31.7% requested a home test, and 20% returned it to the laboratory. In addition, 10% were screened at the physician after receiving the invitation. Stratified by screening history, long-term unscreened women were less likely to participate than intermittently screened women (28% vs. 16%, p < 0.001). Of all contacts received, 64% (63-65) came via letter, and 31% (95CI: 30-32%) via webpage/mobile-app. Self-sampling was well-accepted among nonattenders. Adopting modern technology-based platforms into the current organized screening program would serve as a convenient communication method between health authority and citizens, allowing easy access for the citizen and reducing the work load in administrating self-sampling approaches. © 2017 The Authors International Journal of Cancer published by John Wiley & Sons Ltd on behalf of UICC.

  8. Slurry pipeline hydrostatic testing

    Energy Technology Data Exchange (ETDEWEB)

    Betinol, Roy G.; Navarro Rojas, Luis Alejandro [BRASS Chile S.A., Santiago (Chile)

    2009-07-01

    The transportation of concentrates and tailings through long distance pipeline has been proven in recent years to be the most economic, environmentally friendly and secure means of transporting of mine products. This success has led to an increase in the demand for long distance pipeline throughout the mining industry. In year 2007 alone, a total of over 500 km of pipeline has been installed in South America alone and over 800 km are in the planning stages. As more pipelines are being installed, the need to ensure its operating integrity is ever increasing. Hydrostatic testing of long distance pipeline is one of the most economical and expeditious way to proving the operational integrity of the pipe. The intent of this paper is to show the sound reasoning behind construction hydro testing and the economic benefit it presents. It will show how hydro test pressures are determined based on ASME B31.11 criteria. (author)

  9. Slurry pipeline design approach

    Energy Technology Data Exchange (ETDEWEB)

    Betinol, Roy; Navarro R, Luis [Brass Chile S.A., Santiago (Chile)

    2009-12-19

    Compared to other engineering technologies, the design of a commercial long distance Slurry Pipeline design is a relatively new engineering concept which gained more recognition in the mid 1960 's. Slurry pipeline was first introduced to reduce cost in transporting coal to power generating units. Since then this technology has caught-up worldwide to transport other minerals such as limestone, copper, zinc and iron. In South America, the use of pipeline is commonly practiced in the transport of Copper (Chile, Peru and Argentina), Iron (Chile and Brazil), Zinc (Peru) and Bauxite (Brazil). As more mining operations expand and new mine facilities are opened, the design of the long distance slurry pipeline will continuously present a commercially viable option. The intent of this paper is to present the design process and discuss any new techniques and approach used today to ensure a better, safer and economical slurry pipeline. (author)

  10. Preliminary Blood Pressure Screening in a Representative Sample of Extremely Obese Kuwaiti Adolescents

    Directory of Open Access Journals (Sweden)

    Rima Abdul Razzak

    2013-01-01

    Full Text Available A relationship between blood pressure (BP and obesity has been found in young adults, but no data are available for adolescents in Kuwait. 257 adolescent (11–19 years participants were categorized into two groups according to their BMI; 48 nonobese (21 males: 43.7% and 27 females: 56.3% with mean age of years and 209 obese (128 males: 61.25% and 81 females: 38.75% with mean age of years. The mean BMI was  kg/m2 for the nonobese group and  kg/m3 for the obese group. Most BP measures based on a single screening were significantly higher in the obese group. The prevalence of elevated BP was significantly higher in the obese subjects (nonobese: 13%; obese: 63%; . In the obese group, there was a significant positive correlation between total sample BMI and all BP measures except the pulse pressure. There was a similar rate of elevated blood pressure between males and females (64% versus 60%; . For both isolated systolic elevated BP and isolated diastolic elevated BP, the prevalences were comparable between the males (systolic: 42%; diastolic: 5% and females (systolic: 34%; diastolic: 14%. Only systolic BP was positively correlated with BMI in obese adolescent males (Spearman ; , with a significant correlation between BMI with diastolic (Spearman ; and mean BP (Spearman ; in females.

  11. Parametric and nonparametric two-sample tests for feature screening in class comparison: a simulation study

    Directory of Open Access Journals (Sweden)

    Elena Landoni

    2016-06-01

    Full Text Available Background. The identification of a location-, scale- and shape-sensitive test to detect differentially expressed features between two comparison groups represents a key point in high dimensional studies. The most commonly used tests refer to differences in location, but general distributional discrepancies might be important to reveal differential biological processes.                                                         Methods. A simulation study was conducted to compare the performance of a set of two-sample tests, i.e. Student's t, Welch's t, Wilcoxon-Mann-Whitney, Podgor-Gastwirth PG2, Cucconi, Kolmogorov-Smirnov (KS, Cramer-von Mises (CvM, Anderson-Darling (AD and Zhang tests (ZK, ZC and ZA which were investigated under different distributional patterns. We applied the same tests to a real data example.                   Results. AD, CvM, ZA and ZC tests proved to be the most sensitive tests in mixture distribution patterns, while still maintaining a high power in normal distribution patterns. At best, the AD test showed a loss in power of ~ 2% in the comparison of two normal distributions, but a gain of ~ 32% with mixture distributions respect to the parametric tests. Accordingly, the AD test detected the greatest number of differentially expressed features in the real data application.   Conclusion. The tests for the general two-sample problem introduce a more general concept of 'differential expression', thus overcoming the limitations of the other tests restricted to specific moments of the feature distributions. In particular, the AD test should be considered as a powerful alternative to the parametric tests for feature screening in order to keep as many discriminative features as possible for the class prediction analysis.

  12. Screening for dementia in Arabic: normative data from an elderly Lebanese sample.

    Science.gov (United States)

    Abou-Mrad, Fadi; Chelune, Gordon; Zamrini, Edward; Tarabey, Lubna; Hayek, Maryse; Fadel, Patricia

    2017-02-23

    Prevention and treatment of dementia is a global concern that requires involvement of international samples. The purpose of this study is to develop culturally sensitive norms based on normal older Lebanese adults using multiple cognitive screening measures translated into Arabic for regional use. Participants were 164 community dwelling older Lebanese adults without cognitive complaints. They were administered the following cognitive measures in Arabic: Alzheimer's Disease 8-item questionnaire, Montreal Cognitive Assessment, Mini Mental Status Exam, Modified Mini Mental Status, Brief Visuospatial Memory Test-Revised, Lebanese Digit Span, Cross-Linguistic Naming Test, and phonemic and semantic fluency tests. Sample characteristics and descriptive statistics for the demographically unadjusted raw scores are first presented (N = 164). Same-form test-retest reliability for each test were computed for 24 participants retested over 2-5 weeks, with reliabilities ranging from .55 to .90; Cronbach alpha coefficients ranged from .34 to .93. Two sets of normative data were constructed. First, base-rates for demographically unadjusted raw scores for the 5th, 10th and 15th percentiles are presented to identify relatively rare occurring performances. Second, using standardized regression-based procedures demographically corrected normative information adjusted for age, education and sex were generated for normative interpretation. Adapting cognitive tests for use in culturally and linguistically diverse regions of the world not only requires careful translation of test instructions and materials, but construction of culturally sensitive local norms. Our normative data should allow for more accurate identification of cognitive impairment and dementia in Arabic-speaking patients, especially those living in Lebanon.

  13. Muslim immigrant women’s views on cervical cancer screening and HPV self-sampling in Ontario, Canada

    Directory of Open Access Journals (Sweden)

    Mandana Vahabi

    2016-08-01

    Full Text Available Abstract Background Canada has observed significant decreases in incidence and mortality of cervical cancer in recent decades, and this has been attributed to appropriate screening (i.e., the Pap test. However, certain subgroups including Muslim immigrants show higher rates of cervical cancer mortality despite their lower incidence. Low levels of screening have been attributed to such barriers as lack of a family physician, inconvenient clinic hours, having a male physician, and cultural barriers (e.g., modesty, language. HPV self –sampling helps to alleviate many of these barriers. However, little is known about the acceptability of this evidence-based strategy among Muslim women. This study explored Muslim immigrant women’s views on cervical cancer screening and the acceptability of HPV self-sampling. Methods An exploratory community-based mixed methods design was used. A convenience sample of 30 women was recruited over a 3-month period (June–August 2015 in the Greater Toronto Area. All were between 21 and 69 years old, foreign-born, self-identified as Muslim, and had good knowledge of English. Data were collected through focus groups. Results This study provides critical insights about the importance of religious and cultural beliefs in shaping the daily and health care experiences of Muslim women and their cancer screening decisions. Our study showed the deterring impact of beliefs and health practices in home countries on Muslim immigrant women’s utilization of screening services. Limited knowledge about cervical cancer and screening guidelines and need for provision of culturally appropriate sexual health information were emphasized. The results revealed that HPV self-sampling provides a favorable alternative model of care to the traditional provider-administered Pap testing for this population. Conclusion To enhance Muslim immigrant women screening uptake, efforts should made to increase 1 their knowledge of the Canadian health

  14. Screening of a long-term sample set reveals two Ranavirus lineages in British herpetofauna.

    Directory of Open Access Journals (Sweden)

    Stephen J Price

    Full Text Available Reports of severe disease outbreaks in amphibian communities in mainland Europe due to strains of the common midwife toad virus (CMTV-like clade of Ranavirus are increasing and have created concern due to their considerable population impacts. In Great Britain, viruses in another clade of Ranavirus-frog virus 3 (FV3-like-have caused marked declines of common frog (Rana temporaria populations following likely recent virus introductions. The British public has been reporting mortality incidents to a citizen science project since 1992, with carcasses submitted for post-mortem examination, resulting in a long-term tissue archive spanning 25 years. We screened this archive for ranavirus (458 individuals from 228 incidents using molecular methods and undertook preliminary genotyping of the ranaviruses detected. In total, ranavirus was detected in 90 individuals from 41 incidents focused in the north and south of England. The majority of detections involved common frogs (90% but also another anuran, a caudate and a reptile. Most incidents were associated with FV3-like viruses but two, separated by 300 km and 16 years, involved CMTV-like viruses. These British CMTV-like viruses were more closely related to ranaviruses from mainland Europe than to each other and were estimated to have diverged at least 458 years ago. This evidence of a CMTV-like virus in Great Britain in 1995 represents the earliest confirmed case of a CMTV associated with amphibians and raises important questions about the history of ranavirus in Great Britain and the epidemiology of CMTV-like viruses. Despite biases present in the opportunistic sample used, this study also demonstrates the role of citizen science projects in generating resources for research and the value of maintaining long-term wildlife tissue archives.

  15. Screening of a long-term sample set reveals two Ranavirus lineages in British herpetofauna.

    Science.gov (United States)

    Price, Stephen J; Wadia, Alexandra; Wright, Owen N; Leung, William T M; Cunningham, Andrew A; Lawson, Becki

    2017-01-01

    Reports of severe disease outbreaks in amphibian communities in mainland Europe due to strains of the common midwife toad virus (CMTV)-like clade of Ranavirus are increasing and have created concern due to their considerable population impacts. In Great Britain, viruses in another clade of Ranavirus-frog virus 3 (FV3)-like-have caused marked declines of common frog (Rana temporaria) populations following likely recent virus introductions. The British public has been reporting mortality incidents to a citizen science project since 1992, with carcasses submitted for post-mortem examination, resulting in a long-term tissue archive spanning 25 years. We screened this archive for ranavirus (458 individuals from 228 incidents) using molecular methods and undertook preliminary genotyping of the ranaviruses detected. In total, ranavirus was detected in 90 individuals from 41 incidents focused in the north and south of England. The majority of detections involved common frogs (90%) but also another anuran, a caudate and a reptile. Most incidents were associated with FV3-like viruses but two, separated by 300 km and 16 years, involved CMTV-like viruses. These British CMTV-like viruses were more closely related to ranaviruses from mainland Europe than to each other and were estimated to have diverged at least 458 years ago. This evidence of a CMTV-like virus in Great Britain in 1995 represents the earliest confirmed case of a CMTV associated with amphibians and raises important questions about the history of ranavirus in Great Britain and the epidemiology of CMTV-like viruses. Despite biases present in the opportunistic sample used, this study also demonstrates the role of citizen science projects in generating resources for research and the value of maintaining long-term wildlife tissue archives.

  16. Incremental Validity Analyses of the Violence Risk Appraisal Guide and the Psychopathy Checklist: Screening Version in a Civil Psychiatric Sample

    Science.gov (United States)

    Edens, John F.; Skeem, Jennifer L.; Douglas, Kevin S.

    2006-01-01

    This study compares two instruments frequently used to assess risk for violence, the Violence Risk Appraisal Guide (VRAG) and the Psychopathy Checklist: Screening Version (PCL:SV), in a large sample of civil psychiatric patients. Despite a strong bivariate relationship with community violence, the VRAG could not improve on the predictive validity…

  17. Practical experiences with an extended screening strategy for genetically modified organisms (GMOs) in real-life samples.

    Science.gov (United States)

    Scholtens, Ingrid; Laurensse, Emile; Molenaar, Bonnie; Zaaijer, Stephanie; Gaballo, Heidi; Boleij, Peter; Bak, Arno; Kok, Esther

    2013-09-25

    Nowadays most animal feed products imported into Europe have a GMO (genetically modified organism) label. This means that they contain European Union (EU)-authorized GMOs. For enforcement of these labeling requirements, it is necessary, with the rising number of EU-authorized GMOs, to perform an increasing number of analyses. In addition to this, it is necessary to test products for the potential presence of EU-unauthorized GMOs. Analysis for EU-authorized and -unauthorized GMOs in animal feed has thus become laborious and expensive. Initial screening steps may reduce the number of GMO identification methods that need to be applied, but with the increasing diversity also screening with GMO elements has become more complex. For the present study, the application of an informative detailed 24-element screening and subsequent identification strategy was applied in 50 animal feed samples. Almost all feed samples were labeled as containing GMO-derived materials. The main goal of the study was therefore to investigate if a detailed screening strategy would reduce the number of subsequent identification analyses. An additional goal was to test the samples in this way for the potential presence of EU-unauthorized GMOs. Finally, to test the robustness of the approach, eight of the samples were tested in a concise interlaboratory study. No significant differences were found between the results of the two laboratories.

  18. Facilitating high resolution mass spectrometry data processing for screening of environmental water samples: An evaluation of two deconvolution tools

    NARCIS (Netherlands)

    Bade, R.; Causanilles, A.; Emke, E.; Bijlsma, L.; Sancho, J.V.; Hernandez, F.; de Voogt, P.

    2016-01-01

    A screening approach was applied to influent and effluent wastewater samples. After injection in a LC-LTQ-Orbitrap, data analysis was performed using two deconvolution tools, MsXelerator (modules MPeaks and MS Compare) and Sieve 2.1. The outputs were searched incorporating an in-house database of >

  19. Influence of remanent magnetization on pitting corrosion in pipeline steel

    Energy Technology Data Exchange (ETDEWEB)

    Espina-Hernandez, J. H. [ESIME Zacatenco, SEPI Electronica Instituto Politecnico Nacional Mexico, D. F. (Mexico); Caleyo, F.; Hallen, J. M. [DIM-ESIQIE, Instituto Politecnico Nacional Mexico D. F. (Mexico); Lopez-Montenegro, A.; Perez-Baruch, E. [Pemex Exploracion y Produccion, Region Sur Villahermosa, Tabasco (Mexico)

    2010-07-01

    Statistical studies performed in Mexico indicate that leakage due to external pitting corrosion is the most likely cause of failure of buried pipelines. When pipelines are inspected with the magnetic flux leakage (MFL) technology, which is routinely used, the magnetization level of every part of the pipeline changes as the MFL tool travels through it. Remanent magnetization stays in the pipeline wall after inspection, at levels that may differ from a point to the next. This paper studies the influence of the magnetic field on pitting corrosion. Experiments were carried out on grade 52 steel under a level of remanent magnetization and other laboratory conditions that imitated the conditions of a pipeline after an MLF inspection. Non-magnetized control samples and magnetized samples were subjected to pitting by immersion in a solution containing chlorine and sulfide ions for seven days, and then inspected with optical microscopy. Results show that the magnetic field in the pipeline wall significantly increases pitting corrosion.

  20. The role of discriminant functions in screening beta thalassemia trait and iron deficiency anemia among laboratory samples

    Directory of Open Access Journals (Sweden)

    Ashwani Kumar

    2017-01-01

    Conclusion: MI was the most efficient in discriminating BTT from iron deficiency anemia (IDA. RDWI stands to be the most accurate. S and L could at best be used as screening tool rather than DF. No study except one agreed with us because convenient sampling used in other studies generated bias in their results. Statistically, this study bears far more relevance than other studies because the sample distribution reflects the prevalence of IDA and BTT in the community.

  1. Utilization of breast cancer screening methods in a developing nation: results from a nationally representative sample of Malaysian households.

    Science.gov (United States)

    Dunn, Richard A; Tan, Andrew K G

    2011-01-01

    As is the case in many developing nations, previous studies of breast cancer screening behavior in Malaysia have used relatively small samples that are not nationally representative, thereby limiting the generalizability of results. Therefore, this study uses nationally representative data from the Malaysia Non-Communicable Disease Surveillance-1 to investigate the role of socio-economic status on breast cancer screening behavior in Malaysia, particularly differences in screening behaviour between ethnic groups. The decisions of 816 women above age 40 in Malaysia to screen for breast cancer using mammography, clinical breast exams (CBE), and breast self-exams (BSE) are modeled using logistic regression. Results indicate that after adjusting for differences in age, education, household income, marital status, and residential location, Malay women are less likely than Chinese and Indian women to utilize mammography, but more likely to perform BSE. Education level and urban residence are positively associated with utilization of each method, but these relationships vary across ethnicity. Higher education levels are strongly related to using each screening method among Chinese women, but have no statistically significant relationship to screening among Malays. © 2011 Wiley Periodicals, Inc.

  2. Central oxygen pipeline failure

    African Journals Online (AJOL)

    the newly replaced main oxygen valve was slowly opened to allow pipeline pressure to build. ... The gas then passes through high-pressure regulators, which regulate the ... 1Department of Anaesthesiology and Sedation & Pain control, UWC.

  3. Chechnya: the pipeline front

    Energy Technology Data Exchange (ETDEWEB)

    Anon.

    1999-11-01

    This article examines the impact of the Russian campaign against Chechnya on projects for oil and gas pipelines from the new Caspian republics, which are seeking financial support. Topics discussed include the pipeline transport of oil from Azerbaijan through Chechnya to the Black Sea, the use of oil money to finance the war, the push for non-Russian export routes, the financing of pipelines, the impact of the war on the supply of Russian and Turkmenistan gas to Turkey, the proposed construction of the Trans Caspian pipeline, the weakening of trust between Russia and its neighbours, and the potential for trans Caucasus republics to look to western backers due to the instability of the North Caucasus. (UK)

  4. High Levels of Sample-to-Sample Variation Confound Data Analysis for Non-Invasive Prenatal Screening of Fetal Microdeletions.

    Science.gov (United States)

    Chu, Tianjiao; Yeniterzi, Suveyda; Yatsenko, Svetlana A; Dunkel, Mary; Shaw, Patricia A; Bunce, Kimberly D; Peters, David G

    2016-01-01

    Our goal was to test the hypothesis that inter-individual genomic copy number variation in control samples is a confounding factor in the non-invasive prenatal detection of fetal microdeletions via the sequence-based analysis of maternal plasma DNA. The database of genomic variants (DGV) was used to determine the "Genomic Variants Frequency" (GVF) for each 50kb region in the human genome. Whole genome sequencing of fifteen karyotypically normal maternal plasma and six CVS DNA controls samples was performed. The coefficient of variation of relative read counts (cv.RTC) for these samples was determined for each 50kb region. Maternal plasma from two pregnancies affected with a chromosome 5p microdeletion was also sequenced, and analyzed using the GCREM algorithm. We found strong correlation between high variance in read counts and GVF amongst controls. Consequently we were unable to confirm the presence of the microdeletion via sequencing of maternal plasma samples obtained from two sequential affected pregnancies. Caution should be exercised when performing NIPT for microdeletions. It is vital to develop our understanding of the factors that impact the sensitivity and specificity of these approaches. In particular, benign copy number variation amongst controls is a major confounder, and their effects should be corrected bioinformatically.

  5. High Levels of Sample-to-Sample Variation Confound Data Analysis for Non-Invasive Prenatal Screening of Fetal Microdeletions.

    Directory of Open Access Journals (Sweden)

    Tianjiao Chu

    Full Text Available Our goal was to test the hypothesis that inter-individual genomic copy number variation in control samples is a confounding factor in the non-invasive prenatal detection of fetal microdeletions via the sequence-based analysis of maternal plasma DNA. The database of genomic variants (DGV was used to determine the "Genomic Variants Frequency" (GVF for each 50kb region in the human genome. Whole genome sequencing of fifteen karyotypically normal maternal plasma and six CVS DNA controls samples was performed. The coefficient of variation of relative read counts (cv.RTC for these samples was determined for each 50kb region. Maternal plasma from two pregnancies affected with a chromosome 5p microdeletion was also sequenced, and analyzed using the GCREM algorithm. We found strong correlation between high variance in read counts and GVF amongst controls. Consequently we were unable to confirm the presence of the microdeletion via sequencing of maternal plasma samples obtained from two sequential affected pregnancies. Caution should be exercised when performing NIPT for microdeletions. It is vital to develop our understanding of the factors that impact the sensitivity and specificity of these approaches. In particular, benign copy number variation amongst controls is a major confounder, and their effects should be corrected bioinformatically.

  6. Do all screening immunoassay positive buprenorphine samples need to be confirmed?

    Science.gov (United States)

    Saleem, Mohamed; Martin, Helen; Tolya, Anne; Coates, Penny

    2017-11-01

    Background Interference from opiates in the Microgenics CEDIA® Buprenorphine assay is known to produce false-positive buprenorphine screening immunoassay results necessitating confirmatory buprenorphine testing by chromatography/mass spectrometry methods. Method We reviewed data on falsely positive buprenorphine immunoassay screen (cut-off ≥ 5  µg/L) but negative for buprenorphine by gas chromatography mass spectrometry (cut-off ≥ 5  µg/L) and had a positive opiate immunoassay result (cut-off ≥ 300  µg/L). The results were collected over three months, and the data were evaluated to determine whether there is an opiate immunoassay screen concentration below which a false-positive buprenorphine result will not occur. Results We found that cross-reactivity in the CEDIA® buprenorphine immunoassay by opiates at concentrations buprenorphine result. After changing our practice to not proceed with confirmatory buprenorphine gas chromatography mass spectrometry assay when the opiate screening concentration is below an even more conservative cut-off of buprenorphine immunoassay screen do not require confirmatory testing for buprenorphine.

  7. The influence of coping styles on mammography screening in a multiethnic sample.

    Science.gov (United States)

    Kudadjie-Gyamfi, Elizabeth; Magai, Carol

    2008-07-01

    A total of 308 women from seven ethnic subpopulations (comprising major ethnic groups of Black, Hispanic, and non-Hispanic White) were interviewed to examine their coping styles in response to an imagined breast cancer diagnosis and to determine relationships among ethnicity, access to mammography, coping styles, and mammography screening. There were ethnic subpopulation differences in the five coping styles identified (problem solving, social support, positive reframing, wishful thinking, and avoidance), and in the relations between screening rates and coping styles. Specifically, ethnicity differentially moderated the relationship between screening rates and avoidance within and between major groups. Researchers studying behavior that is likely to be impacted by culture, such as health preventive behaviors, are well advised to take coping styles into account, as well as to examine potential ethnic subpopulation differences. Copyright (c) 2008 APA, all rights reserved.

  8. Non-attendance of mammographic screening: the roles of age and municipality in a population-based Swedish sample.

    Science.gov (United States)

    Zidar, Maria Norfjord; Larm, Peter; Tillgren, Per; Akhavan, Sharareh

    2015-12-30

    Inequality in health and health care is increasing in Sweden. Contributing to widening gaps are various factors that can be assessed by determinants, such as age, educational level, occupation, living area and country of birth. A health care service that can be used as an indicator of health inequality in Sweden is mammographic screening. The non-attendance rate is between 13 and 31 %, while the average is about 20 %. This study aims to shed light on three associations: between municipality and non-attendance, between age and non-attendance, and the interaction of municipality of residence and age in relation to non-attendance. The study is based on data from the register that identifies attenders and non-attenders of mammographic screening in a Swedish county, namely the Radiological Information System (RIS). Further, in order to provide a socio-demographic profile of the county's municipalities, aggregated data for women in the age range 40-74 in 2012 were retrieved from Statistics Sweden (SCB), the Public Health Agency of Sweden, the National Board of Health and Welfare, and the Swedish Social Insurance Agency. The sample consisted of 52,541 women. Analysis conducted of the individual data were multivariate logistic regressions, and pairwise chi-square tests. The results show that age and municipality of residence associated with non-attendance of mammographic screening. Municipality of residence has a greater impact on non-attendance among women in the age group 70 to 74. For most of the age categories there were differences between the municipalities in regard to non-attendance to mammographic screening. Age and municipality of residence affect attendance of mammographic screening. Since there is one sole and pre-selected mammographic screening facility in the county, distance to the screening facility may serve as one explanation to non-attendance which is a determinant of inequity. From an equity perspective, lack of equal access to health and health care

  9. Offering Self-Sampling to Non-Attendees of Organized Primary HPV Screening: When Do Harms Outweigh the Benefits?

    Science.gov (United States)

    Rozemeijer, Kirsten; de Kok, Inge M C M; Naber, Steffie K; van Kemenade, Folkert J; Penning, Corine; van Rosmalen, Joost; van Ballegooijen, Marjolein

    2015-05-01

    Human papillomavirus (HPV) self-sampling might be a promising tool to increase effectiveness of primary HPV screening programs when offered to non-attendees. However, effectiveness could decrease if regular attendees "switch" to self-sampling, because self-sampling test characteristics may be inferior. We examined under which conditions the harms would outweigh the benefits. The MISCAN-cervix model was used to estimate quality-adjusted life years (QALY) gained and costs of offering HPV self-sampling to non-attendees. We varied the relative CIN2(+) sensitivity and specificity (self-sampling vs. regular sampling), extra attendance, risk of extra attendees, and the switching percentage. Without switching, offering self-sampling is (cost-)effective under every studied condition. If the attendance due to self-sampling increases by ≥6 percentage points, higher primary background risk women (unscreened women who will never attend regular screening) attend and the relative CIN2(+) sensitivity and specificity are ≥0.95; it is (cost-)effective to offer self-sampling to non-attendees, even if all regular attendees switch. If the relative sensitivity decreases to 0.90 combined with either a 3 percentage points extra attendance or the absence of higher primary background risk women, QALYs are lost when more than 30% to 20% of the regular attendees switch. Offering self-sampling will gain health effects if the relative CIN2(+) sensitivity is ≥0.95, unscreened attendees are recruited, and the total attendance increases by ≥6 percentage points. Otherwise, switching of regular attendees may decrease the total effectiveness of the program. Self-sampling needs to be implemented with great care and advantages of office-based sampling need to be emphasized to prevent switching. ©2014 American Association for Cancer Research.

  10. The impact of screening-test negative samples not enumerated by MPN

    DEFF Research Database (Denmark)

    Corbellini, Luis Gustavo; Ribeiro Duarte, Ana Sofia; de Knegt, Leonardo

    2015-01-01

    In microbiological surveys, false negative results in detection tests precluding the enumeration by MPN may occur. The objective of this study was to illustrate the impact of screening test failure on the probability distribution of Salmonella concentrations in pork using a Bayesian method. A tot...

  11. Application of orthogonal light scattering for routine screening of lymphocyte samples

    NARCIS (Netherlands)

    Terstappen, Leonardus Wendelinus Mathias Marie; de Grooth, B.G.; van Berkel, W.; ten Napel, C.H.H.; Greve, Jan

    1988-01-01

    Orthogonal and forward light-scattering properties of lymphocytes were measured from patients with different lymphocytic diseases in order to determine the potential value of light scattering as a screening device. Monitoring of orthogonal light scattering of lymphocytes of a B-cell chronic

  12. Integrated Automation of High-Throughput Screening and Reverse Phase Protein Array Sample Preparation

    DEFF Research Database (Denmark)

    Pedersen, Marlene Lemvig; Block, Ines; List, Markus

    multiplexing readouts, but this has a natural limitation. High-content screening via image acquisition and analysis allows multiplexing of few parameters, but is connected to substantial time consumption and complex logistics. We report on integration of Reverse Phase Protein Arrays (RPPA)-based readouts...

  13. Genetic Variance for Autism Screening Items in an Unselected Sample of Toddler-Age Twins

    Science.gov (United States)

    Stilp, Rebecca L. H.; Gernsbacher, Morton Ann; Schweigert, Emily K.; Arneson, Carrie L.; Goldsmith, H. Hill

    2010-01-01

    Objective: Twin and family studies of autistic traits and of cases diagnosed with autism suggest high heritability; however, the heritability of autistic traits in toddlers has not been investigated. Therefore, this study's goals were (1) to screen a statewide twin population using items similar to the six critical social and communication items…

  14. Urine versus brushed samples in human papillomavirus screening: study in both genders.

    NARCIS (Netherlands)

    Hauwers, K.W.M. d'; Depuydt, C.; Bogers, J.P.; Stalpaert, M.; Vereecken, A.; Wyndaele, J.J.; Tjalma, W.

    2007-01-01

    AIM: To investigate whether urine is a good medium for screening and whether there is a correlation between the amount of extracted DNA and human papillomavirus (HPV)-positivity. METHODS: In the present study, 30 first-voided urine (FVU) specimens and 20 urethroglandular swabs using cervex-brushes

  15. Semiautomated TaqMan PCR screening of GMO labelled samples for (unauthorised) GMOs

    NARCIS (Netherlands)

    Scholtens-Toma, Ingrid; Molenaar, Bonnie; Hoof, van Richard A.; Zaaijer, Stephanie; Prins, Theo W.; Kok, Esther J.

    2017-01-01

    In most countries, systems are in place to analyse food products for the potential presence of genetically modified organisms (GMOs), to enforce labelling requirements and to screen for the potential presence of unauthorised GMOs. With the growing number of GMOs on the world market, a larger

  16. Capture and exploration of sample quality data to inform and improve the management of a screening collection.

    Science.gov (United States)

    Charles, Isabel; Sinclair, Ian; Addison, Daniel H

    2014-04-01

    A new approach to the storage, processing, and interrogation of the quality data for screening samples has improved analytical throughput and confidence and enhanced the opportunities for learning from the accumulating records. The approach has entailed the design, development, and implementation of a database-oriented system, capturing information from the liquid chromatography-mass spectrometry capabilities used for assessing the integrity of samples in AstraZeneca's screening collection. A Web application has been developed to enable the visualization and interactive annotation of the analytical data, monitor the current sample queue, and report the throughput rate. Sample purity and identity are certified automatically on the chromatographic peaks of interest if predetermined thresholds are reached on key parameters. Using information extracted in parallel from the compound registration and container inventory databases, the chromatographic and spectroscopic profiles for each vessel are linked to the sample structures and storage histories. A search engine facilitates the direct comparison of results for multiple vessels of the same or similar compounds, for single vessels analyzed at different time points, or for vessels related by their origin or process flow. Access to this network of information has provided a deeper understanding of the multiple factors contributing to sample quality assurance.

  17. Determination of mercury in ambient water samples by anodic stripping voltammetry on screen-printed gold electrodes.

    Science.gov (United States)

    Bernalte, E; Marín Sánchez, C; Pinilla Gil, E

    2011-03-09

    The applicability of commercial screen-printed gold electrodes (SPGEs) for the determination of Hg(II) in ambient water samples by square wave anodic stripping voltammetry has been demonstrated. Electrode conditioning procedures, chemical and instrumental variables have been optimized to develop a reliable method capable of measuring dissolved mercury in the low ng mL(-1) range (detection limit 1.1 ng mL(-1)), useful for pollution monitoring or screening purposes. The proposed method was tested with the NIST 1641d Mercury in Water Standard Reference Material (recoveries 90.0-110%) and the NCS ZC 76303 Mercury in Water Certified Reference Material (recoveries 82.5-90.6%). Waste water samples from industrial origin and fortified rain water samples were assayed for mercury by the proposed method and by a reference ICP-MS method, with good agreement. Screen printing technology thus opens a useful way for the construction of reliable electrochemical sensors for decentralized or even field Hg(II) testing. Copyright © 2011 Elsevier B.V. All rights reserved.

  18. Cervical cancer incidence after normal cytological sample in routine screening using SurePath, ThinPrep, and conventional cytology

    DEFF Research Database (Denmark)

    Rozemeijer, Kirsten; Naber, Steffie K; Penning, Corine

    2017-01-01

    Objective To compare the cumulative incidence of cervical cancer diagnosed within 72 months after a normal screening sample between conventional cytology and liquid based cytology tests SurePath and ThinPrep.Design Retrospective population based cohort study.Setting Nationwide network and registry...... of histo- and cytopathology in the Netherlands (PALGA), January 2000 to March 2013.Population Women with 5 924 474 normal screening samples (23 833 123 person years).Exposure Use of SurePath or ThinPrep versus conventional cytology as screening test.Main outcome measure 72 month cumulative incidence...... was 58.5 (95% confidence interval 54.6 to 62.7) per 100 000 normal conventional cytology samples, compared with 66.8 (56.7 to 78.7) for ThinPrep and 44.6 (37.8 to 52.6) for SurePath. Compared with conventional cytology, the hazard of invasive cancer was 19% lower (hazard ratio 0.81, 95% confidence...

  19. The Michigan Alcoholism Screening Test: false positives in a college student sample.

    Science.gov (United States)

    Martin, C S; Liepman, M R; Young, C M

    1990-12-01

    The Michigan Alcoholism Screening Test (MAST), designed and validated by Selzer (1971), is widely used to screen for persons with alcohol problems. The most recent version of the MAST includes the question "Have you ever attended a meeting of Alcoholics Anonymous (AA)?" This question may contribute to false positive identifications, as it does not specify whether attendance is for the subject's own problem drinking. In the current research, 114 college students completed the MAST along with an additional question: "Have you ever attended a meeting of Alcoholics Anonymous because of your own problem drinking?" The results indicated that seven of 114 subjects (6.1%) attained inflated MAST scores because they had attended an Alcoholics Anonymous meeting, but not for their own problem drinking. It is suggested that the wording to the Alcoholics Anonymous question on the MAST be changed to reduce the number of false positive identifications produced by this instrument.

  20. A rapid screening with direct sequencing from blood samples for the diagnosis of Leigh syndrome

    Directory of Open Access Journals (Sweden)

    Hiroko Shimbo

    2014-01-01

    Full Text Available Large numbers of genes are responsible for Leigh syndrome (LS, making genetic confirmation of LS difficult. We screened our patients with LS using a limited set of 21 primers encompassing the frequently reported gene for the respiratory chain complexes I (ND1–ND6, and ND4L, IV(SURF1, and V(ATP6 and the pyruvate dehydrogenase E1α-subunit. Of 18 LS patients, we identified mutations in 11 patients, including 7 in mDNA (two with ATP6, 4 in nuclear (three with SURF1. Overall, we identified mutations in 61% of LS patients (11/18 individuals in this cohort. Sanger sequencing with our limited set of primers allowed us a rapid genetic confirmation of more than half of the LS patients and it appears to be efficient as a primary genetic screening in this cohort.

  1. Screening of children saliva samples for bisphenol A using stochastic, amperometric and multimode microsensors

    OpenAIRE

    Stefan-Van Staden, Raluca-Ioana; Gugoaşă, Livia Alexandra; Calenic, Bogdan; van Staden, Jacobus F.; Legler, Juliette

    2014-01-01

    Bisphenol A found in plastic vessels used for children feeding is an endocrine disrupting compound. Therefore it can also induce the obesity at a very early stage in the life of children, and its presence in children saliva should be checked. We proposed eight microsensors: four stochastic microsensors, one amperometric microsensor and three multimode microsensors for the screening of children saliva for bisphenol A in a concentration range from 10−15 to 10−4 mol/L. Qualitative assessment of ...

  2. 75 FR 13342 - Pipeline Safety: Workshop on Distribution Pipeline Construction

    Science.gov (United States)

    2010-03-19

    ... practices. (3) Construction Issues, Joining, Horizontal Directional Drill/ Boring, Excavation Damage. (4... Construction AGENCY: Pipeline and Hazardous Materials Safety Administration (PHMSA), DOT. ACTION: Notice of... Safety Representatives (NAPSR) on new distribution pipeline construction. The workshop will allow...

  3. A tool for mass-screening of paragonimiasis: an enzyme-linked immunosorbent assay with urine samples.

    Science.gov (United States)

    Qiu, Xu Guang; Nakamura-Uchiyama, Fukumi; Nawa, Yukifumi; Itoh, Makoto

    2016-01-01

    Paragonimiasis is one of the foodborn trematodiases and number of the patients was estimated to be about 23 million around the world. To obtain good compliance of people for the surveillance of paragonimiasis, an enzyme-linked immunosorbent assay (ELISA) for the diagnosis of paragonimiasis with unconcentrated urine samples was developed. Paragonimus westermani antigen specific IgG and IgG4 were detected in urine samples from paragonimiasis patients and the levels correlated well with those detected in the paired serum samples. Cross-reactions observed among other trematodiasis and a tuberculosis patient with the antigen specific IgG were much reduced by detecting the antigen specific IgG4; 9.2 % to 2.3 %. The ELISA with urine samples, which are collected safely and easily, will be a useful tool for a mass-screening of paragonimiasis.

  4. Characterization of helium diffusion behavior from continuous heating experiments: Sample screening and identification of multiple 4He components

    Science.gov (United States)

    McDannell, K. T.; Idleman, B. D.; Zeitler, P. K.

    2015-12-01

    Old, slowly cooled apatites often yield overdispersed helium ages due to factors such as parent zonation, He implantation, radiation damage, crystal defects, and fluid inclusions. Careful mineral selection and many replicate analyses can mitigate the impact of some of these effects. However, this approach adds unnecessary costs in time and resources when dating well-behaved apatites and is generally ineffective at identifying the root cause of age dispersion and providing suitable age corrections for poorly behaved samples. We assess a new technique utilizing static-gas measurement during continuous heating as a means to rapidly screen apatite samples. In about the time required for a conventional total-gas analysis, this method can discriminate between samples showing the volume-diffusion behavior expected for apatite and those showing anomalous release patterns, inconsistent with their use in thermochronologic applications. This method may also have the potential to quantify and discriminate between the radiogenic and extraneous 4He fractions released by a sample. Continuously heated samples that outgas by volume diffusion during a linear heating schedule should produce a characteristic sigmoidal 4He fractional loss profile, with the exact shape and position of these profiles (in loss vs. heating time space) controlled by sample kinetics, grain size, and heating rate. Secondary factors such as sample zoning and alpha-loss distribution have a relatively minor impact on such profiles. Well-behaved examples such as the Durango standard and other apatites with good age reproducibility show the expected smooth, sigmoidal gas release with complete exhaustion by temperatures predicted for volume diffusion using typical apatite kinetics (e.g., by ~900˚C for linear heating at 20˚C/minute). In contrast, "bad actor" samples that do not replicate well show significant degrees of helium release deferred to higher temperatures. We report on screening results for a range of

  5. [Lanthanide fluorescence immunoassay of 17alpha-hydroxyprogesterone in dried blood samples for neonatal screening for adrenogenital syndrome].

    Science.gov (United States)

    Bekman, N I; Laricheva, S Iu; Pomelova, V G; Osin, N S

    2010-12-01

    The first Russian assay of 17alpha-hydroxyprogesterone in dried blood spots has been developed to use for neonatal screening for adrenogenital syndrome (AGS). The technique is modeled on solid-phase lanthanide fluorescence immunoassay with time-resolution detection and it ensures the hormone to be determined in a 3.2-mm dried blood spot in the concentration range of 0 to 400 nmol/l, the coefficient of variation being not greater than 15%, and the results correlated with those of the DELFIA Neo170HP test system. The tests of 387 dried blood samples carried out in three regions have demonstrated the efficiency of the technique for screening and verifying neonatal AGS.

  6. Test of Tree Core Sampling for Screening of Toxic Elements in Soils from a Norwegian Site

    DEFF Research Database (Denmark)

    Nielsen, Mette Algreen; Rein, Arno; Legind, Charlotte Nielsen

    2011-01-01

    Tree core samples have been used to delineate organic subsurface plumes. In 2009 and 2010, samples were taken at trees growing on a former dump site in Norway and analyzed for arsenic (As), cadmium (Cd), chromium (Cr), copper (Cu), nickel (Ni), and zinc (Zn). Concentrations in wood were in averag...

  7. The development and evaluation of a community based model for cervical cancer screening based on self-sampling.

    Science.gov (United States)

    Belinson, Jerome L; Wang, Guixiang; Qu, Xinfeng; Du, Hui; Shen, Jingjing; Xu, Jiajia; Zhong, Liqun; Yi, Ji; Yi, Xin; Wu, Ruifang

    2014-03-01

    To develop and implement a community based model for cervical cancer prevention that allows the communities to manage the screening and the healthcare system to focus resources on evaluation and management of the positives. Using self-sampling and the concepts founded in Community Based Participatory Research (CBPR), we progressively developed a model to efficiently reach the women, especially rural communities; and collect the volume of samples needed to support high throughput centralized low cost per case processing. 8382 eligible women, ages 35 to 59, in 130 rural communities participated. The screening was organized by the local government administration and conducted by the community leaders (CLs). The model used was progressively designed through detailed assessment of key elements at 6 decision points in 26 workshops that were used to train the CLs and the local promoters. The communities were able to accurately conduct the screening; in the final model a local medical worker conducted a 50-minute workshop featuring instructional posters and structured role-play. A manual and a workshop DVD were created for distribution to and implementation by local governments. The average callback rate was 84.3%, without involvement of the local doctors in the management of the positives. An efficient community based model capable of massive screening events was developed. We believe that the callback rate will be further improved when local doctors are trained in the management of the positives. Many elements impact coverage and further research is needed to define the influence of the identified key variables. Copyright © 2014 Elsevier Inc. All rights reserved.

  8. Transient cavitation in pipelines

    NARCIS (Netherlands)

    Kranenburg, C.

    1974-01-01

    The aim of the present study is to set up a one-dimensional mathematical model, which describes the transient flow in pipelines, taking into account the influence of cavitation and free gas. The flow will be conceived of as a three-phase flow of the liquid, its vapour and non-condensible gas. The

  9. Prevalence of Coxiella burnetii in Hungary: screening of dairy cows, sheep, commercial milk samples, and ticks.

    Science.gov (United States)

    Gyuranecz, Miklós; Dénes, Béla; Hornok, Sándor; Kovács, Péter; Horváth, Gábor; Jurkovich, Viktor; Varga, Tamás; Hajtós, István; Szabó, Réka; Magyar, Tibor; Vass, Nóra; Hofmann-Lehmann, Regina; Erdélyi, Károly; Bhide, Mangesh; Dán, Ádám

    2012-08-01

    Q fever is an important zoonotic disease caused by Coxiella burnetii. There are few reliable data about C. burnetii infection available. The aim of this study was to assess the importance and potential infectious sources of Q fever in Hungary. A total of 215 milk samples (10 individual samples from each herd and 1 bulk tank milk sample from each cattle herd), and 400 serum samples (20 from each herd) were tested from 15 dairy cattle herds and 5 sheep flocks located in different parts of Hungary. The study found 19.3% (58/300) and 38.0% (57/150) seropositivity in cattle, and 0% (0/100) and 6.0% (3/50) seropositivity in sheep, by complement fixation test (CFT) and enzyme-linked immunosorbent assay (ELISA), respectively. C. burnetii DNA was detected by IS1111 element-based TaqMan real-time polymerase chain reaction (PCR) in 8.7% (13/150) of individual dairy cow milk samples, 4.0% (2/50) of individual sheep milk samples, and 66.7% (10/15) of dairy bulk tank milk samples. Samples taken from nine different commercially-available pasteurized cow milk products from different Hungarian producers were also tested for the presence of C. burnetii DNA, and eight of these samples were found to be positive (88.9%). The real-time PCR examination of 5402 ixodid ticks collected from different parts of the country yielded negative results. Knowledge of the true prevalence of Q fever is crucial for policymakers involved in evidence-based decision making.

  10. Validation of a 20-h real-time PCR method for screening of Salmonella in poultry faecal samples

    DEFF Research Database (Denmark)

    Löfström, Charlotta; Hansen, Flemming; Hoorfar, Jeffrey

    2010-01-01

    Efficient and rapid monitoring of Salmonella in the poultry production chain is necessary to assure safe food. The objective was to validate an open-formula real-time PCR method for screening of Salmonella in poultry faeces (sock samples). The method consists of incubation in buffered peptone water...... (NordVal). The comparative trial was performed against a reference method from the Nordic Committee on Food Analysis (NMKL187, 2007) using 132 artificially and naturally contaminated samples. The limit of detection (LOD50) was found to be 24 and 33 CFU/sample for the PCR and NMKL187 methods...... for 18 ± 2 h, centrifugation of a 1-ml subsample, DNA extraction on the pellet and PCR. The total analysis time is 20 h. The validation study included comparative and collaborative trials, based on the recommendations from the Nordic organization for validation of alternative microbiological methods...

  11. An in vitro model for screening estrogen activity of environmental samples after metabolism

    Energy Technology Data Exchange (ETDEWEB)

    Chahbane, N.; Schramm, K.W. [GSF - Forschungszentrum fuer Umwelt und Gesundheit Neuherberg GmbH, Oberschleissheim (Germany). Inst. fuer Oekologische Chemie; Kettrup, A. [Technische Univ. Muenchen, Freising (Germany). Lehrstuhl fuer Oekologische Chemie

    2004-09-15

    For a few years, yeast estrogen assay (YES) was accepted as a reliable and economic model for screening of environmental estrogens. Though the chemicals directly act with estrogen receptor (ER) can be filtered out by this model, there are still chemicals act with ER only after metabolism and some chemicals eliminate their estrogen activities after metabolism. That is to say, their metabolites exert or have stronger estrogen activities than themselves, which can be called bio-activation. In this case, for the lack of the metabolism enzyme system as human and other animals, only the assay with recombinant yeast cells is insufficient. So, it is necessary to combine the YES with metabolism procedure to evaluate the estrogen activities of these chemicals. The most common method used currently for in vitro metabolic activation in mutagenicity testing and also be applied to the estrogen screening field is S-9 mixture. Also, there is an attempt to develop a chemical model for cytochrome P450 as a bio-mimetic metabolic activation system. All these methods can be used as in vitro models for metabolism. Compare with these models, using whole H4II E cells for metabolism is an alternative and with superiorities. It has the excellence of short experiment period as all other in vitro models, but is much more close to the real surroundings as in vivo. Furthermore, the activity of 7-ethoxyresorufin-O-deethylase (EROD) can be easily measured during the whole incubation period for us to discuss the metabolic activities in a quantitative foundation, not only in qualitative. Methoxychlor is one of the chemicals with bio-activation ability. When directly used in the YES, it shows weak estrogen activity. But a main metabolite of methoxychlor, 2,2-bis (p-hydroxyphenyl) - 1,1,1-trichloroethane (HPTE) is a known estrogen mimic. For the long time using methoxychlor as a pesticide and its clear background, it is an ideal chemical to establish this in vitro system.

  12. Screening of various diesel particulate matter samples from various commodity mines

    CSIR Research Space (South Africa)

    Mahlangu, Vusi J

    2016-09-01

    Full Text Available exercise, inductively coupled plasma (ICP) spectrometry was used to identify trace elements and other metal elements in the DPM samples. Most of the trace elements did not give a sufficient instrument response to warrant further evaluation. However...

  13. Development of a new sorptive extraction method based on simultaneous direct and headspace sampling modes for the screening of polycyclic aromatic hydrocarbons in water samples.

    Science.gov (United States)

    Triñanes, Sara; Pena, Ma Teresa; Casais, Ma Carmen; Mejuto, Ma Carmen

    2015-01-01

    A new straightforward and inexpensive sample screening method for both EPA and EU priority polycyclic aromatic hydrocarbons (PAHs) in water has been developed. The method is based on combined direct immersion and headspace (DIHS) sorptive extraction, using low-cost disposable material, coupled to ultraperformance liquid chromatography with fluorescence and UV detection (UPLC-FD-UV). Extraction parameters, such as the sampling mode, extraction time and ionic strength were investigated in detail and optimized. Under optimized conditions, water samples (16 mL) were concentrated in silicone disks by headspace (HS) and direct immersion (DI) modes simultaneously, at room temperature for 9h for the majority of the 24 studied compounds. Ultrasound-assisted desorption of extracted analytes in acetonitrile was carried out also at room temperature. The optimized chromatographic method provided a good linearity (R≥0.9991) and a broad linear range for all studied PAHs. The proposed analytical procedure exhibited a good precision level with relative standard deviations below 15% for all analytes. Quantification limits between 0.7 and 2.3 µg L(-1) and 0.16 and 3.90 ng L(-1) were obtained for compounds analyzed by UV (acenaphtylene, cyclopenta[c,d]pyrene and benzo[j]fluoranthene) and fluorescence, respectively. Finally, the proposed method was applied to the determination of PAHs in different real tap, river and wastewater samples. Copyright © 2014 Elsevier B.V. All rights reserved.

  14. Desorption electrospray ionisation mass spectrometry: A rapid screening tool for veterinary drug preparations and forensic samples from hormone crime investigations

    Energy Technology Data Exchange (ETDEWEB)

    Nielen, M.W.F. [RIKILT Institute of Food Safety, P.O. Box 230, 6700 AE Wageningen (Netherlands); Wageningen University, Laboratory of Organic Chemistry, Dreijenplein 8, 6703 HB Wageningen (Netherlands)], E-mail: michel.nielen@wur.nl; Hooijerink, H. [RIKILT Institute of Food Safety, P.O. Box 230, 6700 AE Wageningen (Netherlands); Claassen, F.C. [Wageningen University, Laboratory of Organic Chemistry, Dreijenplein 8, 6703 HB Wageningen (Netherlands); Engelen, M.C. van [RIKILT Institute of Food Safety, P.O. Box 230, 6700 AE Wageningen (Netherlands); Beek, T.A. van [Wageningen University, Laboratory of Organic Chemistry, Dreijenplein 8, 6703 HB Wageningen (Netherlands)

    2009-04-01

    Hormone and veterinary drug screening and forensics can benefit from the recent developments in desorption electrospray ionisation (DESI) mass spectrometry (MS). In this work the feasibility of DESI application has been studied. Using a linear ion trap or quadrupole time-of-flight (TOF) MS instrument both full-scan and data-dependent collision-induced dissociation MS{sup n} spectra were acquired in seconds without sample preparation. Preliminary data are presented for the rapid screening of (pro)hormone supplement samples, an illegal steroid cocktail and forensic samples from veterinary drug investigations. The potential of this DESI approach is clearly demonstrated since compounds observed could be independently confirmed by liquid chromatography/TOFMS with accurate mass measurement, and/or proton nuclear magnetic resonance spectroscopy. Specific concerns related to false-positive and false-negative findings due to limitations in quantification and memory-effects are briefly discussed. It is envisaged that DESI will achieve a prominent role in hormone and veterinary drug analysis in the near future.

  15. Virtual screening for potential inhibitors of Mcl-1 conformations sampled by normal modes, molecular dynamics, and nuclear magnetic resonance

    Directory of Open Access Journals (Sweden)

    Glantz-Gashai Y

    2017-06-01

    Full Text Available Yitav Glantz-Gashai,* Tomer Meirson,* Eli Reuveni, Abraham O Samson Faculty of Medicine in the Galilee, Bar Ilan University, Safed, Israel *These authors contributed equally to this work Abstract: Myeloid cell leukemia-1 (Mcl-1 is often overexpressed in human cancer and is an important target for developing antineoplastic drugs. In this study, a data set containing 2.3 million lead-like molecules and a data set of all the US Food and Drug Administration (FDA-approved drugs are virtually screened for potential Mcl-1 ligands using Protein Data Bank (PDB ID 2MHS. The potential Mcl-1 ligands are evaluated and computationally docked on to three conformation ensembles generated by normal mode analysis (NMA, molecular dynamics (MD, and nuclear magnetic resonance (NMR, respectively. The evaluated potential Mcl-1 ligands are then compared with their clinical use. Remarkably, half of the top 30 potential drugs are used clinically to treat cancer, thus partially validating our virtual screen. The partial validation also favors the idea that the other half of the top 30 potential drugs could be used in the treatment of cancer. The normal mode-, MD-, and NMR-based conformation greatly expand the conformational sampling used herein for in silico identification of potential Mcl-1 inhibitors. Keywords: virtual screening, Mcl-1, molecular dynamics, NMR, normal modes

  16. Headspace solid phase microextraction for screening for the presence of resins in Egyptian archaeological samples.

    Science.gov (United States)

    Hamm, Sandrine; Bleton, Jean; Tchapla, Alain

    2004-02-01

    The aim of this study was to use headspace solid phase microextraction (SPME) to reveal the presence of resin in archaeological samples, such as mummification balms, from ancient Egypt. Experiments were first performed with fresh resins of known origin. The SPME fibre readily extracted mono- and sesquiterpenes and, to a lesser extent, diterpenes. Using mass spectra and retention indices of constitutive compounds, qualitative analysis of the volatile fraction allowed us to differentiate resins or gum-resins such as myrrh, olibanum, galbanum, labdanum, mastic, and conifer resins. SPME was then successfully applied to archaeological samples from ancient Egypt in which the presence of resins was detected. Volatile components were desorbed and trapped according to the same SPME procedure as was applied to fresh resins, after a sample preparation consisting of a fine grinding.

  17. FTRIFS biosensor based on double layer porous silicon as a LC detector for target molecule screening from complex samples.

    Science.gov (United States)

    Shang, Yunling; Zhao, Weijie; Xu, Erchao; Tong, Changlun; Wu, Jianmin

    2010-01-15

    Post-column identification of target compounds in complex samples is one of the major tasks in drug screening and discovery. In this work, we demonstrated that double layer porous silicon (PSi) attached with affinity ligand could serve as a sensing element for post-column detection of target molecule by Fourier transformed reflectometric interference spectroscopy (FTRIFS), in which trypsin and its inhibitor were used as the model probe-target system. The double layer porous silicon was prepared by electrical etching with a current density of 500 mA/cm(2), followed by 167 mA/cm(2). Optical measurements indicated that trypsin could infiltrate into the outer porous layer (porosity 83.6%), but was excluded by the bottom layer (porosity 52%). The outer layer, attached with trypsin by standard amino-silane and glutaraldehyde chemistry, could specifically bind with the trypsin inhibitor, acting as a sample channel, while the bottom layer served as a reference signal channel. The binding event between the attached trypsin and trypsin inhibitor samples could be detected by FTRIFS in real-time through monitoring the optical thickness change of the porous silicon layer. The baseline drift caused by sample matrix variation could be effectively eliminated by a signal correction method. Optical signals had a linear relationship with the concentration of trypsin inhibitor in the range of 10-200 ng mL(-1). The FTRIFS biosensor based on double layer porous silicon could be combined with a UV detector for screening the target molecule from complex component mixtures separated by a LC column. Using an LC-UV-FTRIFS system, a fraction containing a trypsin inhibitor could be separated from a soybean extract sample and identified in real-time. Copyright 2009 Elsevier B.V. All rights reserved.

  18. Comparative effectiveness of two self-collected sample kit distribution systems for chlamydia screening on a university campus.

    Science.gov (United States)

    Jenkins, Wiley D; Weis, Rob; Campbell, Paula; Barnes, Mathilda; Barnes, Perry; Gaydos, Charlotte

    2012-08-01

    Chlamydia trachomatis (CT) rates and incidence continue to increase, and university students are known to engage in high-risk activities, but studies of CT prevalence in this population are limited by poor screening rates. Utilisation of self-obtained sample (SoS) kits in private student residencies may reduce screening barriers. The authors sought to determine the relative effectiveness, and comparative effectiveness, of two SoS kit distribution mechanisms: one which provided kits directly to students and another encouraging students to order kits from a website. During 2010-2011, residents of six university dormitories were provided training sessions describing CT, the project and SoS kit use. Students in three dormitories were provided kits, and the remaining students directed to the website (http://www.iwantthekit.org). Of 391 resident students, 163 were provided with kits and 175 were directed to the website. Of provided kits, 12 (8 women) were returned and 2 (16.7%; both women) were positive. Of only three internet-requested kits, all were returned (all women) and none were positive. In a post-project survey examining non-participation, 26.2% of students were unaware of the project (no difference by dormitory or gender) and 58.5% of women cited prior testing as part of a medical exam. Though direct kit distribution was more effective in student screening engagement, overall participation was poor despite widespread advertising. The methodology of online testing and SoS kits has been well validated elsewhere, but research is needed to successfully engage university students in screening and refine SoS target populations in light of changing healthcare policies.

  19. Facilitating high resolution mass spectrometry data processing for screening of environmental water samples: An evaluation of two deconvolution tools

    Energy Technology Data Exchange (ETDEWEB)

    Bade, Richard [Research Institute for Pesticides and Water, University Jaume I, Avda. Sos Baynat s/n, E-12071 Castellón (Spain); Causanilles, Ana; Emke, Erik [KWR Watercycle Research Institute, Chemical Water Quality and Health, P.O. Box 1072, 3430 BB Nieuwegein (Netherlands); Bijlsma, Lubertus; Sancho, Juan V.; Hernandez, Felix [Research Institute for Pesticides and Water, University Jaume I, Avda. Sos Baynat s/n, E-12071 Castellón (Spain); Voogt, Pim de, E-mail: w.p.devoogt@uva.nl [KWR Watercycle Research Institute, Chemical Water Quality and Health, P.O. Box 1072, 3430 BB Nieuwegein (Netherlands); Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, P.O. Box 94248, 1090 GE Amsterdam (Netherlands)

    2016-11-01

    A screening approach was applied to influent and effluent wastewater samples. After injection in a LC-LTQ-Orbitrap, data analysis was performed using two deconvolution tools, MsXelerator (modules MPeaks and MS Compare) and Sieve 2.1. The outputs were searched incorporating an in-house database of > 200 pharmaceuticals and illicit drugs or ChemSpider. This hidden target screening approach led to the detection of numerous compounds including the illicit drug cocaine and its metabolite benzoylecgonine and the pharmaceuticals carbamazepine, gemfibrozil and losartan. The compounds found using both approaches were combined, and isotopic pattern and retention time prediction were used to filter out false positives. The remaining potential positives were reanalysed in MS/MS mode and their product ions were compared with literature and/or mass spectral libraries. The inclusion of the chemical database ChemSpider led to the tentative identification of several metabolites, including paraxanthine, theobromine, theophylline and carboxylosartan, as well as the pharmaceutical phenazone. The first three of these compounds are isomers and they were subsequently distinguished based on their product ions and predicted retention times. This work has shown that the use deconvolution tools facilitates non-target screening and enables the identification of a higher number of compounds. - Highlights: • A hidden target non-target screening method is utilised using two databases • Two software (MsXelerator and Sieve 2.1) used for both methods • 22 compounds tentatively identified following MS/MS reinjection • More information gleaned from this combined approach than individually.

  20. Development of a luminescent mutagenicity test for high-throughput screening of aquatic samples

    NARCIS (Netherlands)

    Zwart, Nick; Lamoree, Marja H.; Houtman, Corine J.; de Boer, Jacob; Kool, Jeroen; Hamers, Timo

    2018-01-01

    The Salmonella reversion based Ames test is the most widely used method for mutagenicity testing. For rapid toxicity assessment of e.g. water samples and for effect-directed analysis, however, the Ames test suffers from lack of throughput and is regarded as a laborious, time consuming method. To

  1. Theorical and practical bases for blood sample collection from the heel of newborns for neonatal screening

    Directory of Open Access Journals (Sweden)

    Marcela Vela-Amieva

    2014-07-01

    collected in a special filter paper (Guthrie’s card. Despite its apparent simplicity, NBS laboratories commonly receive a large number of samples collected incorrectly and technically unsuitable for perfor4ming biochemical determinations. The aim of the present paper is to offer recommendations based on scientific evidence, for the properly blood collection on filter paper for NBS programs.

  2. Screening of Viral Pathogens from Pediatric Ileal Tissue Samples after Vaccination

    Directory of Open Access Journals (Sweden)

    Laura Hewitson

    2014-01-01

    Full Text Available In 2010, researchers reported that the two US-licensed rotavirus vaccines contained DNA or DNA fragments from porcine circovirus (PCV. Although PCV, a common virus among pigs, is not thought to cause illness in humans, these findings raised several safety concerns. In this study, we sought to determine whether viruses, including PCV, could be detected in ileal tissue samples of children vaccinated with one of the two rotavirus vaccines. A broad spectrum, novel DNA detection technology, the Lawrence Livermore Microbial Detection Array (LLMDA, was utilized, and confirmation of viral pathogens using the polymerase chain reaction (PCR was conducted. The LLMDA technology was recently used to identify PCV from one rotavirus vaccine. Ileal tissue samples were analyzed from 21 subjects, aged 15–62 months. PCV was not detected in any ileal tissue samples by the LLMDA or PCR. LLMDA identified a human rotavirus A from one of the vaccinated subjects, which is likely due to a recent infection from a wild type rotavirus. LLMDA also identified human parechovirus, a common gastroenteritis viral infection, from two subjects. Additionally, LLMDA detected common gastrointestinal bacterial organisms from the Enterobacteriaceae, Bacteroidaceae, and Streptococcaceae families from several subjects. This study provides a survey of viral and bacterial pathogens from pediatric ileal samples, and may shed light on future studies to identify pathogen associations with pediatric vaccinations.

  3. Screening disrupted molecular functions and pathways associated with clear cell renal cell carcinoma using Gibbs sampling.

    Science.gov (United States)

    Nan, Ning; Chen, Qi; Wang, Yu; Zhai, Xu; Yang, Chuan-Ce; Cao, Bin; Chong, Tie

    2017-10-01

    To explore the disturbed molecular functions and pathways in clear cell renal cell carcinoma (ccRCC) using Gibbs sampling. Gene expression data of ccRCC samples and adjacent non-tumor renal tissues were recruited from public available database. Then, molecular functions of expression changed genes in ccRCC were classed to Gene Ontology (GO) project, and these molecular functions were converted into Markov chains. Markov chain Monte Carlo (MCMC) algorithm was implemented to perform posterior inference and identify probability distributions of molecular functions in Gibbs sampling. Differentially expressed molecular functions were selected under posterior value more than 0.95, and genes with the appeared times in differentially expressed molecular functions ≥5 were defined as pivotal genes. Functional analysis was employed to explore the pathways of pivotal genes and their strongly co-regulated genes. In this work, we obtained 396 molecular functions, and 13 of them were differentially expressed. Oxidoreductase activity showed the highest posterior value. Gene composition analysis identified 79 pivotal genes, and survival analysis indicated that these pivotal genes could be used as a strong independent predictor of poor prognosis in patients with ccRCC. Pathway analysis identified one pivotal pathway - oxidative phosphorylation. We identified the differentially expressed molecular functions and pivotal pathway in ccRCC using Gibbs sampling. The results could be considered as potential signatures for early detection and therapy of ccRCC. Copyright © 2017 Elsevier Ltd. All rights reserved.

  4. Efficacy of self-sampling in promoting participation to cervical cancer screening also in subsequent round

    Directory of Open Access Journals (Sweden)

    Annarosa Del Mistro

    2017-03-01

    Our data indicate that the beneficial effect of offering self-sampling devices to nonparticipating women is maintained over time. Self-samplers are useful to increase overall coverage; their sporadic use does not seem to increase the proportion of women regularly repeating the test.

  5. Stress analysis of vibrating pipelines

    Science.gov (United States)

    Zachwieja, Janusz

    2017-03-01

    The pipelines are subject to various constraints variable in time. Those vibrations, if not monitored for amplitude and frequency, may result in both the fatigue damage in the pipeline profile at high stress concentration and the damage to the pipeline supports. If the constraint forces are known, the system response may be determined with high accuracy using analytical or numerical methods. In most cases, it may be difficult to determine the constraint parameters, since the industrial pipeline vibrations occur due to the dynamic effects of the medium in the pipeline. In that case, a vibration analysis is a suitable alternative method to determine the stress strain state in the pipeline profile. Monitoring the pipeline vibration levels involves a comparison between the measured vibration parameters and the permissible values as depicted in the graphs for a specific pipeline type. Unfortunately, in most cases, the studies relate to the petrochemical industry and thus large diameter, long and straight pipelines. For a pipeline section supported on both ends, the response in any profile at the entire section length can be determined by measuring the vibration parameters at two different profiles between the pipeline supports. For a straight pipeline section, the bending moments, variable in time, at the ends of the analysed section are a source of the pipe excitation. If a straight pipe section supported on both ends is excited by the bending moments in the support profile, the starting point for the stress analysis are the strains, determined from the Euler-Bernoulli equation. In practice, it is easier to determine the displacement using the experimental methods, since the factors causing vibrations are unknown. The industrial system pipelines, unlike the transfer pipelines, are straight sections at some points only, which makes it more difficult to formulate the equation of motion. In those cases, numerical methods can be used to determine stresses using the

  6. High-risk human papillomavirus (HPV screening and detection in healthy patient saliva samples: a pilot study

    Directory of Open Access Journals (Sweden)

    Wang Robert C

    2011-10-01

    Full Text Available Abstract Background The human papillomaviruses (HPV are a large family of non-enveloped DNA viruses, mainly associated with cervical cancers. Recent epidemiologic evidence has suggested that HPV may be an independent risk factor for oropharyngeal cancers. Evidence now suggests HPV may modulate the malignancy process in some tobacco- and alcohol-induced oropharynx tumors, but might also be the primary oncogenic factor for inducing carcinogenesis among some non-smokers. More evidence, however, is needed regarding oral HPV prevalence among healthy adults to estimate risk. The goal of this study was to perform an HPV screening of normal healthy adults to assess oral HPV prevalence. Methods Healthy adult patients at a US dental school were selected to participate in this pilot study. DNA was isolated from saliva samples and screened for high-risk HPV strains HPV16 and HPV18 and further processed using qPCR for quantification and to confirm analytical sensitivity and specificity. Results Chi-square analysis revealed the patient sample was representative of the general clinic population with respect to gender, race and age (p Conclusions The successful recruitment and screening of healthy adult patients revealed HPV16, but not HPV18, was present in a small subset. These results provide new information about oral HPV status, which may help to contextualize results from other studies that demonstrate oral cancer rates have risen in the US among both females and minorities and in some geographic areas that are not solely explained by rates of tobacco and alcohol use. The results of this study may be of significant value to further our understanding of oral health and disease risk, as well as to help design future studies exploring the role of other factors that influence oral HPV exposure, as well as the short- and long-term consequences of oral HPV infection.

  7. Instrumented Pipeline Initiative

    Energy Technology Data Exchange (ETDEWEB)

    Thomas Piro; Michael Ream

    2010-07-31

    This report summarizes technical progress achieved during the cooperative agreement between Concurrent Technologies Corporation (CTC) and U.S. Department of Energy to address the need for a for low-cost monitoring and inspection sensor system as identified in the Department of Energy (DOE) National Gas Infrastructure Research & Development (R&D) Delivery Reliability Program Roadmap.. The Instrumented Pipeline Initiative (IPI) achieved the objective by researching technologies for the monitoring of pipeline delivery integrity, through a ubiquitous network of sensors and controllers to detect and diagnose incipient defects, leaks, and failures. This report is organized by tasks as detailed in the Statement of Project Objectives (SOPO). The sections all state the objective and approach before detailing results of work.

  8. Pipeline corridors through wetlands

    Energy Technology Data Exchange (ETDEWEB)

    Zimmerman, R.E.; Wilkey, P.L. [Argonne National Lab., IL (United States); Isaacson, H.R. [Gas Research Institute (United States)

    1992-12-01

    This paper presents preliminary findings from six vegetational surveys of gas pipeline rights-of-way (ROW) through wetlands and quantifies the impacts of a 20-year-old pipeline ROW through a boreal forest wetland. Six sites of various ages were surveyed in ecosystems ranging from coastal marsh to forested wetland. At all sites except one, both the number and the percentage of wetland species on the Row approximated or exceeded those in the adjacent natural area. The boreal forest study showed that (1) adjacent natural wetland areas were not altered in type; (2) water sheet flow restriction had been reversed by nature; (3) no nonnative plant species invaded the natural area; (4) three-quarters of the ROW area was a wetland, and (5) the ROW increased diversity.

  9. Pipeline corridors through wetlands

    Energy Technology Data Exchange (ETDEWEB)

    Zimmerman, R.E.; Wilkey, P.L. (Argonne National Lab., IL (United States)); Isaacson, H.R. (Gas Research Institute (United States))

    1992-01-01

    This paper presents preliminary findings from six vegetational surveys of gas pipeline rights-of-way (ROW) through wetlands and quantifies the impacts of a 20-year-old pipeline ROW through a boreal forest wetland. Six sites of various ages were surveyed in ecosystems ranging from coastal marsh to forested wetland. At all sites except one, both the number and the percentage of wetland species on the Row approximated or exceeded those in the adjacent natural area. The boreal forest study showed that (1) adjacent natural wetland areas were not altered in type; (2) water sheet flow restriction had been reversed by nature; (3) no nonnative plant species invaded the natural area; (4) three-quarters of the ROW area was a wetland, and (5) the ROW increased diversity.

  10. [Health agents' perspective on the incorporation of self-collected samples in HPV screening programs].

    Science.gov (United States)

    Curotto, Mariana; Barletta, Paula; Paolino, Melisa; Arrossi, Silvina

    2017-06-01

    The objective of this study was to analyze health agents' perception of self-collecting of samples for HPV testing among women and the degree of agreement by the agents to incorporate this approach into their daily tasks. A self-administered questionnaire was applied to 127/191 health agents that participated in the EMA Project (Proyecto Evaluación Modalidad Autotoma) in the province of Jujuy, Argentina, in 2012-2013. The health agents with and without the experience of offering self-collected sampling expressed a high degree of agreement towards adoption of the strategy (78.7%), given its potential to prevent cervical cancer and its contribution to health care for the women under their coverage. However, the health agents identified the extra work and problems linking to the formal health system as the main barriers to offering this modality in the future. The study found that self-collecting of samples is a practice that can be adopted by health agents in the province of Jujuy, but that it should be accompanied by support measures from the formal health system.

  11. Characterization of superconducting nanometric multilayer samples for SRF applications: first evidence of magnetic screening effect

    CERN Document Server

    Antoine, C Z; Bouat, S; Jacquot, J-F; Villegier, J-C; Lamura, G; Gurevich, A

    2010-01-01

    Best rf bulk niobium accelerating cavities have nearly reached their ultimate limits at rf equatorial magnetic field H ~ 200 mT close to the thermodynamic critical field Hc. In 2006 Gurevich proposed to use nanoscale layers of superconducting materials with high values of Hc > HcNb for magnetic shielding of bulk niobium to increase the breakdown magnetic field of SC rf cavities 1. Depositing good quality layers inside a whole cavity is rather difficult So as a first step, characterization of single layer coating and multilayers was conducted on high quality sputtered samples by applying the technique used for the preparation of superconducting electronics circuits. The samples were characterized by X-ray reflectivity, dc resistivity (PPMS) and dc magnetization (SQUID) measurements. Dc magnetization curves of a 250 nm thick Nb film have been measured, with and without a magnetron sputtered coating of a single or multiple stack of 15 nm MgO and 25 nm NbN layers. The Nb samples with/without the coatin...

  12. Pipelined Asynchronous Cache Design

    OpenAIRE

    Nyströem, Mika

    1997-01-01

    This thesis describes the development of pipelined asynchronous cache memories. The work is done in the context of the performance characteristics of memories and transistor logic of a late 1990's high-performance asynchronous microprocessor. We describe the general framework of asynchronous memory systems, caching, and those system characteristics that make caching of growing importance and keep it an interesting research topic. Finally, we present the main contribution of this work, whi...

  13. Introducing Library Pipeline

    Directory of Open Access Journals (Sweden)

    Brett Bonfield

    2014-11-01

    Full Text Available In Brief: We’re creating a nonprofit, Library Pipeline, that will operate independently from In the Library with the Lead Pipe, but will have similar and complementary aims: increasing and diversifying professional development; improving strategies and collaboration; fostering more innovation and start-ups, and encouraging LIS-related publishing and publications. In the Library with the Lead Pipe is […

  14. Estimation of efficiency of hydrotransport pipelines polyurethane coating application in comparison with steel pipelines

    Science.gov (United States)

    Aleksandrov, V. I.; Vasilyeva, M. A.; Pomeranets, I. B.

    2017-10-01

    The paper presents analytical calculations of specific pressure loss in hydraulic transport of the Kachkanarsky GOK iron ore processing tailing slurry. The calculations are based on the results of the experimental studies on specific pressure loss dependence upon hydraulic roughness of pipelines internal surface lined with polyurethane coating. The experiments proved that hydraulic roughness of polyurethane coating is by the factor of four smaller than that of steel pipelines, resulting in a decrease of hydraulic resistance coefficients entered into calculating formula of specific pressure loss - the Darcy-Weisbach formula. Relative and equivalent roughness coefficients are calculated for pipelines with polyurethane coating and without it. Comparative calculations show that hydrotransport pipelines polyurethane coating application is conductive to a specific energy consumption decrease in hydraulic transport of the Kachkanarsky GOC iron ore processing tailings slurry by the factor of 1.5. The experiments were performed on a laboratory hydraulic test rig with a view to estimate the character and rate of physical roughness change in pipe samples with polyurethane coating. The experiments showed that during the following 484 hours of operation, roughness changed in all pipe samples inappreciably. As a result of processing of the experimental data by the mathematical statistics methods, an empirical formula was obtained for the calculation of operating roughness of polyurethane coating surface, depending on the pipeline operating duration with iron ore processing tailings slurry.

  15. A pilot study of community-based self-sampling for HPV testing among non-attenders of cervical cancer screening programs in El Salvador.

    Science.gov (United States)

    Laskow, Bari; Figueroa, Ruben; Alfaro, Karla M; Scarinci, Isabel C; Conlisk, Elizabeth; Maza, Mauricio; Chang, Judy C; Cremer, Miriam

    2017-08-01

    To establish the feasibility and acceptability of home-based HPV self-sampling among women who did not attend screening appointments in rural El Salvador. In a cross-sectional study, data were collected from May 2015 to January 2016 among 60 women aged 30-59 years who were not pregnant, provided informed consent, had not been screened in 2 years, had no history of pre-cancer treatment, and did not attend a scheduled HPV screening. Participants completed questionnaires and received educational information before being given an opportunity to self-sample with the Hybrid Capture 2 High Risk HPV DNA Test. Self-sampling was accepted by 41 (68%) participants. Almost all women chose to self-sample because the process was easy (40/41, 98%), could be performed at home (40/41, 98%), and saved time (38/41, 93%), and because they felt less embarrassed (33/41, 80%). The most common reason for declining the test was not wanting to be screened (8/19, 42%). The prevalence of high-risk HPV types among women who accepted self-sampling was 17% (7/41). For most women, community-based self-sampling was an acceptable way to participate in a cervical cancer screening program. In low-resource countries, incorporating community-based self-sampling into screening programs might improve coverage of high-risk women. © 2017 International Federation of Gynecology and Obstetrics.

  16. HPV prevalence and genotype distribution in a population-based split-sample study of well-screened women using CLART HPV2 human papillomavirus genotype microarray system

    DEFF Research Database (Denmark)

    Bonde, Jesper; Rebolj, Matejka; Ejegod, Ditte Møller

    2014-01-01

    BACKGROUND: Human papillomavirus (HPV) genotyping assays are becoming increasingly attractive for use in mass screening, as they offer a possibility to integrate HPV screening with HPV vaccine monitoring, thereby generating a synergy between the two main modes of cervical cancer prevention......, Denmark, an area with a high background risk of cervical cancer where women aged 23-65 years are targeted for organized screening. METHODS: Material from 5,068 SurePath samples of women participating in routine screening and clinical follow-up of cervical abnormalities was tested using liquid based...

  17. A single mini-barcode test to screen for Australian mammalian predators from environmental samples.

    Science.gov (United States)

    Modave, Elodie; MacDonald, Anna J; Sarre, Stephen D

    2017-08-01

    Identification of species from trace samples is now possible through the comparison of diagnostic DNA fragments against reference DNA sequence databases. DNA detection of animals from non-invasive samples, such as predator faeces (scats) that contain traces of DNA from their species of origin, has proved to be a valuable tool for the management of elusive wildlife. However, application of this approach can be limited by the availability of appropriate genetic markers. Scat DNA is often degraded, meaning that longer DNA sequences, including standard DNA barcoding markers, are difficult to recover. Instead, targeted short diagnostic markers are required to serve as diagnostic mini-barcodes. The mitochondrial genome is a useful source of such trace DNA markers because it provides good resolution at the species level and occurs in high copy numbers per cell. We developed a mini-barcode based on a short (178 bp) fragment of the conserved 12S ribosomal ribonucleic acid mitochondrial gene sequence, with the goal of discriminating amongst the scats of large mammalian predators of Australia. We tested the sensitivity and specificity of our primers and can accurately detect and discriminate amongst quolls, cats, dogs, foxes, and devils from trace DNA samples. Our approach provides a cost-effective, time-efficient, and non-invasive tool that enables identification of all 8 medium-large mammal predators in Australia, including native and introduced species, using a single test. With modification, this approach is likely to be of broad applicability elsewhere. © The Authors 2017. Published by Oxford University Press.

  18. Cervical cancer incidence after normal cytological sample in routine screening using SurePath, ThinPrep, and conventional cytology: population based study

    NARCIS (Netherlands)

    K. Rozemeijer (Kirsten); S.K. Naber (Steffie); C. Penning (Corine); L.I.H. Overbeek (Lucy); C.W.N. Looman (Caspar); I.M.C.M. de Kok (Inge); S.M. Matthijsse (Suzette); M. Rebolj (Matejka); F.J. van Kemenade (Folkert); M. van Ballegooijen (Marjolein)

    2017-01-01

    markdownabstract#### Objective To compare the cumulative incidence of cervical cancer diagnosed within 72 months after a normal screening sample between conventional cytology and liquid based cytology tests SurePath and ThinPrep. #### Design Retrospective population based cohort

  19. Design and characterization of an aerodynamic shoe sampling system for screening trace explosive materials

    Science.gov (United States)

    Staymates, Matthew; Gillen, Greg; Grandner, Jessica; Lukow, Stefan

    2011-11-01

    As part of an ongoing effort with the Transportation Security Laboratory, the National Institute of Standards and Technology has been developing a prototype shoe sampling system that relies on aerodynamic sampling as the primary mechanism for liberating, transporting, and collecting explosive contamination. This presentation will focus on the fluid dynamics associated with the current prototype design. This design includes several air jets and air blades that are used to dislodge particles from target areas of a shoe. A large blower then draws air and liberated particles into a collection device at several hundred liters per second. Experiments that utilize optical particle counting techniques have shown that the applied shear forces from these jets are capable of liberating particles efficiently from shoe surfaces. Results from real-world contamination testing also support the effectiveness of air jet impingement in this prototype. Many examples of flow visualization will be shown. The issues associated with air spillage, particle release efficiency, and particle transport will also be discussed.

  20. 60-day safety screen results and final report for tank 241-C-111, auger samples 95-Aug-002, 95-Aug-003, 95-Aug-016, and 95-Aug-017

    Energy Technology Data Exchange (ETDEWEB)

    Rice, A.D.

    1995-05-30

    This report presents the details of the auger sampling events for underground waste tank C-111. The samples were shipped to the 222-S laboratories were they underwent safety screening analysis and primary ferricyanide analysis. The samples were analyzed for alpha total, total organic carbon, cyanide, Ni, moisture, and temperature differentials. The results of this analysis are presented in this document.

  1. Magnetically responsive polycaprolactone nanoparticles for progesterone screening in biological and environmental samples using gas chromatography.

    Science.gov (United States)

    Es'haghi, Zarrin; Nezhadali, Azizollah; Khatibi, Aram-Dokht

    2016-08-01

    A new Fe3O4/poly(є-caprolactone) (PCL) magnetite nanocomposite was fabricated and used as a sorbent for magnetically mediated PCL microspheres solid-phase extraction (MM-PCL-SPE) followed by gas chromatography-flame ionization detection (GC-FID) for monitoring of progesterone (PGN) hormone in biological and environmental matrices, namely blood serum, tap water, urine, and hospital wastewater. The nanomagnetite core of the sorbent was synthesized by a co-precipitation method. Magnetic nanoparticles (MNPs) were then microencapsulated with PCL microspheres using emulsion polymerization. The nanocomposite was characterized by scanning electron microscopy (SEM) and Fourier transform infrared spectroscopy (FTIR). The magnetite sorbent can be effectively dispersed in aqueous solution and attracted to an external magnetic field. The MM-PCL-SPE process for PGN assay involved (a) dispersion of the sorbent in the donor phase aqueous solution with sonication, (b) exposure to a magnetic field to collect sorbent that had adsorbed the analyte, and (c) solvent desorption of extracted PGN for GC-FID analysis. The work demonstrates the usefulness of MM-PCL-SPE in the rapid and sensitive monitoring of trace amounts of PGN in real samples. The limit of detection (LOD) and limit of quantification (LOQ) were 1.00 and 3.30 ng/mL, respectively. The relative recoveries in real samples were adequate. Linearity was observed over a wide range of 2.2-10,000.0 ng/mL in aqueous media and urine and 0.01-70.0 μg/mL in blood serum. Graphical Abstract In this research new Fe3O4/poly(є-caprolactone) (PCL) magnetite microspheres were developed as an efficient sorbent for solid-phase extraction of progesterone hormone in biological and environmental matrices.

  2. Self-Collected versus Clinician-Collected Sampling for Chlamydia and Gonorrhea Screening: A Systemic Review and Meta-Analysis

    Science.gov (United States)

    Lunny, Carole; Taylor, Darlene; Hoang, Linda; Wong, Tom; Gilbert, Mark; Lester, Richard; Krajden, Mel; Ogilvie, Gina

    2015-01-01

    99% (95% CI 0.94-0.99). Taking into account that urine samples may be less sensitive than cervical samples, eight chlamydia studies that compared urine self-collected verses clinician-collected cervical samples had a sensitivity of 87% (95% CI 81-91) and high specificity of 99% (95% CI 0.98-1.00). For gonorrhea testing, self-collected urine samples compared to clinician-collected urethra samples in males produced a sensitivity of 92% (95% CI 83-97) and specificity of 99% (95% CI 0.98-1.00). Conclusion The sensitivity and specificity of vaginal self-collected swabs compared to swabs collected by clinicians supports the use of vaginal swab as the recommended specimen of choice in home-based screening for chlamydia and gonorrhea. Urine samples for gonorrhea collected by men had comparably high sensitivity and specificity, so could be recommended as they can be left at room temperature for several days, allowing for the possibility of mail-in home-based testing. In populations that may not go for testing at all, do not have the option of clinical testing, or who refuse a clinical examination, self-collected screening would be a good alternative. We recommend that guidelines on how to self-collect gonorrhea and chlamydia urine, vaginal, rectal and pharyngeal specimens be published. PMID:26168051

  3. Self-Collected versus Clinician-Collected Sampling for Chlamydia and Gonorrhea Screening: A Systemic Review and Meta-Analysis.

    Directory of Open Access Journals (Sweden)

    Carole Lunny

    .94-0.99. Taking into account that urine samples may be less sensitive than cervical samples, eight chlamydia studies that compared urine self-collected verses clinician-collected cervical samples had a sensitivity of 87% (95% CI 81-91 and high specificity of 99% (95% CI 0.98-1.00. For gonorrhea testing, self-collected urine samples compared to clinician-collected urethra samples in males produced a sensitivity of 92% (95% CI 83-97 and specificity of 99% (95% CI 0.98-1.00.The sensitivity and specificity of vaginal self-collected swabs compared to swabs collected by clinicians supports the use of vaginal swab as the recommended specimen of choice in home-based screening for chlamydia and gonorrhea. Urine samples for gonorrhea collected by men had comparably high sensitivity and specificity, so could be recommended as they can be left at room temperature for several days, allowing for the possibility of mail-in home-based testing. In populations that may not go for testing at all, do not have the option of clinical testing, or who refuse a clinical examination, self-collected screening would be a good alternative. We recommend that guidelines on how to self-collect gonorrhea and chlamydia urine, vaginal, rectal and pharyngeal specimens be published.

  4. Bioluminescence-based identification of nisin producers - a rapid and simple screening method for nisinogenic bacteria in food samples.

    Science.gov (United States)

    Virolainen, Nina; Guglielmetti, Simone; Arioli, Stefania; Karp, Matti

    2012-08-17

    We present a simple and rapid method for screening nisin producers that directly identifies nisinogenic bacteria by induction of bioluminescence within the Lactococcus lactis NZ9800lux biosensor strain (Immonen and Karp, 2007, Biosensors and Bioelectronics 22, 1982-7). An overlay of putative nisinogenic colonies with the biosensor strain gives identification results within 1h. Functionality and specificity of the method were verified by screening nisin producers among 144 raw milk colonies and a panel of 91 lactococcal strains. Studies performed on strains and colonies that did not induce bioluminescence but inhibited growth of the biosensor demonstrated that only nisinogenic bacteria can cause induction. Bacteria known to produce bacteriocins other than nisin failed to induce bioluminescence, further verifying the specificity of the assay. We discovered a non-inducing but inhibitory lactococcal strain harboring a modified nisin Z gene, and demonstrated that the source of the inhibitory action is not a non-inducing variant of nisin, but a bacteriocin of lower molecular weight. The concentration of nisin producers in a raw milk sample was 1.3 × 10(2)CFU/ml. We identified from raw milk a total of seven nisin Z producing L. lactis subsp. lactis colonies, which were shown by genetic fingerprinting to belong to three different groups. Among the panel of 91 lactococci, four strains were nisin A producers, and one strain harbored the modified nisin Z gene. The method presented here is robust, cost-effective and simple to perform, and avoids the pitfalls of traditional screening methods by directly specifying the identity of the inhibitory substance. Copyright © 2012 Elsevier B.V. All rights reserved.

  5. DN/DG Screening of Environmental Swipe Samples: FY2016 Report

    Energy Technology Data Exchange (ETDEWEB)

    Glasgow, David C. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Croft, Stephen [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Venkataraman, Ramkumar [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); McElroy, Robert Dennis [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Knowles, Justin R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2017-02-01

    The Delayed Neutron Delayed Gamma (DNDG) technique provides a new analytical capability to the International Atomic Energy Agency (IAEA) for detecting undeclared nuclear activities. IAEA’s Long Term R&D (LTRD) plan has a stated high urgency need to develop elemental and isotopic signatures of nuclear fuel cycle activities and processes (LTRD 2.2). The new DNDG capability is used to co-detect both uranium and plutonium as an extension of a DN only method that is already being utilized by the IAEA for the analysis of swipes to inform on undeclared nuclear activities. Analytical method involving irradiation of swipe samples potentially containing trace quantities of fissile material in a thermal neutron field, followed by the counting of delayed neutrons, is a well-known technique in the field of safeguards and nonproliferation. It is used for detecting the presence of microscopic amounts of fissile material, (typically a linear combination of 233U, 235U, 239Pu, and 241Pu)and quantifying it in terms of the equivalent mass of 235U. The delayed neutron (DN) technique is very sensitive and is been routinely employed at the High Flux Isotope Reactor (HFIR) facility at Oak Ridge National Laboratory (ORNL). Both uranium and plutonium are of high safeguards value. However, the DN technique is not well suited for distinguishing between U and Pu isotopes since the decay curves overlap closely. The delayed gamma (DG) technique will help detect the presence of 239Pu in a mixture of U and Pu. Thus the DNDG approach combines the best of both worlds; the sensitivity of DN counting and the isotopic specificity of DG counting. The present work seeks to build on the delayed neutron and delayed gamma methods that have been developed at ORNL. It is recognized that the distribution profile of heavy fission products remains fairly invariant for the fissile nuclides whereas the distribution of light fission products varies from one isotope to

  6. Virtual screening for potential inhibitors of Mcl-1 conformations sampled by normal modes, molecular dynamics, and nuclear magnetic resonance

    Science.gov (United States)

    Glantz-Gashai, Yitav; Meirson, Tomer; Reuveni, Eli; Samson, Abraham O

    2017-01-01

    Myeloid cell leukemia-1 (Mcl-1) is often overexpressed in human cancer and is an important target for developing antineoplastic drugs. In this study, a data set containing 2.3 million lead-like molecules and a data set of all the US Food and Drug Administration (FDA)-approved drugs are virtually screened for potential Mcl-1 ligands using Protein Data Bank (PDB) ID 2MHS. The potential Mcl-1 ligands are evaluated and computationally docked on to three conformation ensembles generated by normal mode analysis (NMA), molecular dynamics (MD), and nuclear magnetic resonance (NMR), respectively. The evaluated potential Mcl-1 ligands are then compared with their clinical use. Remarkably, half of the top 30 potential drugs are used clinically to treat cancer, thus partially validating our virtual screen. The partial validation also favors the idea that the other half of the top 30 potential drugs could be used in the treatment of cancer. The normal mode-, MD-, and NMR-based conformation greatly expand the conformational sampling used herein for in silico identification of potential Mcl-1 inhibitors. PMID:28684899

  7. Comparison of Unsatisfactory Samples from Conventional Smear versus Liquid-Based Cytology in Uterine Cervical Cancer Screening Test

    Directory of Open Access Journals (Sweden)

    Hoiseon Jeong

    2017-05-01

    Full Text Available Background Cervical cytology for uterine cervical cancer screening has transitioned from conventional smear (CS to liquid-based cytology (LBC, which has many advantages. The aim of this study was to compare the proportion of unsatisfactory specimens from CS versus LBC at multiple institutions including general hospitals and commercial laboratories. Methods Each participating institution provided a minimum of 500 Papanicolaou (Pap test results for analysis. Pap tests were classified according to the participating institution (commercial laboratory or general hospital and the processing method (CS, ThinPrep, SurePath, or CellPrep. The causes of unsatisfactory results were classified as technical problems, scant cellularity, or complete obscuring factors. Results A total of 38,956 Pap test results from eight general hospitals and three commercial laboratories were analyzed. The mean unsatisfactory rate of LBC was significantly lower than that of CS (1.26% and 3.31%, p = .018. In the LBC method, samples from general hospitals had lower unsatisfactory rates than those from commercial laboratories (0.65% vs 2.89%, p = .006. The reasons for unsatisfactory results were heterogeneous in CS. On the other hand, 66.2% of unsatisfactory results in LBC were due to the scant cellularity. Conclusions Unsatisfactory rate of cervical cancer screening test results varies according to the institution and the processing method. LBC has a significantly lower unsatisfactory rate than CS.

  8. Slurry pipeline technology: an overview

    Energy Technology Data Exchange (ETDEWEB)

    Chapman, Jay P. [Pipeline Systems Incorporated (PSI), Belo Horizonte, MG (Brazil); Lima, Rafael; Pinto, Daniel; Vidal, Alisson [Ausenco do Brasil Engenharia Ltda., Nova Lima, MG (Brazil). PSI Div.

    2009-12-19

    Slurry pipelines represent an economical and environmentally friendly transportation means for many solid materials. This paper provides an over-view of the technology, its evolution and current Brazilian activity. Mineral resources are increasingly moving farther away from ports, processing plants and end use points, and slurry pipelines are an important mode of solids transport. Application guidelines are discussed. State-of-the-Art technical solutions such as pipeline system simulation, pipe materials, pumps, valves, automation, telecommunications, and construction techniques that have made the technology successful are presented. A discussion of where long distant slurry pipelines fit in a picture that also includes thickened and paste materials pipe lining is included. (author)

  9. Distributed acoustic sensing for pipeline monitoring

    Energy Technology Data Exchange (ETDEWEB)

    Hill, David; McEwen-King, Magnus [OptaSense, QinetiQ Ltd., London (United Kingdom)

    2009-07-01

    Optical fibre is deployed widely across the oil and gas industry. As well as being deployed regularly to provide high bandwidth telecommunications and infrastructure for SCADA it is increasingly being used to sense pressure, temperature and strain along buried pipelines, on subsea pipelines and downhole. In this paper we present results from the latest sensing capability using standard optical fibre to detect acoustic signals along the entire length of a pipeline. In Distributed Acoustic Sensing (DAS) an optical fibre is used for both sensing and telemetry. In this paper we present results from the OptaSense{sup TM} system which has been used to detect third party intervention (TPI) along buried pipelines. In a typical deployment the system is connected to an existing standard single-mode fibre, up to 50km in length, and was used to independently listen to the acoustic / seismic activity at every 10 meter interval. We will show that through the use of advanced array processing of the independent, simultaneously sampled channels it is possible to detect and locate activity within the vicinity of the pipeline and through sophisticated acoustic signal processing to obtain the acoustic signature to classify the type of activity. By combining spare fibre capacity in existing buried fibre optic cables; processing and display techniques commonly found in sonar; and state-of-the-art in fibre-optic distributed acoustic sensing, we will describe the new monitoring capabilities that are available to the pipeline operator. Without the expense of retrofitting sensors to the pipeline, this technology can provide a high performance, rapidly deployable and cost effective method of providing gapless and persistent monitoring of a pipeline. We will show how this approach can be used to detect, classify and locate activity such as; third party interference (including activity indicative of illegal hot tapping); real time tracking of pigs; and leak detection. We will also show how an

  10. INTERNAL REPAIR OF PIPELINES

    Energy Technology Data Exchange (ETDEWEB)

    Bill Bruce; Nancy Porter; George Ritter; Matt Boring; Mark Lozev; Ian Harris; Bill Mohr; Dennis Harwig; Robin Gordon; Chris Neary; Mike Sullivan

    2005-07-20

    The two broad categories of fiber-reinforced composite liner repair and deposited weld metal repair technologies were reviewed and evaluated for potential application for internal repair of gas transmission pipelines. Both are used to some extent for other applications and could be further developed for internal, local, structural repair of gas transmission pipelines. Principal conclusions from a survey of natural gas transmission industry pipeline operators can be summarized in terms of the following performance requirements for internal repair: (1) Use of internal repair is most attractive for river crossings, under other bodies of water, in difficult soil conditions, under highways, under congested intersections, and under railway crossings. (2) Internal pipe repair offers a strong potential advantage to the high cost of horizontal direct drilling when a new bore must be created to solve a leak or other problem. (3) Typical travel distances can be divided into three distinct groups: up to 305 m (1,000 ft.); between 305 m and 610 m (1,000 ft. and 2,000 ft.); and beyond 914 m (3,000 ft.). All three groups require pig-based systems. A despooled umbilical system would suffice for the first two groups which represents 81% of survey respondents. The third group would require an onboard self-contained power unit for propulsion and welding/liner repair energy needs. (4) The most common size range for 80% to 90% of operators surveyed is 508 mm (20 in.) to 762 mm (30 in.), with 95% using 558.8 mm (22 in.) pipe. Evaluation trials were conducted on pipe sections with simulated corrosion damage repaired with glass fiber-reinforced composite liners, carbon fiber-reinforced composite liners, and weld deposition. Additional un-repaired pipe sections were evaluated in the virgin condition and with simulated damage. Hydrostatic failure pressures for pipe sections repaired with glass fiber-reinforced composite liner were only marginally greater than that of pipe sections without

  11. Determination of Antimony (III) in Real Samples by Anodic Stripping Voltammetry Using a Mercury Film Screen-Printed Electrode.

    Science.gov (United States)

    Domínguez-Renedo, Olga; Gómez González, M Jesús; Arcos-Martínez, M Julia

    2009-01-01

    This paper describes a procedure for the determination of antimony (III) by differential pulse anodic stripping voltammetry using a mercury film screen-printed electrode as the working electrode. The procedure has been optimized using experimental design methodology. Under these conditions, in terms of Residual Standard Deviation (RSD), the repeatability (3.81 %) and the reproducibility (5.07 %) of the constructed electrodes were both analyzed. The detection limit for Sb (III) was calculated at a value of 1.27×10(-8) M. The linear range obtained was between 0.99 × 10(-8) - 8.26 × 10(-8) M. An analysis of possible effects due to the presence of foreign ions in the solution was performed and the procedure was successfully applied to the determination of antimony levels in pharmaceutical preparations and sea water samples.

  12. ENZYME-LINKED-IMMUNOSORBENT-ASSAY FOR SCREENING OF MILK SAMPLES FOR SALMONELLA-TYPHIMURIUM IN DAIRY HERDS

    DEFF Research Database (Denmark)

    Hoorfar, Jeffrey; Wedderkopp, A.

    1995-01-01

    We investigated the ability of an antibody-specific, O antigen-based ELISA to document Salmonella typhimurium herd infections by screening of milk samples. Three cattle populations, 20 herds with no history of salmonellosis, 8 herds with history of S typhimurium epsiodes within the previous 7...... months, and 220 herds of unknown disease status, were tested. A herd was considered ELISA positive if at least 5% of the cows had OD values > 0.3. Among the 20 herds without history of salmonellosis, only 2 herds were ELISA positive, whereas all 8 herds with a known history of salmonellosis were ELISA...... positive (herd specificity, 0.9 and herd sensitivity, 1.0). A sig nificant correlation (P salmonellosis. It was concluded that ELISA testing of individual milk sam ples can be used for surveillance...

  13. Mass-spectra-based peak alignment for automatic nontargeted metabolic profiling analysis for biomarker screening in plant samples.

    Science.gov (United States)

    Fu, Hai-Yan; Hu, Ou; Zhang, Yue-Ming; Zhang, Li; Song, Jing-Jing; Lu, Peang; Zheng, Qing-Xia; Liu, Ping-Ping; Chen, Qian-Si; Wang, Bing; Wang, Xiao-Yu; Han, Lu; Yu, Yong-Jie

    2017-09-01

    Nontargeted metabolic profiling analysis is a difficult task in a routine investigation because hundreds of chromatographic peaks are eluted within a short time, and the time shift problem is severe across samples. To address these problems, the present work developed an automatic nontargeted metabolic profiling analysis (anTMPA) method. First, peaks from the total ion chromatogram were extracted using modified multiscale Gaussian smoothing method. Then, a novel peak alignment strategy was employed based on the mass spectra and retention times of the peaks in which the maximum mass spectral correlation coefficient path was extracted using a modified dynamic programming method. Moreover, an automatic landmark peak-searching strategy was employed for self-adapting time shift modification. Missing peaks across samples were grouped and registered into the aligned peak list table for final refinement. Finally, the aligned peaks across samples were analyzed using statistical methods to identify potential biomarkers. Mass spectral information on the screened biomarkers could be directly imported into the National Institute of Standards and Technology library to select the candidate compounds. The performance of the anTMPA method was evaluated using a complicated plant gas chromatography-mass spectrometry dataset with the aim of identifying biomarkers between the growth and maturation stages of the tested plant. Copyright © 2017 Elsevier B.V. All rights reserved.

  14. Sub-soil contamination due to oil spills in zones surrounding oil pipeline-pump stations and oil pipeline right-of-ways in Southwest-Mexico.

    Science.gov (United States)

    Iturbe, Rosario; Flores, Carlos; Castro, Alejandrina; Torres, Luis G

    2007-10-01

    Oil spills due to oil pipelines is a very frequent problem in Mexico. Petroleos Mexicanos (PEMEX), very concerned with the environmental agenda, has been developing inspection and correction plans for zones around oil pipelines pumping stations and pipeline right-of-way. These stations are located at regular intervals of kilometres along the pipelines. In this study, two sections of an oil pipeline and two pipeline pumping stations zones are characterized in terms of the presence of Total Petroleum Hydrocarbons (TPHs) and Polycyclic Aromatic Hydrocarbons (PAHs). The study comprehends sampling of the areas, delimitation of contamination in the vertical and horizontal extension, analysis of the sampled soils regarding TPHs content and, in some cases, the 16 PAHs considered as priority by USEPA, calculation of areas and volumes contaminated (according to Mexican legislation, specifically NOM-EM-138-ECOL-2002) and, finally, a proposal for the best remediation techniques suitable for the contamination levels and the localization of contaminants.

  15. High Throughput Sample Preparation and Analysis for DNA Sequencing, PCR and Combinatorial Screening of Catalysis Based on Capillary Array Technique

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Yonghua [Iowa State Univ., Ames, IA (United States)

    2000-01-01

    Sample preparation has been one of the major bottlenecks for many high throughput analyses. The purpose of this research was to develop new sample preparation and integration approach for DNA sequencing, PCR based DNA analysis and combinatorial screening of homogeneous catalysis based on multiplexed capillary electrophoresis with laser induced fluorescence or imaging UV absorption detection. The author first introduced a method to integrate the front-end tasks to DNA capillary-array sequencers. protocols for directly sequencing the plasmids from a single bacterial colony in fused-silica capillaries were developed. After the colony was picked, lysis was accomplished in situ in the plastic sample tube using either a thermocycler or heating block. Upon heating, the plasmids were released while chromsomal DNA and membrane proteins were denatured and precipitated to the bottom of the tube. After adding enzyme and Sanger reagents, the resulting solution was aspirated into the reaction capillaries by a syringe pump, and cycle sequencing was initiated. No deleterious effect upon the reaction efficiency, the on-line purification system, or the capillary electrophoresis separation was observed, even though the crude lysate was used as the template. Multiplexed on-line DNA sequencing data from 8 parallel channels allowed base calling up to 620 bp with an accuracy of 98%. The entire system can be automatically regenerated for repeated operation. For PCR based DNA analysis, they demonstrated that capillary electrophoresis with UV detection can be used for DNA analysis starting from clinical sample without purification. After PCR reaction using cheek cell, blood or HIV-1 gag DNA, the reaction mixtures was injected into the capillary either on-line or off-line by base stacking. The protocol was also applied to capillary array electrophoresis. The use of cheaper detection, and the elimination of purification of DNA sample before or after PCR reaction, will make this approach an

  16. Sampling

    CERN Document Server

    Thompson, Steven K

    2012-01-01

    Praise for the Second Edition "This book has never had a competitor. It is the only book that takes a broad approach to sampling . . . any good personal statistics library should include a copy of this book." —Technometrics "Well-written . . . an excellent book on an important subject. Highly recommended." —Choice "An ideal reference for scientific researchers and other professionals who use sampling." —Zentralblatt Math Features new developments in the field combined with all aspects of obtaining, interpreting, and using sample data Sampling provides an up-to-date treat

  17. Hydrodynamics of ocean pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Yoshihara, S.; Toyoda, S.; Venkataramana, K.; Aiko, Y. (Kagoshima University, Kagoshima (Japan). Faculty of Engineering)

    1993-09-30

    This paper describes the current forces acting on cylindrical models in a steady flow, corresponding to the cases of rigid and large diameter pipelines in real seas. The models were placed in a circulating water channel normal to the direction of flow. The strains in the models were recorded using strain gauges, from which fluid forces in the horizontal and vertical directions were obtained. The drag coefficient, lift coefficient, and Straul number were calculated, and were illustrated against the Reynolds number. Consequently, the drag force was found to increase with flow velocity. In addition, it was shown that the variation of lift force was more complex and was affected by the eddies and other forms of turbulence around the models. For the model which consists of two pipes held together, it was found that the fluid forces were greater on the upstream side. It was provided that the fluid forces were also affected by the orientation of the pipelines. Furthermore, it was clarified that the values of hydrodynamic coefficients and Straul number were similar to the results for vertical cylinders in uniform flows. 5 refs., 16 figs.

  18. EBV, HCMV, HHV6, and HHV7 Screening in Bone Marrow Samples from Children with Acute Lymphoblastic Leukemia

    Directory of Open Access Journals (Sweden)

    A. Morales-Sánchez

    2014-01-01

    Full Text Available Acute lymphoblastic leukemia (ALL is the most common cancer in childhood worldwide and Mexico has reported one of the highest incidence rates. An infectious etiology has been suggested and supported by epidemiological evidences; however, the identity of the involved agent(s is not known. We considered that early transmitted lymphotropic herpes viruses were good candidates, since transforming mechanisms have been described for them and some are already associated with human cancers. In this study we interrogated the direct role of EBV, HCMV, HHV6, and HHV7 human herpes viruses in childhood ALL. Viral genomes were screened in 70 bone marrow samples from ALL patients through standard and a more sensitive nested PCR. Positive samples were detected only by nested PCR indicating a low level of infection. Our result argues that viral genomes were not present in all leukemic cells, and, hence, infection most likely was not part of the initial genetic lesions leading to ALL. The high statistical power of the study suggested that these agents are not involved in the genesis of ALL in Mexican children. Additional analysis showed that detected infections or coinfections were not associated with prognosis.

  19. EBV, HCMV, HHV6, and HHV7 Screening in Bone Marrow Samples from Children with Acute Lymphoblastic Leukemia

    Science.gov (United States)

    Morales-Sánchez, A.; Pompa-Mera, E. N.; Fajardo-Gutiérrez, A.; Alvarez-Rodríguez, F. J.; Bekker-Méndez, V. C.; Flores-Chapa, J. de Diego; Flores-Lujano, J.; Jiménez-Hernández, E.; Peñaloza-González, J. G.; Rodríguez-Zepeda, M. C.; Torres-Nava, J. R.; Velázquez-Aviña, M. M.; Amador-Sánchez, R.; Alvarado-Ibarra, M.; Reyes-Zepeda, N.; Espinosa-Elizondo, R. M.; Pérez-Saldivar, M. L.; Núñez-Enríquez, J. C.; Mejía-Aranguré, J. M.; Fuentes-Pananá, E. M.

    2014-01-01

    Acute lymphoblastic leukemia (ALL) is the most common cancer in childhood worldwide and Mexico has reported one of the highest incidence rates. An infectious etiology has been suggested and supported by epidemiological evidences; however, the identity of the involved agent(s) is not known. We considered that early transmitted lymphotropic herpes viruses were good candidates, since transforming mechanisms have been described for them and some are already associated with human cancers. In this study we interrogated the direct role of EBV, HCMV, HHV6, and HHV7 human herpes viruses in childhood ALL. Viral genomes were screened in 70 bone marrow samples from ALL patients through standard and a more sensitive nested PCR. Positive samples were detected only by nested PCR indicating a low level of infection. Our result argues that viral genomes were not present in all leukemic cells, and, hence, infection most likely was not part of the initial genetic lesions leading to ALL. The high statistical power of the study suggested that these agents are not involved in the genesis of ALL in Mexican children. Additional analysis showed that detected infections or coinfections were not associated with prognosis. PMID:25309913

  20. The BD Onclarity HPV assay on SurePath collected samples meets the International Guidelines for Human Papillomavirus Test Requirements for Cervical Screening

    DEFF Research Database (Denmark)

    Ejegod, Ditte; Bottari, Fabio; Pedersen, Helle

    2016-01-01

    This study describes a validation of the BD Onclarity HPV (Onclarity) assay using the international guidelines for HPV test requirements for cervical cancer screening of women 30 years and above using Danish SurePath screening samples. The clinical specificity (0.90, 95% CI: 0.......93). The inter laboratory agreement was 97% with lower confidence bound of 95% (kappa value: 0.92). The BD Onclarity HPV assay fulfills all the international guidelines for a new HPV test to be used in primarily screening. This is the first clinical validation of a new HPV assay using SurePath screening samples...... and thus the Onclarity HPV assay is the first HPV assay to hold an international validation for both SurePath and ThinPrep....

  1. A multi-assay screening approach for assessment of endocrine-active contaminants in wastewater effluent samples

    Energy Technology Data Exchange (ETDEWEB)

    Metcalfe, Chris D., E-mail: cmetcalfe@trentu.ca [Environmental and Resource Studies, Trent University, Peterborough, ON, K9J 7B8 (Canada); Kleywegt, Sonya [Standards Development Branch, Ontario Ministry of the Environment, 40 St. Clair Ave. West, Toronto, ON, M4V 1M2 (Canada); Letcher, Robert J. [Ecotoxicology and Wildlife Health Division, Science and Technology Branch, Environment Canada, National Wildlife Research Centre, Carleton University, Ottawa, ON, K1A 0H3 (Canada); Topp, Edward [Agriculture and Agri-Food Canada, Southern Crop Protection and Food Research Centre, London, ON, N5V 7T3 (Canada); Wagh, Purva; Trudeau, Vance L.; Moon, Thomas W. [Department of Biology and Centre for Advanced Research in Environmental Genomics, University of Ottawa, Ottawa, ON, K1N 6N5 (Canada)

    2013-06-01

    Environmental agencies must monitor an ever increasing range of contaminants of emerging concern, including endocrine disrupting compounds (EDCs). An alternative to using ultra-trace chemical analysis of samples for EDCs is to test for biological activity using in vitro screening assays, then use these assay results to direct analytical chemistry approaches. In this study, we used both analytical approaches and in vitro bioassays to characterize the EDCs present in treated wastewater from four wastewater treatment plants (WWTPs) in Ontario, Canada. Estrogen-mediated activity was assessed using a yeast estrogenicity screening (YES) assay. An in vitro competitive binding assay was used to assess capacity to interfere with binding of the thyroid hormone, thyroxine (T4) to the recombinant human thyroid hormone transport protein, transthyretin (i.e. hTTR). An in vitro binding assay with a rat peroxisome proliferator responsive element transfected into a rainbow trout gill cell line was used to evaluate binding and subsequent gene expression via the peroxisome proliferator activated receptor (PPAR). Analyses of a suite of contaminants known to be EDCs in extracts from treated wastewater were conducted using either gas chromatography with mass spectrometry (GC-MS) or liquid chromatography with tandem mass spectrometry (LC-MS/MS). Estrogenic activity was detected in the YES assay only in those extracts that contained detectable amounts of estradiol (E2). There was a positive relationship between the degree of response in the T4-hTTR assay and the amounts of polybrominated diphenyl ether (PBDE) congeners 47 and 99, triclosan and the PBDE metabolite, 4-OH-BDE17. Several wastewater extracts gave a positive response in the PPAR assay, but these responses were not correlated with the amounts of any of the EDCs analyzed by LC-MS/MS. Overall, these data indicate that a step-wise approach is feasible using a combination of in vitro testing and instrumental analysis to monitor for

  2. Standardization of a Continuous Assay for Glycosidases and Its Use for Screening Insect Gut Samples at Individual and Populational Levels.

    Science.gov (United States)

    Profeta, Gerson S; Pereira, Jessica A S; Costa, Samara G; Azambuja, Patricia; Garcia, Eloi S; Moraes, Caroline da Silva; Genta, Fernando A

    2017-01-01

    Glycoside Hydrolases (GHs) are enzymes able to recognize and cleave glycosidic bonds. Insect GHs play decisive roles in digestion, in plant-herbivore, and host-pathogen interactions. GH activity is normally measured by the detection of a release from the substrate of products as sugars units, colored, or fluorescent groups. In most cases, the conditions for product release and detection differ, resulting in discontinuous assays. The current protocols result in using large amounts of reaction mixtures for the obtainment of time points in each experimental replica. These procedures restrain the analysis of biological materials with limited amounts of protein and, in the case of studies regarding small insects, implies in the pooling of samples from several individuals. In this respect, most studies do not assess the variability of GH activities across the population of individuals from the same species. The aim of this work is to approach this technical problem and have a deeper understanding of the variation of GH activities in insect populations, using as models the disease vectors Rhodnius prolixus (Hemiptera: Triatominae) and Lutzomyia longipalpis (Diptera: Phlebotominae). Here we standardized continuous assays using 4-methylumbelliferyl derived substrates for the detection of α-Glucosidase, β-Glucosidase, α-Mannosidase, N-acetyl-hexosaminidase, β-Galactosidase, and α-Fucosidase in the midgut of R. prolixus and L. longipalpis with results similar to the traditional discontinuous protocol. The continuous assays allowed us to measure GH activities using minimal sample amounts with a higher number of measurements, resulting in data that are more reliable and less time and reagent consumption. The continuous assay also allows the high-throughput screening of GH activities in small insect samples, which would be not applicable to the previous discontinuous protocol. We applied continuous GH measurements to 90 individual samples of R. prolixus anterior midgut

  3. Standardization of a Continuous Assay for Glycosidases and Its Use for Screening Insect Gut Samples at Individual and Populational Levels

    Directory of Open Access Journals (Sweden)

    Gerson S. Profeta

    2017-05-01

    Full Text Available Glycoside Hydrolases (GHs are enzymes able to recognize and cleave glycosidic bonds. Insect GHs play decisive roles in digestion, in plant-herbivore, and host-pathogen interactions. GH activity is normally measured by the detection of a release from the substrate of products as sugars units, colored, or fluorescent groups. In most cases, the conditions for product release and detection differ, resulting in discontinuous assays. The current protocols result in using large amounts of reaction mixtures for the obtainment of time points in each experimental replica. These procedures restrain the analysis of biological materials with limited amounts of protein and, in the case of studies regarding small insects, implies in the pooling of samples from several individuals. In this respect, most studies do not assess the variability of GH activities across the population of individuals from the same species. The aim of this work is to approach this technical problem and have a deeper understanding of the variation of GH activities in insect populations, using as models the disease vectors Rhodnius prolixus (Hemiptera: Triatominae and Lutzomyia longipalpis (Diptera: Phlebotominae. Here we standardized continuous assays using 4-methylumbelliferyl derived substrates for the detection of α-Glucosidase, β-Glucosidase, α-Mannosidase, N-acetyl-hexosaminidase, β-Galactosidase, and α-Fucosidase in the midgut of R. prolixus and L. longipalpis with results similar to the traditional discontinuous protocol. The continuous assays allowed us to measure GH activities using minimal sample amounts with a higher number of measurements, resulting in data that are more reliable and less time and reagent consumption. The continuous assay also allows the high-throughput screening of GH activities in small insect samples, which would be not applicable to the previous discontinuous protocol. We applied continuous GH measurements to 90 individual samples of R. prolixus

  4. Performance of a Brazilian sample on the Portuguese translation of the BNI Screen for Higher Cerebral Functions.

    Science.gov (United States)

    Prigatano, George P; Souza, Lígia M N; Braga, Lucia W

    2018-03-01

    The Barrow Neurological Institute (BNI) Screen for Higher Cerebral Functions (BNIS) has been translated into several languages and found useful in evaluating multiple domains of cognitive and affective dysfunction, particularly in neuro-rehabilitation settings. Normative data from countries with high literacy rates have reported strikingly similar mean level of performance scores on this test, with age typically correlating higher with total score performance than education. In the present study, we obtain convenience sample normative data from a native Brazilian population on a Portuguese translation of the BNIS (i.e., BNIS-PT). The BNIS was translated into Portuguese by two native speaking Portuguese neuropsychologists who were also fluent in English. It was then administered to 201 normally functioning native Brazilian individuals who varied considerably in age and formal educational training. The mean BNIS total score was similar to what previous studies reported, but primarily in younger adults with at least 12 years of formal education. In this Brazilian sample, the correlation of educational level and BNIS total score was r = .68, p < .001. The correlation of age and BNIS total score was r = -.36, p < .001. This is the opposite pattern to that observed in previous standardization studies. The strong correlation of education with performance in various subtests was observed in all age groups (ages ranging from 15 to 85 years). This standardization study provides guidelines for calculating expected average performance levels on the BNIS-PT for Brazilian individuals with varying degrees of age and education. Educational level positively correlated with test performance on the BNIS-PT and was repeatedly observed to overshadow the effects of age, suggesting its important role in the development of higher cerebral functions in multiple domains in a Brazilian sample of normally functioning individuals.

  5. Disposable sputtered-bismuth screen-printed sensors for voltammetric monitoring of cadmium and lead in atmospheric particulate matter samples.

    Science.gov (United States)

    Palomo-Marín, M R; Rueda-Holgado, F; Marín-Expósito, J; Pinilla-Gil, E

    2017-12-01

    We report here the use of commercial screen-printed disposable sensors comprising a sputtered bismuth working electrode, a silver pseudo reference electrode and a carbon auxiliary electrode (whole set referred as Bi sp SPE), as a new and advantageous alternative for reliable and convenient monitoring of Cd and Pb in atmospheric particulate matter (PM10 fraction) by anodic stripping voltammetry after acid digestion. After a detailed exploration of surface composition and depth profiles of the Bi sp SPE by SEM, EDX, XPS and EIS, chemical and instrumental variables have been optimized to develop a reliable method capable of measuring Cd and Pb with detection limits of 11.8ngmL -1 and 6.1ngmL -1 respectively. These detection limits are useful for pollution monitoring of these elements in ambient air under the requirements of international health and environmental protection standards. The accuracy of the method was assessed by voltammetric measurements of Cd and Pb in ERM®-CZ120 Fine dust (PM10-like) and ERM® 1648a Urban Particulate Matter certified reference materials. The applicability of the method to Cd and Pb determination in real samples was demonstrated by analysis of PM10 samples from the air quality network in Extremadura, with a good correlation respect to the standard ICP-MS methodology. Our work constitutes the first reference about the use of disposable sensors based on Bi sp SPE for the determination of heavy metals in atmospheric particulate matter samples. Copyright © 2017 Elsevier B.V. All rights reserved.

  6. Non-target time trend screening: a data reduction strategy for detecting emerging contaminants in biological samples.

    Science.gov (United States)

    Plassmann, Merle M; Tengstrand, Erik; Åberg, K Magnus; Benskin, Jonathan P

    2016-06-01

    Non-targeted mass spectrometry-based approaches for detecting novel xenobiotics in biological samples are hampered by the occurrence of naturally fluctuating endogenous substances, which are difficult to distinguish from environmental contaminants. Here, we investigate a data reduction strategy for datasets derived from a biological time series. The objective is to flag reoccurring peaks in the time series based on increasing peak intensities, thereby reducing peak lists to only those which may be associated with emerging bioaccumulative contaminants. As a result, compounds with increasing concentrations are flagged while compounds displaying random, decreasing, or steady-state time trends are removed. As an initial proof of concept, we created artificial time trends by fortifying human whole blood samples with isotopically labelled standards. Different scenarios were investigated: eight model compounds had a continuously increasing trend in the last two to nine time points, and four model compounds had a trend that reached steady state after an initial increase. Each time series was investigated at three fortification levels and one unfortified series. Following extraction, analysis by ultra performance liquid chromatography high-resolution mass spectrometry, and data processing, a total of 21,700 aligned peaks were obtained. Peaks displaying an increasing trend were filtered from randomly fluctuating peaks using time trend ratios and Spearman's rank correlation coefficients. The first approach was successful in flagging model compounds spiked at only two to three time points, while the latter approach resulted in all model compounds ranking in the top 11 % of the peak lists. Compared to initial peak lists, a combination of both approaches reduced the size of datasets by 80-85 %. Overall, non-target time trend screening represents a promising data reduction strategy for identifying emerging bioaccumulative contaminants in biological samples. Graphical abstract

  7. Attitudes towards cytology and human papillomavirus self-sample collection for cervical screening among Hindu women in London, UK: a mixed methods study.

    Science.gov (United States)

    Cadman, Louise; Ashdown-Barr, Lesley; Waller, Jo; Szarewski, Anne

    2015-01-01

    To explore the attitudes, views and understanding of women attending a Hindu temple in London, UK towards cervical screening, human papillomavirus (HPV) testing and two HPV self-sample collection devices: the Dacron swab and Evalyn(®) brush. A mixed methods design comprising a survey and four focus groups was adopted. Focus group discussions were recorded and transcribed verbatim and explored using thematic framework analysis. A total of 185 Hindu women completed surveys and 23 attended focus groups. Of the respondents 75% aged 25-64 years reported having cervical screening within the last 5 years; 85% had attended college or university. Familiar barriers to attendance for screening were identified: fear of pain and the test result, embarrassment, screener's attitude, inconvenient appointment times and difficulty with child care. Additional barriers cited included age and country of birth, with older and Indian-born women thought to be less likely to attend for screening. Self-collected sampling had a mixed reception. Women were not confident that their sample would be as good as a clinician sample and expressed concern about the impact that a positive HPV result might have on their relationships. Screening attendance in this highly educated group of Hindu women was slightly lower than in the general population (75% of women aged 25-64 years had been screened in the last 5 years compared with 79% in England as a whole). Familiar barriers to screening were identified. Women felt able to collect their own sample for HPV testing with a Dacron swab but lacked confidence that it would be as good as that obtained by a clinician. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions.

  8. Shipping Information Pipeline

    DEFF Research Database (Denmark)

    Jensen, Thomas

    , while contemporary research proposes Information Infrastructures (II) as a new IT artifact to be researched. Correspondingly, this thesis applies the concept of and design theory for II to improve containerized shipping. Activity Theory has guided the analysis of containerized shipping, following......This thesis applies theoretical perspectives from the Information Systems (IS) research field to propose how Information Technology (IT) can improve containerized shipping. This question is addressed by developing a set of design principles for an information infrastructure for sharing shipping...... information named the Shipping Information Pipeline (SIP). Review of the literature revealed that IS research prescribed a set of meta-design principles, including digitalization and digital collaboration by implementation of Inter-Organizational Systems based on Electronic Data Interchange (EDI) messages...

  9. INTERNAL REPAIR OF PIPELINES

    Energy Technology Data Exchange (ETDEWEB)

    Robin Gordon; Bill Bruce; Ian Harris; Dennis Harwig; Nancy Porter; Mike Sullivan; Chris Neary

    2004-04-12

    The two broad categories of deposited weld metal repair and fiber-reinforced composite liner repair technologies were reviewed for potential application for internal repair of gas transmission pipelines. Both are used to some extent for other applications and could be further developed for internal, local, structural repair of gas transmission pipelines. Preliminary test programs were developed for both deposited weld metal repair and for fiber-reinforced composite liner repair. Evaluation trials have been conducted using a modified fiber-reinforced composite liner provided by RolaTube and pipe sections without liners. All pipe section specimens failed in areas of simulated damage. Pipe sections containing fiber-reinforced composite liners failed at pressures marginally greater than the pipe sections without liners. The next step is to evaluate a liner material with a modulus of elasticity approximately 95% of the modulus of elasticity for steel. Preliminary welding parameters were developed for deposited weld metal repair in preparation of the receipt of Pacific Gas & Electric's internal pipeline welding repair system (that was designed specifically for 559 mm (22 in.) diameter pipe) and the receipt of 559 mm (22 in.) pipe sections from Panhandle Eastern. The next steps are to transfer welding parameters to the PG&E system and to pressure test repaired pipe sections to failure. A survey of pipeline operators was conducted to better understand the needs and performance requirements of the natural gas transmission industry regarding internal repair. Completed surveys contained the following principal conclusions: (1) Use of internal weld repair is most attractive for river crossings, under other bodies of water, in difficult soil conditions, under highways, under congested intersections, and under railway crossings. (2) Internal pipe repair offers a strong potential advantage to the high cost of horizontal direct drilling (HDD) when a new bore must be created

  10. INTERNAL REPAIR OF PIPELINES

    Energy Technology Data Exchange (ETDEWEB)

    Robin Gordon; Bill Bruce; Ian Harris; Dennis Harwig; George Ritter; Bill Mohr; Matt Boring; Nancy Porter; Mike Sullivan; Chris Neary

    2004-08-17

    The two broad categories of fiber-reinforced composite liner repair and deposited weld metal repair technologies were reviewed and evaluated for potential application for internal repair of gas transmission pipelines. Both are used to some extent for other applications and could be further developed for internal, local, structural repair of gas transmission pipelines. Principal conclusions from a survey of natural gas transmission industry pipeline operators can be summarized in terms of the following performance requirements for internal repair: (1) Use of internal repair is most attractive for river crossings, under other bodies of water, in difficult soil conditions, under highways, under congested intersections, and under railway. (2) Internal pipe repair offers a strong potential advantage to the high cost of horizontal direct drilling when a new bore must be created to solve a leak or other problem. (3) Typical travel distances can be divided into three distinct groups: up to 305 m (1,000 ft.); between 305 m and 610 m (1,000 ft. and 2,000 ft.); and beyond 914 m (3,000 ft.). All three groups require pig-based systems. A despooled umbilical system would suffice for the first two groups which represents 81% of survey respondents. The third group would require an onboard self-contained power unit for propulsion and welding/liner repair energy needs. (4) The most common size range for 80% to 90% of operators surveyed is 508 mm (20 in.) to 762 mm (30 in.), with 95% using 558.8 mm (22 in.) pipe. Evaluation trials were conducted on pipe sections with simulated corrosion damage repaired with glass fiber-reinforced composite liners, carbon fiber-reinforced composite liners, and weld deposition. Additional un-repaired pipe sections were evaluated in the virgin condition and with simulated damage. Hydrostatic failure pressures for pipe sections repaired with glass fiber-reinforced composite liner were only marginally greater than that of pipe sections without liners

  11. INTERNAL REPAIR OF PIPELINES

    Energy Technology Data Exchange (ETDEWEB)

    Robin Gordon; Bill Bruce; Ian Harris; Dennis Harwig; George Ritter; Bill Mohr; Matt Boring; Nancy Porter; Mike Sullivan; Chris Neary

    2004-12-31

    The two broad categories of fiber-reinforced composite liner repair and deposited weld metal repair technologies were reviewed and evaluated for potential application for internal repair of gas transmission pipelines. Both are used to some extent for other applications and could be further developed for internal, local, structural repair of gas transmission pipelines. Principal conclusions from a survey of natural gas transmission industry pipeline operators can be summarized in terms of the following performance requirements for internal repair: (1) Use of internal repair is most attractive for river crossings, under other bodies of water, in difficult soil conditions, under highways, under congested intersections, and under railway crossings. (2) Internal pipe repair offers a strong potential advantage to the high cost of horizontal direct drilling when a new bore must be created to solve a leak or other problem. (3) Typical travel distances can be divided into three distinct groups: up to 305 m (1,000 ft.); between 305 m and 610 m (1,000 ft. and 2,000 ft.); and beyond 914 m (3,000 ft.). All three groups require pig-based systems. A despooled umbilical system would suffice for the first two groups which represents 81% of survey respondents. The third group would require an onboard self-contained power unit for propulsion and welding/liner repair energy needs. (4) The most common size range for 80% to 90% of operators surveyed is 508 mm (20 in.) to 762 mm (30 in.), with 95% using 558.8 mm (22 in.) pipe. Evaluation trials were conducted on pipe sections with simulated corrosion damage repaired with glass fiber-reinforced composite liners, carbon fiber-reinforced composite liners, and weld deposition. Additional un-repaired pipe sections were evaluated in the virgin condition and with simulated damage. Hydrostatic failure pressures for pipe sections repaired with glass fiber-reinforced composite liner were only marginally greater than that of pipe sections without

  12. Northern pipelines : challenges and needs

    Energy Technology Data Exchange (ETDEWEB)

    Dean, D.; Brownie, D. [ProLog Canada Inc., Calgary, AB (Canada); Fafara, R. [TransCanada PipeLines Ltd., Calgary, AB (Canada)

    2007-07-01

    Working Group 10 presented experiences acquired from the operation of pipeline systems in a northern environment. There are currently 3 pipelines operating north of 60, notably the Shiha gas pipeline near Fort Liard, the Ikhil gas pipeline in Inuvik and the Norman Wells oil pipeline. Each has its unique commissioning, operating and maintenance challenges, as well as specific training and logistical support requirements for the use of in-line inspection tools and other forms of integrity assessment. The effectiveness of cathodic protection systems in a permafrost northern environment was also discussed. It was noted that the delay of the Mackenzie Gas Pipeline Project by two to three years due to joint regulatory review may lead to resource constraints for the project as well as competition for already scarce human resources. The issue of a potential timing conflict with the Alaskan Pipeline Project was also addressed as well as land use issues for routing of supply roads. Integrity monitoring and assessment issues were outlined with reference to pipe soil interaction monitoring in discontinuous permafrost; south facing denuded slope stability; base lining projects; and reclamation issues. It was noted that automatic welding and inspection will increase productivity, while reducing the need for manual labour. In response to anticipated training needs, companies are planning to involve and train Aboriginal labour and will provide camp living conditions that will attract labour. tabs., figs.

  13. Rapid screening of toxic salbutamol, ractopamine, and clenbuterol in pork sample by high-performance liquid chromatography—UV method

    Directory of Open Access Journals (Sweden)

    Kunping Yan

    2016-04-01

    Full Text Available A rapid and simple high-performance liquid chromatography–UV method was developed for the separation and quantification of salbutamol, ractopamine, and clenbuterol in pork. A mixture of acetonitrile–formic acid–ammonium acetate was used as the mobile phase to separate three β-agonists on a C18 column with gradient. The effects of the addition of formic acid and ammonium acetate to mobile phases on the separation of β-agonists were investigated. These additives can greatly improve the resolution and sensitivity. Under the optimized chromatographic condition, this separation does not need extra sample preparation. Complete baseline separation of three β-agonists was achieved in 0.99. Excellent method reproducibility was found by intra- and interday precisions with a relative standard deviation of < 3%. The detection limit (S/N = 3 was found to be <0.05 μg/L; this method can be used for routine screening of the β-agonist residues in foods of animal origin before being identified by confirmatory methods.

  14. Is a prostate cancer screening anxiety measure invariant across two different samples of age-appropriate men?

    Directory of Open Access Journals (Sweden)

    Linder Suzanne K

    2012-06-01

    Full Text Available Abstract Background In order to explore the influence of anxiety on decision–making processes, valid anxiety measures are needed. We evaluated a prostate cancer screening (PCS anxiety scale that measures anxiety related to the prostate–specific antigen (PSA test, the digital rectal examination (DRE, and the decision to undergo PCS (PCS-D using two samples in different settings. Methods We assessed four psychometric properties of the scale using baseline data from a randomized, controlled decision aid trial (n = 301, private clinic; n = 149, public. Results The 3-factor measure had adequate internal consistency reliability, construct validity, and discriminant validity. Confirmatory factor analyses indicated that the 3–factor model did not have adequate fit. When subscales were considered separately, only the 6–item PCS-D anxiety measure had adequate fit and was invariant across clinics. Conclusions Our results support the use of a 6–item PCS-D anxiety measure with age-appropriate men in public and private settings. The development of unique anxiety items relating to the PSA test and DRE is still needed.

  15. Determination of Antimony (III in Real Samples by Anodic Stripping Voltammetry Using a Mercury Film Screen-Printed Electrode

    Directory of Open Access Journals (Sweden)

    Olga Domínguez-Renedo

    2009-01-01

    Full Text Available This paper describes a procedure for the determination of antimony (III by differential pulse anodic stripping voltammetry using a mercury film screen-printed electrode as the working electrode. The procedure has been optimized using experimental design methodology. Under these conditions, in terms of Residual Standard Deviation (RSD, the repeatability (3.81 % and the reproducibility (5.07 % of the constructed electrodes were both analyzed. The detection limit for Sb (III was calculated at a value of 1.27×10–8 M. The linear range obtained was between 0.99 × 10–8 – 8.26 × 10–8 M. An analysis of possible effects due to the presence of foreign ions in the solution was performed and the procedure was successfully applied to the determination of antimony levels in pharmaceutical preparations and sea water samples.

  16. Comparison of DNA extraction methods from small samples of newborn screening cards suitable for retrospective perinatal viral research.

    Science.gov (United States)

    McMichael, Gai L; Highet, Amanda R; Gibson, Catherine S; Goldwater, Paul N; O'Callaghan, Michael E; Alvino, Emily R; MacLennan, Alastair H

    2011-04-01

    Reliable detection of viral DNA in stored newborn screening cards (NSC) would give important insight into possible silent infection during pregnancy and around birth. We sought a DNA extraction method with sufficient sensitivity to detect low copy numbers of viral DNA from small punch samples of NSC. Blank NSC were spotted with seronegative EDTA-blood and seropositive EBV EDTA-blood. DNA was extracted with commercial and noncommercial DNA extraction methods and quantified on a spectrofluorometer using a PicoGreen dsDNA quantification kit. Serial dilutions of purified viral DNA controls determined the sensitivity of the amplification protocol, and seropositive EBV EDTA-blood amplified by nested PCR (nPCR) validated the DNA extraction methods. There were considerable differences between the commercial and noncommercial DNA extraction methods (P=0.014; P=0.016). Commercial kits compared favorably, but the QIamp DNA micro kit with an added forensic filter step was marginally more sensitive. The mean DNA yield from this method was 3 ng/μl. The limit of detection was 10 viral genome copies in a 50-μl reaction. EBV nPCR detection in neat and 1:10 diluted DNA extracts could be replicated reliably. We conclude that the QIamp Micro DNA extraction method with the added forensic spin-filter step was suitable for retrospective DNA viral assays from NSC.

  17. Subsea pipeline operational risk management

    Energy Technology Data Exchange (ETDEWEB)

    Bell, R.L.; Lanan, G.A.

    1996-12-31

    Resources used for inspection, maintenance, and repair of a subsea pipeline must be allocated efficiently in order to operate it in the most cost effective manner. Operational risk management aids in resource allocation through the use of risk assessments and cost/benefit analyses. It identifies those areas where attention must be focused in order to reduce risk. When they are identified, a company`s resources (i.e., personnel, equipment, money, and time) can then be used for inspection, maintenance, and/or repair of the pipeline. The results are cost effective risk reduction and pipeline operation with minimum expenditure.

  18. Natural gas pipeline technology overview.

    Energy Technology Data Exchange (ETDEWEB)

    Folga, S. M.; Decision and Information Sciences

    2007-11-01

    The United States relies on natural gas for one-quarter of its energy needs. In 2001 alone, the nation consumed 21.5 trillion cubic feet of natural gas. A large portion of natural gas pipeline capacity within the United States is directed from major production areas in Texas and Louisiana, Wyoming, and other states to markets in the western, eastern, and midwestern regions of the country. In the past 10 years, increasing levels of gas from Canada have also been brought into these markets (EIA 2007). The United States has several major natural gas production basins and an extensive natural gas pipeline network, with almost 95% of U.S. natural gas imports coming from Canada. At present, the gas pipeline infrastructure is more developed between Canada and the United States than between Mexico and the United States. Gas flows from Canada to the United States through several major pipelines feeding U.S. markets in the Midwest, Northeast, Pacific Northwest, and California. Some key examples are the Alliance Pipeline, the Northern Border Pipeline, the Maritimes & Northeast Pipeline, the TransCanada Pipeline System, and Westcoast Energy pipelines. Major connections join Texas and northeastern Mexico, with additional connections to Arizona and between California and Baja California, Mexico (INGAA 2007). Of the natural gas consumed in the United States, 85% is produced domestically. Figure 1.1-1 shows the complex North American natural gas network. The pipeline transmission system--the 'interstate highway' for natural gas--consists of 180,000 miles of high-strength steel pipe varying in diameter, normally between 30 and 36 inches in diameter. The primary function of the transmission pipeline company is to move huge amounts of natural gas thousands of miles from producing regions to local natural gas utility delivery points. These delivery points, called 'city gate stations', are usually owned by distribution companies, although some are owned by

  19. Effort problem of chemical pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Okrajni, J.; Ciesla, M.; Mutwil, K. [Silesian Technical University, Katowice (Poland)

    1998-12-31

    The problem of the technical state assessment of the chemical pipelines working under mechanical and thermal loading has been shown in the paper. The pipelines effort after the long time operating period has been analysed. Material geometrical and loading conditions of the crack initiation and crack growth process in the chosen object has been discussed. Areas of the maximal effort have been determined. The material structure charges after the long time operating period have been described. Mechanisms of the crack initiation and crack growth in the pipeline elements have been analysed and mutual relations between the chemical and mechanical influences have been shown. (orig.) 16 refs.

  20. Physical activity, screen time and obesity status in a nationally representative sample of Maltese youth with international comparisons.

    Science.gov (United States)

    Decelis, Andrew; Jago, Russell; Fox, Kenneth R

    2014-06-28

    There is some evidence that physical activity (PA), sedentary time and screen time (ST) are associated with childhood obesity, but research is inconclusive and studies are mainly based on self-reported data. The literature is dominated by data from North American countries and there is a shortage of objective data from Malta which has one of the highest prevalences of childhood obesity in the world. The aims of this study were to assess the PA levels and ST patterns of Maltese boys and girls and how they compared with children in other countries while also examining differences in PA and ST by weight status. A nationally representative sample of 1126 Maltese boys and girls aged 10-11 years, of which 811 provided complete data. Physical activity was assessed using accelerometry, and ST by questionnaire. Body mass index (BMI) was computed from measured height and weight. Only 39% of boys and 10% of girls met the recommendation of one hour of daily MVPA. Comparison with international data indicated that mean MVPA (58.1 min for boys; 41.7 min for girls) was higher than in North America and Australia, but lower than in England. Girls were less active than boys at all measured times and spent less time in ST. A quarter of the children exceeded guidelines of two hours of TV on weekends, and double the amount on weekdays. Obese children were less active than normal weight children on weekdays and on weekends, reaching significance during the period after school, and they spent more time in ST than their normal weight counterparts. A low percentage of Maltese 10-11 year olds, particularly girls, reached the recommended levels of daily MVPA and spent large amounts of time engaged in screen time. Obese children were less active than non-obese children. As children spend most of their waking time at school and that activity during this time is less than one third of the daily requirements, aiming to increase MVPA at school for all Maltese children is likely to be an important

  1. Pipeline integrity handbook risk management and evaluation

    CERN Document Server

    Singh, Ramesh

    2013-01-01

    Based on over 40 years of experience in the field, Ramesh Singh goes beyond corrosion control, providing techniques for addressing present and future integrity issues. Pipeline Integrity Handbook provides pipeline engineers with the tools to evaluate and inspect pipelines, safeguard the life cycle of their pipeline asset and ensure that they are optimizing delivery and capability. Presented in easy-to-use, step-by-step order, Pipeline Integrity Handbook is a quick reference for day-to-day use in identifying key pipeline degradation mechanisms and threats to pipeline integrity. The book begins

  2. Logistics aspects of petroleum pipeline operations

    Directory of Open Access Journals (Sweden)

    W. J. Pienaar

    2010-11-01

    Full Text Available The paper identifies, assesses and describes the logistics aspects of the commercial operation of petroleum pipelines. The nature of petroleum-product supply chains, in which pipelines play a role, is outlined and the types of petroleum pipeline systems are described. An outline is presented of the nature of the logistics activities of petroleum pipeline operations. The reasons for the cost efficiency of petroleum pipeline operations are given. The relative modal service effectiveness of petroleum pipeline transport, based on the most pertinent service performance measures, is offered. The segments in the petroleum-products supply chain where pipelines can play an efficient and effective role are identified.

  3. PIPELINES AS COMMUNICATION NETWORK LINKS

    Energy Technology Data Exchange (ETDEWEB)

    Kelvin T. Erickson; Ann Miller; E. Keith Stanek; C.H. Wu; Shari Dunn-Norman

    2005-03-14

    This report presents the results of an investigation into two methods of using the natural gas pipeline as a communication medium. The work addressed the need to develop secure system monitoring and control techniques between the field and control centers and to robotic devices in the pipeline. In the first method, the pipeline was treated as a microwave waveguide. In the second method, the pipe was treated as a leaky feeder or a multi-ground neutral and the signal was directly injected onto the metal pipe. These methods were tested on existing pipeline loops at UMR and Batelle. The results reported in this report indicate the feasibility of both methods. In addition, a few suitable communication link protocols for this network were analyzed.

  4. Pipeline for Contraceptive Development

    Science.gov (United States)

    Blithe, Diana L.

    2016-01-01

    The high rates of unplanned pregnancy reflect unmet need for effective contraceptive methods for women, especially for individuals with health risks such as obesity, diabetes, hypertension, and other conditions that may contraindicate use of an estrogen-containing product. Improvements in safety, user convenience, acceptability and availability of products remain important goals of the contraceptive development program. Another important goal is to minimize the impact of the products on the environment. Development of new methods for male contraception has the potential to address many of these issues with regard to safety for women who have contraindications to effective contraceptive methods but want to protect against pregnancy. It also will address a huge unmet need for men who want to control their fertility. Products under development for men would not introduce eco-toxic hormones in the waste water. Investment in contraceptive research to identify new products for women has been limited in the pharmaceutical industry relative to investment in drug development for other indications. Pharmaceutical R&D for male contraception was active in the 1990’s but was abandoned over a decade ago. The Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) has supported a contraceptive development program since 1969. Through a variety of programs including research grants and contracts, NICHD has developed a pipeline of new targets/products for male and female contraception. A number of lead candidates are under evaluation in the NICHD Contraceptive Clinical Trials Network (CCTN) (1–3). PMID:27523300

  5. Cervical cancer incidence after normal cytological sample in routine screening using SurePath, ThinPrep, and conventional cytology: population based study

    NARCIS (Netherlands)

    Rozemeijer, K.; Naber, S.K.; Penning, C.; Overbeek, L.I.H.; Looman, C.W.; Kok, I.M. de; Matthijsse, S.M.; Rebolj, M.; Kemenade, F.J. van; Ballegooijen, M. van

    2017-01-01

    Objective To compare the cumulative incidence of cervical cancer diagnosed within 72 months after a normal screening sample between conventional cytology and liquid based cytology tests SurePath and ThinPrep.Design Retrospective population based cohort study.Setting Nationwide network and registry

  6. Analysis of small-sample clinical genomics studies using multi-parameter shrinkage: application to high-throughput RNA interference screening

    NARCIS (Netherlands)

    van de Wiel, M.; Menezes, R.; van Olst, E.; van Beusechem, V.W.

    2013-01-01

    High-throughput (HT) RNA interference (RNAi) screens are increasingly used for reverse genetics and drug discovery. These experiments are laborious and costly, hence sample sizes are often very small. Powerful statistical techniques to detect siRNAs that potentially enhance treatment are currently

  7. Screening for Ataxia-Telangiectasia Mutations in a Population-Based Sample of Women with Early-Onset Breast Cancer

    Science.gov (United States)

    1999-09-01

    G, Itnyre J (1997) Prevalence and contribution of BRCA1 mutations in breast and ovarian cancer: results from three U.S. population-based case-control...GTTAAGAA two of these cases, AT1ILA and AT119LA, the families were consanguineous , and the mutations were homo- zygous, simplifying the interpretation...screening efficiency and expand significantly the number of cases to be screened. Assessment of the prevalence of ATM mutations in breast cancer

  8. Analytical decision model for sample size and effectiveness projections for use in planning a population-based randomized controlled trial of colorectal cancer screening.

    Science.gov (United States)

    Chiu, Sherry Y-H; Malila, Nea; Yen, Amy M-F; Anttila, Ahti; Hakama, Matti; Chen, H-H

    2011-02-01

    Population-based randomized controlled trials (RCTs) often involve enormous costs and long-term follow-up to evaluate primary end points. Analytical decision-simulated model for sample size and effectiveness projections based on primary and surrogate end points are necessary before planning a population-based RCT. Based on the study design similar to two previous RCTs, transition rates were estimated using a five-state natural history model [normal, preclinical detection phase (PCDP) Dukes' A/B, PCDP Dukes' C/D, Clinical Dukes' A/B and Clinical Dukes' C/D]. The Markov cycle tree was assigned transition parameters, variables related to screening and survival rate that simulated results of 10-year follow-up in the absence of screening for a hypothetical cohort aged 45-74 years. The corresponding screened arm was to simulate the results after the introduction of population-based screening for colorectal cancer with fecal occult blood test with stop screen design. The natural course of mean sojourn time for five-state Markov model were estimated as 2.75 years for preclinical Dukes' A/B and 1.38 years for preclinical Dukes' C/D. The expected reductions in mortality and Dukes' C/D were 13% (95% confidence intervals: 7-19%) and 26% (95% confidence intervals: 20-32%), respectively, given a 70% acceptance rate and a 90% colonoscopy referral rate. Sample sizes required were 86,150 and 65,592 subjects for the primary end point and the surrogate end point, respectively, given an incidence rate up to 0.0020 per year. The sample sizes required for primary and surrogate end points and the projection of effectiveness of fecal occult blood test for colorectal cancer screening were developed. Both are very important to plan a population-based RCT. © 2010 Blackwell Publishing Ltd.

  9. sRNAnalyzer-a flexible and customizable small RNA sequencing data analysis pipeline.

    Science.gov (United States)

    Wu, Xiaogang; Kim, Taek-Kyun; Baxter, David; Scherler, Kelsey; Gordon, Aaron; Fong, Olivia; Etheridge, Alton; Galas, David J; Wang, Kai

    2017-12-01

    Although many tools have been developed to analyze small RNA sequencing (sRNA-Seq) data, it remains challenging to accurately analyze the small RNA population, mainly due to multiple sequence ID assignment caused by short read length. Additional issues in small RNA analysis include low consistency of microRNA (miRNA) measurement results across different platforms, miRNA mapping associated with miRNA sequence variation (isomiR) and RNA editing, and the origin of those unmapped reads after screening against all endogenous reference sequence databases. To address these issues, we built a comprehensive and customizable sRNA-Seq data analysis pipeline-sRNAnalyzer, which enables: (i) comprehensive miRNA profiling strategies to better handle isomiRs and summarization based on each nucleotide position to detect potential SNPs in miRNAs, (ii) different sequence mapping result assignment approaches to simulate results from microarray/qRT-PCR platforms and a local probabilistic model to assign mapping results to the most-likely IDs, (iii) comprehensive ribosomal RNA filtering for accurate mapping of exogenous RNAs and summarization based on taxonomy annotation. We evaluated our pipeline on both artificial samples (including synthetic miRNA and Escherichia coli cultures) and biological samples (human tissue and plasma). sRNAnalyzer is implemented in Perl and available at: http://srnanalyzer.systemsbiology.net/. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

  10. Looking ahead: a case for human papillomavirus testing of self-sampled vaginal specimens as a cervical cancer screening strategy.

    Science.gov (United States)

    Gravitt, Patti E; Belinson, Jerome L; Salmeron, Jorge; Shah, Keerti V

    2011-08-01

    Even in the era of highly effective human papillomavirus (HPV) prophylactic vaccines, substantial reduction in worldwide cervical cancer mortality will only be realized if effective early detection and treatment of the millions of women already infected and the millions who may not receive vaccination in the next decade can be broadly implemented through sustainable cervical cancer screening programs. Effective programs must meet three targets: (i) at least 70% of the targeted population should be screened at least once in a lifetime, (ii) screening assays and diagnostic tests must be reproducible and sufficiently sensitive and specific for the detection of high-grade precursor lesions (i.e., CIN21), and (iii) effective treatment must be provided. We review the evidence that HPV DNA screening from swabs collected by the women in their home or village is sufficiently sound for consideration as a primary screening strategy in the developing world, with sensitivity and specificity for detection of CIN21 as good or better than Pap smear cytology and VIA. A key feature of a self-collected HPV testing strategy (SC-HPV) is the move of the primary screening activities from the clinic to the community. Efforts to increase the affordability and availability of HPV DNA tests, community education and awareness, development of strong partnerships between community advocacy groups, health care centers and regional or local laboratories, and resource appropriate strategies to identify and treat screen-positive women should now be prioritized to ensure successful public health translation of the technologic advancements in cervical cancer prevention.

  11. Analysis of several ways to minimize the scatter contribution in radiographic digital images of offshore pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Souza, Edmilson M.; Silva, Ademir X.; Lopes, Ricardo T., E-mail: emonteiro@nuclear.ufrj.b, E-mail: ademir@nuclear.ufrj.b, E-mail: Ricardo@lin.ufrj.b [Coordenacao dos Programas de Pos-Graduacao de Engenharia (PEN/COPPE/UFRJ), Rio de Janeiro, RJ (Brazil). Programa de Engenharia Nuclear; Correa, Samanda C.A., E-mail: scorrea@cnen.gov.b [Comissao Nacional de Energia Nuclear (DIAPI/CGMI/CNEN), Rio de Janeiro, RJ (Brazil). Coordenacao Geral de Instalacoes Medicas e Industriais. Div. de Aplicacoes Industriais

    2011-07-01

    The aim of this work is to evaluate, through MCNPX simulations, several ways to minimize the scatter contribution in radiographic digital images of offshore pipelines. The influence of liquid inside the pipes and water surrounded the pipelines in the scatter contribution will be analyzed. The use of lead screen behind the detector to reduce the backscattered radiation and filter between the radiation source and the pipes will be discussed. (author)

  12. Crude value management through pipeline systems

    Energy Technology Data Exchange (ETDEWEB)

    Segato, R. [Suncor Energy Marketing Inc., Calgary, AB (Canada)

    2009-07-01

    This presentation reviewed Suncor's integrated oil flow operations with particular focus on the best practices in crude oil quality management from source rocks to refineries. Suncor produces synthetic crude at its operations in Fort McMurray, Alberta. The crude reaches destinations across North America. The quality of injected and delivered crude varies because of pipeline and terminal logistics, which implies changes in valuation. Refinery planners, engineers and crude traders are faced with the challenge of maximizing profitability while minimizing risk. Refiners face a continuously changing landscape in terms of crude classifications, new commodity developments, batch interferences, shared tank bottoms and sampling limitations. tabs., figs.

  13. Bio-corrosion of water pipeline by sulphate-reducing bacteria in a ...

    African Journals Online (AJOL)

    This study investigates the presence of SRB in water, in a water pipeline and in the soil near the pipeline at a mining operation, under conditions that would be expected to be stable toward corrosion. Samples of water in pipes showed a high frequency of SRB. Cast iron coupons placed in pipes gave positive results for SRB ...

  14. Self-collected cervicovaginal sampling for site-of-care primary HPV-based cervical cancer screening: a pilot study in a rural underserved Greek population.

    Science.gov (United States)

    Chatzistamatiou, Kimon; Chatzaki, Εkaterini; Constantinidis, Τheocharis; Nena, Evangelia; Tsertanidou, Athena; Agorastos, Theodoros

    2017-11-01

    In the present pilot study, the feasibility of a site-of-care cervicovaginal self-sampling methodology for HPV-based screening was tested in 346 women residing in underserved rural areas of Northern Greece. These women provided self-collected cervicovaginal sample along with a study questionnaire. Following molecular testing, using the cobas® HPV Test, Roche®, HPV positive women, were referred to colposcopy and upon abnormal findings, to biopsy and treatment. Participation rate was 100%. Regular pap-test examination was reported for 17.1%. Among hrHPV testing, 11.9% were positive and colposcopy/biopsy revealed 2 CIN3 cases. Non-compliance was the most prevalent reason for no previous attendance. Most women reported non-difficulty and non-discomfort in self-sampling (77.6% and 82.4%, respectively). They would choose self-sampling over clinician-sampling (86.2%), and should self-sampling being available, they would test themselves more regularly (92.3%). In conclusion, self-sampling is feasible and well-accepted for HPV-based screening, and could increase population coverage in underserved areas, helping towards successful prevention.

  15. A Comparison of the Eysenck Personality Questionnaire and the Psychological Screening Inventory in a Delinquent Sample and a Comparison Group.

    Science.gov (United States)

    McGurk, Barry J.; Bolton, Neil

    1981-01-01

    Compared the scores of reformatory inmates and technical college students on the Eysenck Personality Questionnaire and the Psychological Screening Inventory. Two factors accounted for most of the variance. Neuroticism was common to both groups. The second factor in the delinquent group was extraversion. (Author/JAC)

  16. A color image processing pipeline for digital microscope

    Science.gov (United States)

    Liu, Yan; Liu, Peng; Zhuang, Zhefeng; Chen, Enguo; Yu, Feihong

    2012-10-01

    Digital microscope has found wide application in the field of biology, medicine et al. A digital microscope differs from traditional optical microscope in that there is no need to observe the sample through an eyepiece directly, because the optical image is projected directly on the CCD/CMOS camera. However, because of the imaging difference between human eye and sensor, color image processing pipeline is needed for the digital microscope electronic eyepiece to get obtain fine image. The color image pipeline for digital microscope, including the procedures that convert the RAW image data captured by sensor into real color image, is of great concern to the quality of microscopic image. The color pipeline for digital microscope is different from digital still cameras and video cameras because of the specific requirements of microscopic image, which should have the characters of high dynamic range, keeping the same color with the objects observed and a variety of image post-processing. In this paper, a new color image processing pipeline is proposed to satisfy the requirements of digital microscope image. The algorithm of each step in the color image processing pipeline is designed and optimized with the purpose of getting high quality image and accommodating diverse user preferences. With the proposed pipeline implemented on the digital microscope platform, the output color images meet the various analysis requirements of images in the medicine and biology fields very well. The major steps of color imaging pipeline proposed include: black level adjustment, defect pixels removing, noise reduction, linearization, white balance, RGB color correction, tone scale correction and gamma correction.

  17. 77 FR 19799 - Pipeline Safety: Pipeline Damage Prevention Programs

    Science.gov (United States)

    2012-04-02

    ... included excavation damage prevention. The Integrity Management for Gas Distribution, Report of Phase I...) The American Gas Association (AGA) The American Petroleum Institute (API) The American Public Gas... Locating Services, API, AOPL, INGAA, and several pipeline operators commented that PHMSA should develop the...

  18. HPV prevalence and genotype distribution in a population-based split-sample study of well-screened women using CLART HPV2 human papillomavirus genotype microarray system.

    Science.gov (United States)

    Bonde, Jesper; Rebolj, Matejka; Ejegod, Ditte Møller; Preisler, Sarah; Lynge, Elsebeth; Rygaard, Carsten

    2014-07-26

    Human papillomavirus (HPV) genotyping assays are becoming increasingly attractive for use in mass screening, as they offer a possibility to integrate HPV screening with HPV vaccine monitoring, thereby generating a synergy between the two main modes of cervical cancer prevention. The Genomica CLART HPV2 assay is a semi-automated PCR-based microarray assay detecting 35 high-risk and low-risk HPV genotypes. However, few reports have described this assay in cervical screening. An aim of the present study, Horizon, was to assess the prevalence of high-risk HPV infections in Copenhagen, Denmark, an area with a high background risk of cervical cancer where women aged 23-65 years are targeted for organized screening. Material from 5,068 SurePath samples of women participating in routine screening and clinical follow-up of cervical abnormalities was tested using liquid based cytology, CLART HPV2 and Hybrid Capture 2 (HC2). At least one of the 35 defined genotypes was detected by CLART in 1,896 (37%) samples. The most frequent high-risk genotypes were HPV 16 (7%), HPV 52 (5%), and HPV 31 (4%). The most frequent low-risk genotypes were HPV 53 (5%), HPV 61 (4%), and HPV 66 (3%). Among 4,793 women targeted by the screening program (23-65 years), 1,166 (24%) tested positive for one or more of the 13 high-risk genotypes. This proportion decreased from 40% at age 23-29 years to 10% at age 60-65 years. On HC2, 1,035 (20%) samples were positive for any high-risk and thus CLART showed a higher analytical sensitivity for 13 high-risk HPV genotypes than HC2, and this was found in all age-groups and in women normal cytology. CLART performed well with a positive reproducibility for high-risk genotypes of 86%, and a negative reproducibility of 97%. This report furthermore updates the genotype distribution in Denmark prior to the inclusion of the HPV-vaccinated cohorts into the screening program, and as such represents a valuable baseline for future vaccine impact assessment.

  19. Thermal calculations of underground oil pipelines

    Directory of Open Access Journals (Sweden)

    Moiseev Boris

    2017-01-01

    Full Text Available Operation of oil pipelines in the frozen soil causes heat exchange between the pipeline and the soil and formation of a melt zone which leads to deformation of pipelines. Terms of construction and operation of oil pipelines are greatly related to their temperature conditions. In this regard it is necessary to know the laws of formation of thawing halos around oil pipelines. Thus, elucidation of laws of formation of thawing halos around oil pipelines and determination of optimal conditions for their installation during construction in areas of permafrost in the north of Tyumen region is a very urgent task. The authors developed an algorithm and a computer program for construction of the temperature field of the frozen soil. Some problems have been solved basing on the obtained dependences and graphs of the dependence were constructed. Research and calculations made on the underground oil pipeline construction allowed the authors to give recommendations aimed at increasing the reliability of oil pipelines.

  20. Method and system for pipeline communication

    Science.gov (United States)

    Richardson,; John, G [Idaho Falls, ID

    2008-01-29

    A pipeline communication system and method includes a pipeline having a surface extending along at least a portion of the length of the pipeline. A conductive bus is formed to and extends along a portion of the surface of the pipeline. The conductive bus includes a first conductive trace and a second conductive trace with the first and second conductive traces being adapted to conformally couple with a pipeline at the surface extending along at least a portion of the length of the pipeline. A transmitter for sending information along the conductive bus on the pipeline is coupled thereto and a receiver for receiving the information from the conductive bus on the pipeline is also couple to the conductive bus.

  1. EVALUATION OF A RAPID SCREENING ASSAY FOR BACTERIAL IDENTIFICATION (DOT-ELISA IN FECAL SAMPLES FROM CHILDREN

    Directory of Open Access Journals (Sweden)

    Etelvina BOCCATTO

    1997-01-01

    Full Text Available With the objective of standardizing a Dot Enzyme-Linked Immunosorbent Assay (Dot-ELISA to detect antigens of fecal bacterial enteropathogens, 250 children, aged under 36 months and of both sexes, were studied; of which 162 had acute gastroenteritis. The efficacy of a rapid screening assay for bacterial enteropathogens (enteropathogenic Escherichia coli "EPEC", enteroinvasive Escherichia coli "EIEC", Salmonella spp. and Shigella spp. was evaluated. The fecal samples were also submitted to a traditional method of stool culture for comparison. The concordance index between the two techniques, calculated using the Kappa (k index for the above mentioned bacterial strains was 0.8859, 0.9055, 0.7932 and 0.7829 respectively. These values express an almost perfect degree of concordance for the first two and substantial concordance for the latter two, thus enabling this technique to be applied in the early diagnosis of diarrhea in infants. With a view to increasing the sensitivity and specificity of this immunological test, a study was made of the antigenic preparations obtained from two types of treatment: 1 deproteinization by heating; 2 precipitation and concentration of the lipopolysaccharide antigen (LPS using an ethanol-acetone solution, which was then heated in the presence of sodium EDTACom o objetivo de padronizar um Dot Enzyme-Linked Immunosorbent Assay (Dot-ELISA para a detecção de antígenos de enteropatógenos bacterianos fecais, estudaram-se 250 crianças, abaixo de 36 meses de idade, de ambos os sexos, 162 portadoras de gastroenterite aguda. Avaliou-se a eficácia de um teste rápido para bactérias enteropatógenas (Escherichia coli enteropatogênica "EPEC", Escherichia coli enteroinvasora" EIEC", Salmonella spp. e Shigella spp.. As amostras fecais foram também submetidas à metodologia tradicional de coprocultura para comparação. Os índices de concordância entre as 2 técnicas, calculado através do índice Kappa (k para as cepas

  2. The development of structural health monitoring (SHM) procedures for the structural integrity and maintenance repair of offshore ageing pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Abd Murad, Mahadi [Dept. of Applied Mechanics, School of Engineering, Cranfield Univ. (United Kingdom)

    2009-07-01

    In the oil and gas industry, pipelines are essential components of the energy supply chain. This infrastructure will still need to perform for many more decades, as the world demand for oil and gas continues to increase. Oil and gas pipeline operations are considered one of the highest risk activities in the industry. Any failure of a pipeline system will cause a significant impact to the environment and economy. However, many oil and gas pipelines are nearing the end of their design life but have many more years of production left. Despite the best designed and well maintained pipelines, the unavoidable defects such as metal loss due to corrosion, erosion, cracks and others mean structural integrity can be compromised. Operators need to be aware of the effects of these defects on their pipelines, and more importantly to be able to assess and monitor structural integrity. Pipeline monitoring is frequently restricted to visual inspection and mass or flow measurements leading to very limited capabilities to detect and locate pipeline failures such as leakages. As a result, pipeline failures are usually noticed only when the output flow is affected or when they have severe effects on the surrounding environment leading to potentially costly situations. The integrity assessment of oil and gas pipelines is well developed. Formerly, inspection and maintenance have been carried out at predefined intervals in order to ensure structural integrity. Today with the increasing availability of advanced sensor methods, pipeline operators have available very powerful and cost-effective tools. Structural Health Monitoring (SHM) can be used for rapid condition screening and aims to provide, in near real time, reliable information regarding the integrity of the structure. This paper reviews the development of SHM procedures in particular, introducing optical fiber sensors (FBG) and electrical sensors (electrical gauges) embedded between composite wrapping and parent material (i

  3. Saudi Aramco experience towards establishing Pipelines Integrity Management Systems (PIMS)

    Energy Technology Data Exchange (ETDEWEB)

    AlAhmari, Saad A. [Saudi Aramco, Dhahran (Saudi Arabia)

    2009-12-19

    Saudi Aramco pipelines network transports hydrocarbons to export terminals, processing plants and domestic users. This network faced several safety and operational-related challenges that require having a more effective Pipelines Integrity Management System (PIMS). Therefore Saudi Aramco decided to develop its PIMS on the basis of geographical information system (GIS) support through different phases, i.e., establishing the integrity management framework, risk calculation approach, conducting a gap analysis toward the envisioned PIMS, establishing the required scope of work, screening the PIMS applications market, and selecting suitable tools that satisfy expected deliverables, and implement PIMS applications. Saudi Aramco expects great benefits from implementing PIMS, e.g., enhancing safety, enhancing pipeline network robustness, optimizing inspection and maintenance expenditures, and facilitating pipeline management and the decision-making process. Saudi Aramco's new experience in adopting PIMS includes many challenges and lessons-learned associated with all of the PIMS development phases. These challenges include performing the gap analysis, conducting QA/QC sensitivity analysis for the acquired data, establishing the scope of work, selecting the appropriate applications and implementing PIMS. (author)

  4. Saudi Aramco experience towards establishing Pipelines Integrity Management System (PIMS)

    Energy Technology Data Exchange (ETDEWEB)

    Al-Ahmari, Saad A. [Saudi Aramco, Dhahran (Saudi Arabia)

    2009-07-01

    Saudi Aramco pipelines network transports hydrocarbons to export terminals, processing plants and domestic users. This network faced several safety and operational-related challenges that require having a more effective Pipelines Integrity Management System (PIMS). Therefore Saudi Aramco decided to develop its PIMS on the basis of geographical information system (GIS) support through different phases, i.e., establishing the integrity management framework, risk calculation approach, conducting a gap analysis toward the envisioned PIMS, establishing the required scope of work, screening the PIMS applications market, and selecting suitable tools that satisfy expected deliverables, and implement PIMS applications. Saudi Aramco expects great benefits from implementing PIMS, e.g., enhancing safety, enhancing pipeline network robustness, optimizing inspection and maintenance expenditures, and facilitating pipeline management and the decision-making process. Saudi Aramco's new experience in adopting PIMS includes many challenges and lessons-learned associated with all of the PIMS development phases. These challenges include performing the gap analysis, conducting QA/QC sensitivity analysis for the acquired data, establishing the scope of work, selecting the appropriate applications and implementing PIMS. (author)

  5. Equipment orders for pipelines and storage

    Energy Technology Data Exchange (ETDEWEB)

    1977-09-30

    Jiskoot Autocontrol Ltd.'s Dutch subsidiary, Jiskoot Automation N.V., has won two orders from West German firms for the construction of automatic crude oil sampling systems. For Nord-West Kavernenges. m.b.H., Jiskoot will supply a system to sample oil stored in a disused salt mine, i.e., the type 310 sampler which employs Buxton/BASEEFA certified electrical components throughout; for Mannesmann-Export A.G., it will supply a Type 330 PTB sampler, to be installed on a pipeline in Iraq. A second major contract has been won in Czechoslovakia by Serck Controls of Warwickshire, U.K. It totals 340,000 English pounds and covers the supply and installation of a telemtry and remote control system for supervision of the 30 km Litvinov-to-Kralupy gas pipeline. The previous system was commissioned in 1975. More than 260 Rotork Syncropak valve actuators, worth about 250,000 English pounds, have been ordered from this Bath-based firm, for use on a natural gas collection project in Iran.

  6. California Natural Gas Pipelines: A Brief Guide

    Energy Technology Data Exchange (ETDEWEB)

    Neuscamman, Stephanie [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Price, Don [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Pezzola, Genny [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Glascoe, Lee [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2013-01-22

    The purpose of this document is to familiarize the reader with the general configuration and operation of the natural gas pipelines in California and to discuss potential LLNL contributions that would support the Partnership for the 21st Century collaboration. First, pipeline infrastructure will be reviewed. Then, recent pipeline events will be examined. Selected current pipeline industry research will be summarized. Finally, industry acronyms are listed for reference.

  7. Risks associated with South African energy pipelines

    OpenAIRE

    2012-01-01

    M.Comm. The demand for products which are distributed through pipelines has increased worldwide over the last decade. These increases in demand have irrevocably impacted upon top management’s perceptions of risks associated with energy pipeline supply chains. Even in South Africa, the increase in demand for products such as diesel, jet fuel and petrol, which are supplied through the energy pipeline supply chains have increased the risks associated with energy pipeline supply chains. This s...

  8. Microorganisms Associated with Corrosion of Water Pipelines in ...

    African Journals Online (AJOL)

    Micro organisms associated with corrosion of water pipelines in Barkin-Sale, Bosso, Chanchaga, Keteren-Gwari, Maikunkele and Kwangila areas of Minna metropolis in Niger State of Nigeria were isolated. Corroded water pipes and soil samples were analysed for microbiological and physicochemical properties between ...

  9. HPV self-sampling or the Pap-smear: a randomized study among cervical screening nonattenders from lower socioeconomic groups in France.

    Science.gov (United States)

    Sancho-Garnier, H; Tamalet, C; Halfon, P; Leandri, F X; Le Retraite, L; Djoufelkit, K; Heid, P; Davies, P; Piana, L

    2013-12-01

    Today in France, low attendance to cervical screening by Papanicolaou cytology (Pap-smear) is a major contributor to the 3,000 new cervical cancer cases and 1,000 deaths that occur from this disease every year. Nonattenders are mostly from lower socioeconomic groups and testing of self-obtained samples for high-risk Human Papilloma virus (HPV) types has been proposed as a method to increase screening participation in these groups. In 2011, we conducted a randomized study of women aged 35-69 from very low-income populations around Marseille who had not responded to an initial invitation for a free Pap-smear. After randomization, one group received a second invitation for a free Pap-smear and the other group was offered a free self-sampling kit for HPV testing. Participation rates were significantly different between the two groups with only 2.0% of women attending for a Pap-smear while 18.3% of women returned a self-sample for HPV testing (p ≤ 0.001). The detection rate of high-grade lesions (≥CIN2) was 0.2‰ in the Pap-smear group and 1.25‰ in the self-sampling group (p = 0.01). Offering self-sampling increased participation rates while the use of HPV testing increased the detection of cervical lesions (≥CIN2) in comparison to the group of women receiving a second invitation for a Pap-smear. However, low compliance to follow-up in the self-sampling group reduces the effectiveness of this screening approach in nonattenders women and must be carefully managed. Copyright © 2013 UICC.

  10. Orthogonal identification of gunshot residue with complementary detection principles of voltammetry, scanning electron microscopy, and energy-dispersive X-ray spectroscopy: sample, screen, and confirm.

    Science.gov (United States)

    O'Mahony, Aoife M; Samek, Izabela A; Sattayasamitsathit, Sirilak; Wang, Joseph

    2014-08-19

    Field-deployable voltammetric screening coupled with complementary laboratory-based analysis to confirm the presence of gunshot residue (GSR) from the hands of a subject who has handled, loaded, or discharged a firearm is described. This protocol implements the orthogonal identification of the presence of GSR utilizing square-wave stripping voltammetry (SWSV) as a rapid screening tool along with scanning electron microscopy (SEM) and energy dispersive X-ray spectroscopy (EDX) to confirm the presence of the characteristic morphology and metal composition of GSR particles. This is achieved through the judicious modification of the working electrode of a carbon screen-printed electrode (CSPE) with carbon tape (used in SEM analysis) to fix and retain a sample. A comparison between a subject who has handled and loaded a firearm and a subject who has had no contact with GSR shows the significant variations in voltammetric signals and the presence or absence of GSR-consistent particles and constituent metals. This initial electrochemical screening has no effect on the integrity of the metallic particles, and SEM/EDX analysis conducted prior to and postvoltammetry show no differences in analytical output. The carbon tape is instrumental in retaining the GSR sample after electrochemical analysis, supported by comparison with orthogonal detection at a bare CSPE. This protocol shows great promise as a two-tier detection system for the presence of GSR from the hands of a subject, whereby initial screening can be conducted rapidly onsite by minimally trained operators; confirmation can follow at the same substrate to substantiate the voltammetric results.

  11. Pipelines cathodic protection design methodologies for impressed ...

    African Journals Online (AJOL)

    ... X42 pipeline with total external surface area of 226224m2. The computation further showed the current requirement was attainable with connection of 3620 anodes to set up a natural potential between sacrificial anode and pipeline. Keywords: Cathodic protection, corrosion, impressed current, pipeline, sacrificial anodes ...

  12. Customer service drives pipelines` reorganization

    Energy Technology Data Exchange (ETDEWEB)

    Share, J.

    1997-06-01

    The concept behind formation of Enron Transportation and Storage tells plenty about this new gas industry. When executives at the Enron Gas Pipeline Group considered plans last year to streamline operations by merging the support functions of Transwestern Pipeline and their other wholly owned pipeline company, Northern Natural Gas, seamless customer service was foremost on their agenda. Instead of worrying about whether employees would favor one pipeline over the other, perhaps to the detriment of customers, they simply created a new organization that everyone would swear the same allegiance to. The 17,000-mile, 4.1 Bcf/d Northern system serves the upper Midwest market and two major expansion projects were completed there last year. Transwestern is a 2,700-mile system with an eastward capacity of 1 Bcf/d and westward of 1.5 Bcf/, that traditionally served California markets. It also ties into Texas intrastate markets and, thanks to expansion of the San Juan lateral, to southern Rocky Mountain supplies. Although Enron Corp. continues to position itself as a full-service energy company, the Gas Pipeline Group continues to fuel much of corporate`s net income, which was $584 million last year. With ET and S comprising a significant portion of GPG`s income, it was vital that the merger of Northern`s 950 employees with Transwestern`s 250 indeed be a seamless one. It was not easy either psychologically or geographically with main offices in Omaha, NE and Houston as well as operations centers in Minneapolis, MN; Amarillo, TX; W. Des Moines, IA; and Albuquerque, NM. But the results have been gratifying, according to William R. Cordes, President of ET and S and Nancy L. Gardner, Executive Vice President of Strategic Initiatives.

  13. Rapid screening of natually occurring radioactive nuclides({sup 2}'3{sup 8}U, {sup 232}Th) in raw materials and by-products samples using XRF

    Energy Technology Data Exchange (ETDEWEB)

    Park, Ji Young; Lim, Chung Sup [Radiation Biotechnology and Applied Radioiostope Science, University of Science and Technology, Daejeon (Korea, Republic of); Lim, Jong Myoung; Ji, Young Yong; Chung, Kun Ho; Lee, Wan No; Kang, Mun Ja [Korea Atomic Energy Research Institute, Daejeon (Korea, Republic of); Jang, Byung Uck [Korea Institute of Nuclear Safety, Daejeon (Korea, Republic of)

    2016-12-15

    As new legislation has come into force implementing radiation safety management for the use of naturally occurring radioactive materials (NORM), it is necessary to establish a rapid and accurate measurement technique. Measurement of {sup 238}U and {sup 232}Th using conventional methods encounter the most significant difficulties for pretreatment (e.g., purification, speciation, and dilution/enrichment) or require time-consuming processes. Therefore, in this study, the applicability of ED-XRF as a non-destructive and rapid screening method was validated for raw materials and by-product samples. A series of experiments was conducted to test the applicability for rapid screening of XRF measurement to determine activity of {sup 238}U and {sup 23{sup 2}}Th based on certified reference materials (e.g., soil, rock, phosphorus rock, bauxite, zircon, and coal ash) and NORM samples commercially used in Korea. Statistical methods were used to compare the analytical results of ED-XRF to those of certified values of certified reference materials (CRM) and inductively coupled plasma mass spectrometry (ICP-MS). Results of the XRF measurement for {sup 238}U and {sup 232}Th showed under 20% relative error and standard deviation. The results of the U-test were statistically significant except for the case of U in coal fly ash samples. In addition, analytical results of {sup 238}U and {sup 232}Th in the raw material and by-product samples using XRF and the analytical results of those using ICP-MS (R{sup 2}≥0.95) were consistent with each other. Thus, the analytical results rapidly derived using ED-XRF were fairly reliable. Based on the validation results, it can be concluded that the ED-XRF analysis may be applied to rapid screening of radioactivities ({sup 238}U and {sup 232}Th) in NORM samples.

  14. Performance of three automated fourth-generation combined HIV antigen/antibody assays in large-scale screening of blood donors and clinical samples.

    Science.gov (United States)

    Malm, K; von Sydow, M; Andersson, S

    2009-04-01

    Since the introduction in the mid-1980s, HIV testing has gradually improved both in terms of sensitivity and specificity. The so-called fourth generation of tests, combined HIV antigen/antibody assays, has now been introduced. This study compares three automated combined assays with older third-generation antibody assays in large-scale screening. Serum samples from routine screening of blood and plasma donors and clinical samples were investigated for specificity evaluation. Three fourth-generation combination assays from one manufacturer were compared with three older third-generation antibody assays from the same manufacturer. More than 40 000 samples per assay were included. For sensitivity, selected panels of confirmed HIV-1- and HIV-2-positive samples as well as seroconversion samples (HIV-1) from commercial panels and also from patients who appeared during the evaluation were used. The specificities of the fourth-generation tests were 99.91% (AxSYM), 99.95% (ARCHITECT) and 99.97% (PRISM) after repeated testing. Some specificity variation between reagent batches was observed. All HIV-1-positive samples were reactive by the three fourth-generation systems. HIV-1 seroconversion samples and panels were reactive earlier than by antibody-only tests. As for HIV-2 samples, AxSYM failed to detect one (n = 40), whereas PRISM and ARCHITECT detected all (n = 16 for PRISM and n = 52 for ARCHITECT). The new HIV antigen/antibody combination assay systems were found to have high sensitivity and specificity. The instruments provided a rational and easy way of testing at large scale.

  15. Transforming microbial genotyping: a robotic pipeline for genotyping bacterial strains.

    Directory of Open Access Journals (Sweden)

    Brian O'Farrell

    Full Text Available Microbial genotyping increasingly deals with large numbers of samples, and data are commonly evaluated by unstructured approaches, such as spread-sheets. The efficiency, reliability and throughput of genotyping would benefit from the automation of manual manipulations within the context of sophisticated data storage. We developed a medium- throughput genotyping pipeline for MultiLocus Sequence Typing (MLST of bacterial pathogens. This pipeline was implemented through a combination of four automated liquid handling systems, a Laboratory Information Management System (LIMS consisting of a variety of dedicated commercial operating systems and programs, including a Sample Management System, plus numerous Python scripts. All tubes and microwell racks were bar-coded and their locations and status were recorded in the LIMS. We also created a hierarchical set of items that could be used to represent bacterial species, their products and experiments. The LIMS allowed reliable, semi-automated, traceable bacterial genotyping from initial single colony isolation and sub-cultivation through DNA extraction and normalization to PCRs, sequencing and MLST sequence trace evaluation. We also describe robotic sequencing to facilitate cherrypicking of sequence dropouts. This pipeline is user-friendly, with a throughput of 96 strains within 10 working days at a total cost of 200,000 items were processed by two to three people. Our sophisticated automated pipeline can be implemented by a small microbiology group without extensive external support, and provides a general framework for semi-automated bacterial genotyping of large numbers of samples at low cost.

  16. Transforming microbial genotyping: a robotic pipeline for genotyping bacterial strains.

    Science.gov (United States)

    O'Farrell, Brian; Haase, Jana K; Velayudhan, Vimalkumar; Murphy, Ronan A; Achtman, Mark

    2012-01-01

    Microbial genotyping increasingly deals with large numbers of samples, and data are commonly evaluated by unstructured approaches, such as spread-sheets. The efficiency, reliability and throughput of genotyping would benefit from the automation of manual manipulations within the context of sophisticated data storage. We developed a medium- throughput genotyping pipeline for MultiLocus Sequence Typing (MLST) of bacterial pathogens. This pipeline was implemented through a combination of four automated liquid handling systems, a Laboratory Information Management System (LIMS) consisting of a variety of dedicated commercial operating systems and programs, including a Sample Management System, plus numerous Python scripts. All tubes and microwell racks were bar-coded and their locations and status were recorded in the LIMS. We also created a hierarchical set of items that could be used to represent bacterial species, their products and experiments. The LIMS allowed reliable, semi-automated, traceable bacterial genotyping from initial single colony isolation and sub-cultivation through DNA extraction and normalization to PCRs, sequencing and MLST sequence trace evaluation. We also describe robotic sequencing to facilitate cherrypicking of sequence dropouts. This pipeline is user-friendly, with a throughput of 96 strains within 10 working days at a total cost of 200,000 items were processed by two to three people. Our sophisticated automated pipeline can be implemented by a small microbiology group without extensive external support, and provides a general framework for semi-automated bacterial genotyping of large numbers of samples at low cost.

  17. A high linearity 14-bit pipelined charge summation ADC

    Science.gov (United States)

    Duignan, Nigel; Farrell, Ronan

    2005-06-01

    Presented in this paper is a low power, area efficient pipeline analog-to-digital converter (ADC), utilising a charge summation technique and a switched-capacitor implementation. Utilising switched capacitor, a staircase ramp is produced caused by the switching capacitors and a fixed reference voltage, as opposed to a linear ramp. The advantage of the charge summation technique is the reduction in power usage as the charging time of the capacitors is small so for most of the sample period the circuit is quiescent. The paper presents the use of this architecture as a 14-bit pipelined ADC, which can sample data at a rate of 1 MSps. The pipeline architecture itself is novel as the typical sub-DAC is not required. The signal-to-noise ratio (SNR) of the ADC is improved by using a spatial over-sampling technique, which reduces the thermal noise effect on in the switched capacitor circuit. The effects of opamps finite gain and offset on the linearity of the ramp are reduced by employing a finite gain and offset compensated integrator architecture and through the use of low-resolution pipeline stages. The proposed architecture is a strong candidate for applications demanding high resolution with low power requirements.

  18. PTR-ToF-MS Coupled with an Automated Sampling System and Tailored Data Analysis for Food Studies: Bioprocess Monitoring, Screening and Nose-space Analysis.

    Science.gov (United States)

    Capozzi, Vittorio; Yener, Sine; Khomenko, Iuliia; Farneti, Brian; Cappellin, Luca; Gasperi, Flavia; Scampicchio, Matteo; Biasioli, Franco

    2017-05-11

    Proton Transfer Reaction (PTR), combined with a Time-of-Flight (ToF) Mass Spectrometer (MS) is an analytical approach based on chemical ionization that belongs to the Direct-Injection Mass Spectrometric (DIMS) technologies. These techniques allow the rapid determination of volatile organic compounds (VOCs), assuring high sensitivity and accuracy. In general, PTR-MS requires neither sample preparation nor sample destruction, allowing real time and non-invasive analysis of samples. PTR-MS are exploited in many fields, from environmental and atmospheric chemistry to medical and biological sciences. More recently, we developed a methodology based on coupling PTR-ToF-MS with an automated sampler and tailored data analysis tools, to increase the degree of automation and, consequently, to enhance the potential of the technique. This approach allowed us to monitor bioprocesses (e.g. enzymatic oxidation, alcoholic fermentation), to screen large sample sets (e.g. different origins, entire germoplasms) and to analyze several experimental modes (e.g. different concentrations of a given ingredient, different intensities of a specific technological parameter) in terms of VOC content. Here, we report the experimental protocols exemplifying different possible applications of our methodology: i.e. the detection of VOCs released during lactic acid fermentation of yogurt (on-line bioprocess monitoring), the monitoring of VOCs associated with different apple cultivars (large-scale screening), and the in vivo study of retronasal VOC release during coffee drinking (nosespace analysis).

  19. Trends in screen time on week and weekend days in a representative sample of Southern Brazil students.

    Science.gov (United States)

    Lopes, Adair S; Silva, Kelly S; Barbosa Filho, Valter C; Bezerra, Jorge; de Oliveira, Elusa S A; Nahas, Markus V

    2014-12-01

    Economic and technological improvements can help increase screen time use among adolescents, but evidence in developing countries is scarce. The aim of this study was to examine changes in TV watching and computer/video game use patterns on week and weekend days after a decade (2001 and 2011), among students in Santa Catarina, southern Brazil. A comparative analysis of two cross-sectional surveys that included 5 028 and 6 529 students in 2001 and 2011, respectively, aged 15-19 years. The screen time use indicators were self-reported. 95% Confidence intervals were used to compare the prevalence rates. All analyses were separated by gender. After a decade, there was a significant increase in computer/video game use. Inversely, a significant reduction in TV watching was observed, with a similar magnitude to the change in computer/video game use. The worst trends were identified on weekend days. The decrease in TV watching after a decade appears to be compensated by the increase in computer/video game use, both in boys and girls. Interventions are needed to reduce the negative impact of technological improvements in the lifestyles of young people, especially on weekend days. © The Author 2014. Published by Oxford University Press on behalf of Faculty of Public Health. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  20. Learning and context of use for small-screen leading displays on visual performance in a Chinese sample.

    Science.gov (United States)

    Chien, Yu-Hung

    2009-04-01

    Leading displays represent mechanisms for exhibiting temporal instead of spatial information to overcome the limited display space of mobile devices. Prior studies focused only on information presented but disregarded the influence of context of use and learnability. In this study, 12 Chinese-speaking college students were presented a small-screen mobile device that simultaneously showed 100 Chinese characters and a 30-character leading display. Analyzed were presentation rate (250, 350, and 450 characters per minute), presentation mode (character-by-character or word-by-word), and learning (5 practice sessions) by instructing the subjects to perform a static information search task to identify the location of target characters on the screen and through an evaluation of reading comprehension for the text presented in the leading display. There was no significant change in performance over the 5 days of practice, but the rate of presentation and word-by-word presentation significantly affected reading comprehension. Results indicated that none of the leading-display factors distracted subjects from the static information-search task, but they were influenced by comprehension of the leading-display content.

  1. Upstream pipelines : inspection, corrosion and integrity management

    Energy Technology Data Exchange (ETDEWEB)

    Paez, J.; Stephenson, M. [Talisman Energy Inc., Calgary, AB (Canada)] (comps.)

    2009-07-01

    Accurate inspection techniques are needed to ensure the integrity of pipelines. This working group discussed methods of reducing pipeline failures for a variety of pipes. A summary of recent pipeline performance statistics was presented, as well as details of third party damage and fiberglass pipe failures. A batch inhibitor joint industry project was described. The session demonstrated that integrity program need to be developed at the field-level as well as at the upper management level. Fiberglass pipeline failures are significant problem for pipeline operators. Corrosion monitoring, pigging and specific budgets are needed in order to ensure the successful management of pipeline integrity. New software developed to predict pipeline corrosion rates was discussed, and methods of determining mole fractions and flow regimes were presented. The sessions included updates from regulators and standards agencies as well as discussions of best practices, regulations, codes and standards related to pipeline integrity. The working group was divided into 4 sessions: (1) updates since 2007 with input from the Canadian Association of Petroleum Producers (CAPP) and the Upstream Pipeline Integrity Management Association (UPIMA); (2) integrity of non-metallic pipelines; (3) upstream pipeline integrity issues; and (4) hot topics. tabs., figs.

  2. Oil pipeline valve automation for spill reduction

    Energy Technology Data Exchange (ETDEWEB)

    Mohitpour, Mo; Trefanenko, Bill [Enbridge Technology Inc, Calgary (Canada); Tolmasquim, Sueli Tiomno; Kossatz, Helmut [TRANSPETRO - PETROBRAS Transporte S.A., Rio de Janeiro, RJ (Brazil)

    2003-07-01

    Liquid pipeline codes generally stipulate placement of block valves along liquid transmission pipelines such as on each side of major river crossings where environmental hazards could cause or are foreseen to potentially cause serious consequences. Codes, however, do not stipulate any requirement for block valve spacing for low vapour pressure petroleum transportation, nor for remote pipeline valve operations to reduce spills. A review of pipeline codes for valve requirement and spill limitation in high consequence areas is thus presented along with a criteria for an acceptable spill volume that could be caused by pipeline leak/full rupture. A technique for deciding economically and technically effective pipeline block valve automation for remote operation to reduce oil spilled and control of hazards is also provided. In this review, industry practice is highlighted and application of the criteria for maximum permissible oil spill and the technique for deciding valve automation thus developed, as applied to ORSUB pipeline is presented. ORSUB is one of the three initially selected pipelines that have been studied. These pipelines represent about 14% of the total length of petroleum transmission lines operated by PETROBRAS Transporte S.A. (TRANSPETRO) in Brazil. Based on the implementation of valve motorization on these three pipeline, motorization of block valves for remote operation on the remaining pipelines is intended, depending on the success of these implementations, on historical records of failure and appropriate ranking. (author)

  3. Development of 11-Plex MOL-PCR Assay for the Rapid Screening of Samples for Shiga Toxin-Producing Escherichia coli

    Directory of Open Access Journals (Sweden)

    Travis A Woods

    2016-08-01

    Full Text Available Strains of Shiga toxin-producing Escherichia coli (STEC are a serious threat to the public health, with approximately half of the STEC related food-borne illnesses attributable to contaminated beef. We developed an assay that was able to screen samples for several important STEC associated serogroups (O26, O45, O103, O104, O111, O121, O145, O157 and three major virulence factors (eae, stx1, stx2 in a rapid and multiplexed format using the Multiplex oligonucleotide ligation-PCR (MOL-PCR assay chemistry. This assay detected unique STEC DNA signatures and was meant to be used on samples from various sources related to beef production, providing a multiplex and high-throughput complement to the multiplex PCR assays currently in use. Multiplex oligonucleotide ligation-PCR (MOL-PCR is a nucleic acid-based assay chemistry that relies on flow cytometry/image cytometry and multiplex microsphere arrays for the detection of nucleic acid-based signatures present in target agents. The STEC MOL-PCR assay provided greater than 90% analytical specificity across all sequence markers designed when tested against panels of DNA samples that represent different STEC serogroups and toxin gene profiles. This paper describes the development of the 11-plex assay and the results of its validation. This highly multiplexed, but more importantly dynamic and adaptable screening assay allows inclusion of additional signatures as they are identified in relation to public health. As the impact of STEC associated illness on public health is explored additional information on classification will be needed on single samples; thus, this assay can serve as the backbone for a complex screening system.

  4. Russia: the pipeline diplomacy; Russie: la diplomatie du pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Bourdillon, Y

    2005-01-15

    First world producer of oil and gas, Russia wishes to use its mastery of energy distribution to recover its great power status. The oil and gas pipelines network is the basement used by Russia to build up its hegemony in Europe. The Russian oil and gas companies are also carrying out a long-term strategy of international expansion, in particular thanks to investments in the neighboring countries for the building of new infrastructures or the purchase of oil refineries. (J.S.)

  5. Measuring Word Complexity in Speech Screening: Single-Word Sampling to Identify Phonological Delay/Disorder in Preschool Children

    Science.gov (United States)

    Anderson, Carolyn; Cohen, Wendy

    2012-01-01

    Background: Children's speech sound development is assessed by comparing speech production with the typical development of speech sounds based on a child's age and developmental profile. One widely used method of sampling is to elicit a single-word sample along with connected speech. Words produced spontaneously rather than imitated may give a…

  6. Forensic Identification of Human Blood: comparison of two one-step presumptive tests for blood screening of crime scene samples.

    OpenAIRE

    Ana Flávia Belchior Andrade; Maria Emília Cambria Guimaro Siqueira; Luciano Chaves Arantes; Larissa Silva Queiroz; Rayane Luiza Viegas Silva; Eduardo Dias Ramalho

    2014-01-01

    Blood is the most common body fluid found at crime scenes. One-step presumptive tests have been designed as a rapid immunological test for the qualitative detection of human hemoglobin in stool samples (faecal occult blood) their usefulness for forensic purposes has been demonstrated before. In this study we compare Hexagon OBTI kit and FOB One-step Bioeasy kit sensitivity in the analysis of diluted blood samples. With Hexagon OBTI, positive test results are achieved in whole blood dilutions ...

  7. Analytic prognostic for petrochemical pipelines

    CERN Document Server

    Jaoude, Abdo Abou; El-Tawil, Khaled; Noura, Hassan; Ouladsine, Mustapha

    2012-01-01

    Pipelines tubes are part of vital mechanical systems largely used in petrochemical industries. They serve to transport natural gases or liquids. They are cylindrical tubes and are submitted to the risks of corrosion due to high PH concentrations of the transported liquids in addition to fatigue cracks due to the alternation of pressure-depression of gas along the time, initiating therefore in the tubes body micro-cracks that can propagate abruptly to lead to failure. The development of the prognostic process for such systems increases largely their performance and their availability, as well decreases the global cost of their missions. Therefore, this paper deals with a new prognostic approach to improve the performance of these pipelines. Only the first mode of crack, that is, the opening mode, is considered.

  8. Exchanger system for anhydrite pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Penet, A.

    1980-12-01

    This paper deals with the problem of roadway behaviour affecting airways, bottom roads and top roads in advancing faces in the HBNPC area. The support work in these zones used to be undertaken manually and involved a lot of man hours. These operations are now mechanized in the form of pneumatic stowing with anhydrite. The latter is delivered by pipeline using compressed air. The 'exchanger' is a sort of branching system in the pipeline enabling the flow to be switched from the top end of the face to the bottom end and vice versa (diagram). The associated operations can be undertaken with ease. The effect the system has on costs will soon be known. (In French)

  9. Forensic Identification of Human Blood: comparison of two one-step presumptive tests for blood screening of crime scene samples.

    Directory of Open Access Journals (Sweden)

    Ana Flávia Belchior Andrade

    2014-08-01

    Full Text Available Blood is the most common body fluid found at crime scenes. One-step presumptive tests have been designed as a rapid immunological test for the qualitative detection of human hemoglobin in stool samples (faecal occult blood their usefulness for forensic purposes has been demonstrated before. In this study we compare Hexagon OBTI kit and FOB One-step Bioeasy kit sensitivity in the analysis of diluted blood samples. With Hexagon OBTI, positive test results are achieved in whole blood dilutions up to 1:1.000. Sensitivity decreased with aged samples, if samples were not stored under low temperatures regardless of which presumptive test is used. Whole blood tests must take into consideration that “hook” effect may interfere. Comparing both tests, OBTI Hexagon Kit is more sensible to detect diluted blood, showing a wider detection window in all conditions. This is interesting when analyzing forensic samples as forensic analysts usually do not know about the history of the analyzed sample before its collection.

  10. NEW EUROPEAN PIPELINE PROJECT EASTRING

    OpenAIRE

    Karch, Lukáš; Varga, Augustín

    2018-01-01

    This paper focuses on the idea of a new European gas pipeline project called Eastring promoted by company Eustream. Eustream is the Slovak gas transmission system operator and has been one of the key players in European gas transmission from Russia to Europe in the last decades. Previous Russian-Ukrainian crisis resulted in reviewing gas flow directions from Russia to Europe in order to enhance the security of gas supplies to Europe. Russia plans to stop gas transmission to Europe via Ukraine...

  11. Miniaturizing 3D assay for high-throughput drug and genetic screens for small patient-derived tumor samples (Conference Presentation)

    Science.gov (United States)

    Rotem, Asaf; Garraway, Levi; Su, Mei-Ju; Basu, Anindita; Regev, Aviv; Struhl, Kevin

    2017-02-01

    Three-dimensional growth conditions reflect the natural environment of cancer cells and are crucial to be performed at drug screens. We developed a 3D assay for cellular transformation that involves growth in low attachment (GILA) conditions and is strongly correlated with the 50-year old benchmark assay-soft agar. Using GILA, we performed high-throughput screens for drugs and genes that selectively inhibit or increase transformation, but not proliferation. This phenotypic approach is complementary to our genetic approach that utilizes single-cell RNA-sequencing of a patient sample to identify putative oncogenes that confer sensitivity to drugs designed to specifically inhibit the identified oncoprotein. Currently, we are dealing with a big challenge in our field- the limited number of cells that might be extracted from a biopsy. Small patient-derived samples are hard to test in the traditional multiwell plate and it will be helpful to minimize the culture area and the experimental system. We managed to design a suitable microfluidic device for limited number of cells and perform the assay using image analysis. We aim to test drugs on tumor cells, outside of the patient body- and recommend on the ideal treatment that is tailored to the individual. This device will help to minimize biopsy-sampling volumes and minimize interventions in the patient's tumor.

  12. Advantages of analyzing postmortem brain samples in routine forensic drug screening-Case series of three non-natural deaths tested positive for lysergic acid diethylamide (LSD).

    Science.gov (United States)

    Mardal, Marie; Johansen, Sys Stybe; Thomsen, Ragnar; Linnet, Kristian

    2017-09-01

    Three case reports are presented, including autopsy findings and toxicological screening results, which were tested positive for the potent hallucinogenic drug lysergic acid diethylamide (LSD). LSD and its main metabolites were quantified in brain tissue and femoral blood, and furthermore hematoma and urine when available. LSD, its main metabolite 2-oxo-3-hydroxy-LSD (oxo-HO-LSD), and iso-LSD were quantified in biological samples according to a previously published procedure involving liquid-liquid extraction and ultra-high performance liquid chromatography-tandem mass spectrometry (UHPLC-MS/MS). LSD was measured in the brain tissue of all presented cases at a concentration level from 0.34-10.8μg/kg. The concentration level in the target organ was higher than in peripheral blood. Additional psychoactive compounds were quantified in blood and brain tissue, though all below toxic concentration levels. The cause of death in case 1 was collision-induced brain injury, while it was drowning in case 2 and 3 and thus not drug intoxication. However, the toxicological findings could help explain the decedent's inability to cope with brain injury or drowning incidents. The presented findings could help establish reference concentrations in brain samples and assist in interpretation of results from forensic drug screening in brain tissue. This is to the author's knowledge the first report of LSD, iso-LSD, and oxo-HO-LSD measured in brain tissue samples. Copyright © 2017 Elsevier B.V. All rights reserved.

  13. Self-sampling HPV test in women not undergoing Pap smear for more than 5 years and factors associated with under-screening in Taiwan.

    Science.gov (United States)

    Chou, Hung-Hsueh; Huang, Huei-Jean; Cheng, Hui-Hsin; Chang, Chee-Jen; Yang, Lan-Yan; Huang, Chu-Chun; Chang, Wei-Yang; Hsueh, Swei; Chao, Angel; Wang, Chin-Jung; Tang, Yun-Hsin; Lin, Cheng-Tao; Qiu, Jian-Tai; Chen, Min-Yu; Chen, Chao-Yu; Huang, Kuan-Gen; Tsai, Tzu-Chun; Chang, Ting-Chang; Lai, Chyong-Huey

    2016-12-01

    Under-utilization of Papanicolaou (Pap) smear causes a gap in the prevention of cervical neoplasms. A prospective population-based study was conducted investigating whether a self-sampling human papillomavirus (HPV) test was feasible for under-users of Pap smear and factors associated with under-screening in Taiwan. Women not having Pap smear screening for > 5 years were invited to participate in this study. Invitation letters and educational brochures were mailed to 4% of randomly selected eligible women from Taoyuan City, Taiwan, and responders received an HPV self-sampling kit. Those with HPV-positive results were recalled for a Pap smear and colposcopy. Between March 2010 and June 2012, 10,693 women were invited, 354 responded (3.3%), and 282 (2.6%) gave valid informed consent, answered the questionnaire, and submitted HPV samples. The median age of enrolled women was 48.1 years. Forty-seven women (16.7%) had a positive HPV test, and 14 women accepted further survey to find two CIN2+. Another two cases of CIN2+ were identified from a national registry database. The cost of direct mailing self-samplers was less than that done on request (from NT$434,866 to NT$164,229, response rate of 5% to 15%, respectively, versus NT$683,957 for detecting 1 CIN2+). Reasons for not attending screening included lack of time, embarrassment, assumed low risk, fear of positive results, and perceived potential pain. Among the responders, 90.8% found the method acceptable. Our study indicated that different approaches (e.g., direct mailing self-samplers to under-users and/or various educational interventions) must be explored to improve coverage in populations with culture characteristics similar to Taiwan. Copyright © 2015. Published by Elsevier B.V.

  14. Remedial investigation report on the abandoned nitric acid pipeline at the Oak Ridge Y-12 Plant, Oak Ridge, Tennessee

    Energy Technology Data Exchange (ETDEWEB)

    1993-12-01

    Upper East Fork Poplar Creek OU-2 consists of the Abandoned Nitric Acid Pipeline. This pipeline was installed in 1951 to transport liquid wastes {approximately} 4,800 ft from Buildings 9212, 9215, and 9206 to the S-3 Ponds. Materials known to have been discharged through the pipeline include nitric acid, depleted and enriched uranium, various metal nitrates, salts, and lead skimmings. A total of nineteen locations were chosen to be investigated along the pipeline for the first phase of this Remedial Investigation. Sampling consisted of drilling down to obtain a soil sample at a depth immediately below the pipeline. Additional samples were obtained deeper in the subsurface depending upon the depth of the pipeline, the depth of the water table, and the point of auger refusal. The nineteen samples collected below the pipeline were analyzed by the Y-12 Plant laboratory for metals, nitrate/nitrite, and isotopic uranium. Samples collected from three boreholes were also analyzed for volatile organic compounds because these samples produced a response with organic vapor monitoring equipment. The results of the baseline human health risk assessment for the Abandoned Nitric Acid Pipeline contaminants of potential concern show no unacceptable risks to human health via incidental ingestion of soil, inhalation of dust, dermal contact with the soil, or external exposure to radionuclides in the ANAP soils, under the construction worker and/or the residential land-use scenarios.

  15. Pipeline purging principles and practice

    Energy Technology Data Exchange (ETDEWEB)

    Johnson, J.E.; Svedeman, S.J.; Kuhl, C.A. [Southwest Research Inst., San Antonio, TX (United States); Gregor, J.G. [Gas Research Inst., Chicago, IL (United States); Lambeth, A.K. [Texas Eastern Transmission Corp., Houston, TX (United States)

    1996-12-31

    Gas purging, a process of displacing one gas by another gas, occurs on a routine basis in the natural gas industry when pipelines are purged into and out of service. In a project sponsored by the Gas Research Institute and in cooperation with the American Gas Association (A.G.A.) the purging practices as outlined in the A.G.A.`s Purging Principles and Practices manual are being reviewed because many of today`s pipeline purging operations occur under conditions not addressed directly in the manual. The program focus is on the purging procedures outlined in Chapter 8 of the manual entitled Gas Transmission and Distribution pipes. The technical objective of the project is to develop an understanding of the scientific principles upon which safe, practical purging practices can be based. Direct displacement and inert gas slug purging operations are explained in terms of dispersion and mixing parameters and their relationship to the gas velocity. Field data is compared to the results of an analytical mixing model. Computer software for planning safe and cost effective pipeline purges has been developed. Finally, recommendations for revising Chapter 8 of the A.G.A. manual are presented.

  16. Shore approach of Camarupim pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Bernardi, Tiaraju P.; Oliveira Neto, Vasco A. de; Siqueira, Jakson [Petroleo Brasileiro S.A. (PETROBRAS), Rio de Janeiro, RJ (Brazil)

    2009-07-01

    Camarupim Field is located in the northern portion of Espirito Santo Basin and was discovered from the drilling of the well 1-ESS-164 in 2006. It is a gas field which start of the production is in mid of 2009. The production unit will be a FPSO (Floating Production, Storage and Offloading) and the gas will flow through a pipeline with diameter ranging from 12 inches and 24 inches with approximately 60 km long, from the FPSO Cidade de Sao Mateus to UTGC (Unit for Treatment of Gas Cacimbas-Linhares-ES). The FPSO will have processing capacity of 10MMm3/day of gas. Due to the approach of the pipeline in the continental portion, located in an environmental protection area and place of spawning of sea turtles, the connection between the stretch of sea and land pipeline running through a shore approach, known and proven technique of horizontal directional drilling about 950m in length. This paper will be shown the assumptions adopted, the technique employed, the challenges faced by the team and the lessons learned to build the directional hole. (author)

  17. Methylation analysis and HPV genotyping of self-collected cervical samples from women not responding to screening invitation and review of the literature.

    Science.gov (United States)

    Del Mistro, Annarosa; Frayle, Helena; Rizzi, Martina; Fantin, Gianpiero; Ferro, Antonio; Angeletti, Paolo Matteo; Giorgi Rossi, Paolo; Altobelli, Emma

    2017-01-01

    To assess the feasibility of partial HPV genotyping and methylation analysis of CADM1, MAL, and miR124-2 genes as triage tests in assaying self-collected cervical samples positive for high-risk HPV on primary screening, and to review the literature regarding host cellular gene methylation analysis of self-collected cervical samples. Women residing in North-East Italy who had failed to respond to the invitation to participate in an organized population-based program were invited to provide a self-sample. Their stored baseline (self-collected) and follow-up (clinician-collected) cervical samples were included in the study. DNA was extracted from HPV-positive (Qiagen's Hybrid Capture 2, HC2) samples. Partial genotyping with separate detection of HPV types 16 and 18 was performed with a hybrid capture-based method and a quantitative PCR assay. Methylation was assayed with a quantitative methylation-specific PCR. High-risk HPV infection was detected in 48% of baseline and 71% of follow-up HC2-positive samples. Methylation was demonstrated respectively in 15% and 23.5% of baseline and follow-up samples and chiefly involved a single gene (miR124-2). Invalid quantitative PCR results were recorded in 5% of self-collected samples. The specificity of miR124-1, MAL, and CADM1 methylation was 84%, 94%, and 98%, respectively, and the specificity of the three markers combined was 84%. Sensitivity was not estimated due to the lack of CIN2+ samples. The systematic review showed that different methylation assays yield different accuracy values. Self-collected samples are suitable for methylation assays included in reflex triage testing. The reproducibility and accuracy of the methylation tests described in the literature should be improved.

  18. Low-parachor solvents extraction and thermostated micro-thin-layer chromatography separation for fast screening and classification of spirulina from pharmaceutical formulations and food samples.

    Science.gov (United States)

    Zarzycki, Paweł K; Zarzycka, Magdalena B; Clifton, Vicki L; Adamski, Jerzy; Głód, Bronisław K

    2011-08-19

    The goal of this paper is to demonstrate the separation and detection capability of eco-friendly micro-TLC technique for the classification of spirulina and selected herbs from pharmaceutical and food products. Target compounds were extracted using relatively low-parachor liquids. A number of the spirulina samples which originated from pharmaceutical formulations and food products, were isolated using a simple one step extraction with small volume of methanol, acetone or tetrahydrofuran. Herb samples rich in chlorophyll dyes were analyzed as reference materials. Quantitative data derived from micro-plates under visible light conditions and after iodine staining were explored using chemometrics tools including cluster analysis and principal components analysis. Using this method we could easily distinguish genuine spirulina and non-spirulina samples as well as fresh from expired commercial products and furthermore, we could identify some biodegradation peaks appearing on micro-TLC profiles. This methodology can be applied as a fast screening or fingerprinting tool for the classification of genuine spirulina and herb samples and in particular may be used commercially for the rapid quality control screening of products. Furthermore, this approach allows low-cost fractionation of target substances including cyanobacteria pigments in raw biological or environmental samples for preliminary chemotaxonomic investigations. Due to the low consumption of the mobile phase (usually less than 1 mL per run), this method can be considered as environmentally friendly analytical tool, which may be an alternative for fingerprinting protocols based on HPLC machines and simple separation systems involving planar micro-fluidic or micro-chip devices. Copyright © 2011 Elsevier B.V. All rights reserved.

  19. Rapid, sensitive and reproducible method for point-of-collection screening of liquid milk for adulterants using a portable Raman spectrometer with novel optimized sample well

    Science.gov (United States)

    Nieuwoudt, Michel K.; Holroyd, Steve E.; McGoverin, Cushla M.; Simpson, M. Cather; Williams, David E.

    2017-02-01

    Point-of-care diagnostics are of interest in the medical, security and food industry, the latter particularly for screening food adulterated for economic gain. Milk adulteration continues to be a major problem worldwide and different methods to detect fraudulent additives have been investigated for over a century. Laboratory based methods are limited in their application to point-of-collection diagnosis and also require expensive instrumentation, chemicals and skilled technicians. This has encouraged exploration of spectroscopic methods as more rapid and inexpensive alternatives. Raman spectroscopy has excellent potential for screening of milk because of the rich complexity inherent in its signals. The rapid advances in photonic technologies and fabrication methods are enabling increasingly sensitive portable mini-Raman systems to be placed on the market that are both affordable and feasible for both point-of-care and point-of-collection applications. We have developed a powerful spectroscopic method for rapidly screening liquid milk for sucrose and four nitrogen-rich adulterants (dicyandiamide (DCD), ammonium sulphate, melamine, urea), using a combined system: a small, portable Raman spectrometer with focusing fibre optic probe and optimized reflective focusing wells, simply fabricated in aluminium. The reliable sample presentation of this system enabled high reproducibility of 8% RSD (residual standard deviation) within four minutes. Limit of detection intervals for PLS calibrations ranged between 140 - 520 ppm for the four N-rich compounds and between 0.7 - 3.6 % for sucrose. The portability of the system and reliability and reproducibility of this technique opens opportunities for general, reagentless adulteration screening of biological fluids as well as milk, at point-of-collection.

  20. An ultra-short screening version of the Recalled Parental Rearing Behavior questionnaire (FEE-US and its factor structure in a representative German sample

    Directory of Open Access Journals (Sweden)

    Petrowski Katja

    2012-11-01

    Full Text Available Abstract Background The Recalled Parental Rearing Behavior questionnaire (FEE, [1,2] assesses perceived parental rearing behavior separately for each parent. An ultra-short screening version (FEE-US with the same three scales each for the mother and the father is reported and factor-analytically validated. Methods N = 4,640 subjects aged 14 to 92 (M = 48.4 years were selected by the random-route sampling method. The ultra-short questionnaire version was derived from the long version through item and factor analyses. In a confirmatory factor analysis framework, the hypothesized three-factorial structure was fitted to the empirical data and tested for measurement invariance, differential item functioning, item discriminability, and convergent and discriminant factorial validity. Effects of gender or age were assessed using MANOVAs. Results The a-priori hypothesized model resulted in mostly adequate overall fit. Neither gender nor age group yielded considerable effects on the factor structure, but had small effects on means of raw score sums. Factorial validities could be confirmed. Scale sums are well-suited to rank respondents along the respective latent dimension. Conclusion The structure of the long version with the factors Rejection & Punishment, Emotional Warmth, and Control & Overprotection could be replicated for both father and mother items in the ultra-short screening version using confirmatory factor analyses. These results indicate that the ultra-short screening version is a time-saving and promising screening instrument for research settings and in individual counseling. However, the shortened scales do not necessarily represent the full spectrum covered by the full-scale dimensions.

  1. Strip specimen tests for pipeline materials and girth welds

    Energy Technology Data Exchange (ETDEWEB)

    Mohr, William C. [Edison Welding Institute (EWI), Columbus, Ohio (United States)

    2009-07-01

    Strip specimen testing of pipeline materials has been widely applied as a method of getting data relevant to the performance of pipelines under axial direction loading. Comparisons of strip specimen against smaller standard tests (round tensile bar, fracture toughness specimens, polished round bars) and against full-scale or large-scale testing will be explored. Data from early-generation pipe welds from the 1920's to the 1940's to the most recent materials for offshore reeled pipe will be used for examples. Strip samples can provide full thickness information to take account of varying material properties or imperfection distribution through the thickness. Strip samples can also accommodate measurement of effects of the original surface finish or weld surface shape. Strip samples have more design flexibility than standard tests, but must be designed to limit stress concentrations and effects of local bending. (author)

  2. Preliminary evaluation of a lateral flow immunoassay device for screening urine samples for the presence of sulphamethazine

    NARCIS (Netherlands)

    O'Keeffe, M.; Crabbe, P.; Salden, M.; Wichers, J.; Peteghem, van C.; Kohen, F.; Pieraccini, G.

    2003-01-01

    A lateral flow immunoassay (LFIA) device was developed and applied to testing urine samples for residues of the antimicrobial sulphamethazine (SMZ). This report describes the preparation of a rat monoclonal antibody to SMZ and its characterisation in an ELISA format. Apart from SMZ, the antibody

  3. Preliminary evaluation of a lateral flow immunoassay device for screening urine samples for the presence of sulphamethazine.

    Science.gov (United States)

    O'Keeffe, M; Crabbe, P; Salden, M; Wichers, J; Van Peteghem, C; Kohen, F; Pieraccini, G; Moneti, G

    2003-07-01

    A lateral flow immunoassay (LFIA) device was developed and applied to testing urine samples for residues of the antimicrobial sulphamethazine (SMZ). This report describes the preparation of a rat monoclonal antibody to SMZ and its characterisation in an ELISA format. Apart from SMZ, the antibody showed high (> or =50%) cross-reactivity to N4-acetyl-sulphamethazine (55%), sulphamerazine (59%) and sulphisoxazole (50%) and lower cross-reactivity of 18% to sulphachlorpyridazine and sulphadiazine. The LFIA device consisted of a nitrocellulose membrane spotted with SMZ-ovalbumin and goat anti-mouse antibody as capture line and control line, respectively. Mouse anti-rat IgG F(ab')2 fragment specific antibody, adsorbed to colloidal carbon, was used as the detection ligand in the LFIA. The LFIA device had a cut-off value of 6.3 ng/ml in diluted (1/10) urine. Urine samples from SMZ-treated pigs, and bovine and porcine urine samples fortified with SMZ were used for a blind, four-laboratory evaluation of the performance of the LFIA device. Concentrations of SMZ in the test samples (n=29), as determined by LC-MS/MS, ranged from 0 (LFIA device showed an overall sensitivity of 100%, a specificity of 71%, and positive and negative prediction values of 73% and 100%, respectively. The LFIA device has been fabricated as a test kit for determining SMZ residues in animals produced for slaughter.

  4. Diversity of reductive dehalogenase genes from environmental samples and enrichment cultures identified with degenerate primer PCR screens.

    Directory of Open Access Journals (Sweden)

    Laura Audrey Hug

    2013-11-01

    Full Text Available Reductive dehalogenases are the critical enzymes for anaerobic organohalide respiration, a microbial metabolic process that has been harnessed for bioremediation efforts to resolve chlorinated solvent contamination in groundwater and is implicated in the global halogen cycle. Reductive dehalogenase sequence diversity is informative for the dechlorination potential of the site or enrichment culture. A suite of degenerate PCR primers targeting a comprehensive curated set of reductive dehalogenase genes was designed and applied to twelve DNA samples extracted from contaminated and pristine sites, as well as six enrichment cultures capable of reducing chlorinated compounds to non-toxic end-products. The amplified gene products from four environmental sites and two enrichment cultures were sequenced using Illumina HiSeq, and the reductive dehalogenase complement of each sample determined. The results indicate that the diversity of the reductive dehalogenase gene family is much deeper than is currently accounted for: one-third of the translated proteins have less than 70% pairwise amino acid identity to database sequences. Approximately 60% of the sequenced reductive dehalogenase genes were broadly distributed, being identified in four or more samples, and often in previously sequenced genomes as well. In contrast, 17% of the sequenced reductive dehalogenases were unique, present in only a single sample and bearing less than 90% pairwise amino acid identity to any previously identified proteins. Many of the broadly distributed reductive dehalogenases are uncharacterized in terms of their substrate specificity, making these intriguing targets for further biochemical experimentation. Finally, comparison of samples from a contaminated site and an enrichment culture derived from the same site eight years prior allowed examination of the effect of the enrichment process.

  5. Screening for HIV, hepatitis B and syphilis on dried blood spots: A promising method to better reach hidden high-risk populations with self-collected sampling.

    Directory of Open Access Journals (Sweden)

    Inge H M van Loo

    Full Text Available Many people at high risk for sexually transmitted infections (STIs, e.g., men who have sex with men (MSM, are not optimally reached by current sexual health care systems with testing. To facilitate testing by home-based sampling or sampling in outreach setting we evaluated dried blood spots (DBS, a method for self-collected blood sampling for serological screening of HIV, hepatitis B (HBV and syphilis. The aims of this study were to assess the acceptability and feasibility of self-collected DBS and to compare the test results for screening of HIV, HBV and syphilis from DBS with blood drawn by venous puncture.DBS were collected from men who have sex with men (MSM, visiting the STI clinic of the public health service South Limburg (n = 183 and HIV positive and HBV positive patients (n = 34, visiting the outpatient clinics of the Maastricht University Medical Centre in the period January 2012-April 2015. The 93 first participating MSM visiting the STI clinic were asked to fill in a questionnaire about the feasibility and acceptability about self-collection of DBS in a setting without going to a health care facility and were asked to collect the DBS themselves. Serological screening tests for HIV (HIV combi PT, Roche, HBV (HBsAg, Roche and syphilis (Treponema pallidum Ig, Biokit 3.0 were performed on DBS and on blood drawn by venous puncture, which was routinely taken for screening.In total 217 participants were included in the study with a median age of 40 years (range between 17-80. Of MSM 84% agreed that it was clear and easy to do the finger-prick, while 53% agreed that it was clear and easy to apply the blood onto the DBS card. Also, 80% of MSM would use the bloodspot test again. In 91% (198 of DBS, sufficient material was collected to perform the three tests. No difference was observed in DBS quality between self-collected DBS and health care worker collected DBS. For HIV (n = 195 DBS-serum pairs sensitivity and specificity were 100%. For HBV

  6. Screening for personality disorder in a sample of incarcerated male youth: preliminary validation of the Standardised Assessment of Personality-Abbreviated Scale (SAPAS)

    DEFF Research Database (Denmark)

    Kongerslev, Mickey; Bo, Sune; Simonsen, Erik

    2011-01-01

    Aims: To test the validity of an age-appropriate adaptation of the Standardised Assessment of Personality - Abbreviated Scale (SAPAS) in a sample of incarcerated male youth Method: A sample of incarcerated boys, age 15 to 18, were administered the SAPAS by social workers from the participating...... prisons and secure institutions Within one week a clinical psychologist administered the Structured Clinical Inter-view for DSM-IV Personality Disorders (SCID-II) and the Psychopathy Checklist: Youth Version (PCL:YV) to assess for personality disorders and psychopathy In order to control for confounding......, including assessment of the sensitivity and specificity of the SAPAS for various cut-off scores, will be presented Conclusions: The study provides a basis for preliminary conclusions regarding the validity of SAPAS as a brief routine screen for personality disorders amongst incarcerated male youth...

  7. Nanoparticle-assisted laser desorption/ionization mass spectrometry: Novel sample preparation methods and nanoparticle screening for plant metabolite imaging

    Energy Technology Data Exchange (ETDEWEB)

    Yagnik, Gargey B. [Iowa State Univ., Ames, IA (United States)

    2016-02-19

    The main goal of the presented research is development of nanoparticle based matrix-assisted laser desorption ionization-mass spectrometry (MALDI-MS). This dissertation includes the application of previously developed data acquisition methods, development of novel sample preparation methods, application and comparison of novel nanoparticle matrices, and comparison of two nanoparticle matrix application methods for MALDI-MS and MALDI-MS imaging.

  8. Land use planning for pipelines : a guideline for local authorities, developers and pipeline operators

    Energy Technology Data Exchange (ETDEWEB)

    Kalra, S. (ed.) [Canadian Standards Association, Mississauga, ON (Canada)

    2004-08-01

    This document is intended for local authorities who deal with issues of land regulation and public safety near pipelines. Input was provided by representatives of the pipeline industry, government agencies, municipalities, planners, developers and academics. The document emphasizes the importance of continual communication by key stakeholders to reduce the potential for conflicts and costs, and to ensure that available access is maintained along the pipeline's right-of-way so that pipelines can be constructed, maintained or operated in an efficient manner. This document also outlines the significance of recognizing land uses adjacent to the pipeline right-of-way. It provides guidelines in the following subject areas: (1) roles and responsibilities for key stakeholders, (2) the pipeline industry, (3) products transported in pipelines, (4) land use planning issues regarding pipelines, and (5) sources of additional information. refs., figs.

  9. Dual NRASQ61R and BRAFV600E mutation-specific immunohistochemistry completes molecular screening in melanoma samples in a routine practice.

    Science.gov (United States)

    Uguen, Arnaud; Guéguen, Paul; Legoupil, Delphine; Bouvier, Stéphanie; Costa, Sebastian; Duigou, Sandrine; Lemasson, Gilles; Ledé, Françoise; Sassolas, Bruno; Talagas, Matthieu; Férec, Claude; Le Maréchal, Cédric; De Braekeleer, Marc; Marcorelles, Pascale

    2015-11-01

    NRAS and BRAF mutational status has become mandatory to treat patients with metastatic melanomas. Mutation-specific immunohistochemistry (IHC) can help analyze challenging tumor samples. We report our experience integrating NRASQ61R (SP174) and BRAFV600E (VE1) IHC in routine practice in a cancer molecular genetic platform. All samples screened for BRAF and NRAS mutations during the year 2014 were analyzed by IHC and pyrosequencing, with an independent analysis of the 2 methods. Cases with first-line discordant results benefited from a complementary second-round IHC and next-generation sequencing (NGS) with a final interpretation taking into account the results of pyrosequencing, IHC, NGS, and quantification of the tumor cells. We analyzed 111 consecutive formalin-fixed and paraffin-embedded melanoma samples from 101 patients. Twenty-two and 11 samples were concordant for BRAFV600E and NRASQ61R mutations, respectively. Second-round analyses of 9 discordant and 1 molecularly inconclusive samples allowed conclusion in 4 further mutated samples (2 BRAFV600E and 2 NRASQ61R). A sample remained NRASQ61R IHC negative but NRASQ61R mutated with molecular methods. Overall, BRAFV600 and NRASQ61 mutation frequencies were 31.7% and 30.7%, respectively. When compared to molecular results, the sensitivity and specificity of IHC were 100% for BRAFV600E IHC and 92.3% and 98.9% for NRASQ61R IHC, respectively. IHC interpretation required a more stringent cutoff for BRAFV600E IHC than NRASQ61R to minimize false results. We conclude that NRASQ61R and BRAFV600E IHC coupled with NGS allow detection of mutations in melanoma challenging samples. Copyright © 2015 Elsevier Inc. All rights reserved.

  10. Field sludge characterization obtained from inner of pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Nava, N.; Sosa, E.; Alamilla, J.L. [Instituto Mexicano del Petroleo, Programa de Integridad de Ductos, Eje Central Lazaro Cardenas Norte 152, San Bartolo Atepehuacan, C.P. 07730 (Mexico); Knigth, C. [PEMEX Refinacion, Avenida Marina Nacional 329, Edificio B-2, Piso 11, C.P. 11311 (Mexico); Contreras, A. [Instituto Mexicano del Petroleo, Programa de Integridad de Ductos, Eje Central Lazaro Cardenas Norte 152, San Bartolo Atepehuacan, C.P. 07730 (Mexico)], E-mail: acontrer@imp.mx

    2009-11-15

    Physicochemical characterization of sludge obtained from refined hydrocarbons transmission pipeline was carried out through Moessbauer spectroscopy and X-ray diffraction. The Moessbauer and X-ray patterns indicate the presence of corrosion products composed of different iron oxide and sulfide phases. Hematite ({alpha}-Fe{sub 2}O{sub 3}), magnetite (Fe{sub 3}O{sub 4}), maghemite ({gamma}-Fe{sub 2}O{sub 3}), magnetic and superparamagnetic goethite ({alpha}-FeOOH), pyrrhotite (Fe{sub 1-x}S), akaganeite ({beta}-FeOOH), and lepidocrocite ({gamma}-FeOOH) were identified as corrosion products in samples obtained from pipeline transporting Magna and Premium gasoline. For diesel transmission pipeline, hematite, magnetite, and magnetic goethite were identified. Corrosion products follow a simple reaction mechanism of steel dissolution in aerated aqueous media at a near-neutral pH. Chemical composition of the corrosion products depends on H{sub 2}O and sulfur inherent in fluids (traces). These results can be useful for decision-making with regard to pipeline corrosion control.

  11. Transmission pipeline calculations and simulations manual

    CERN Document Server

    Menon, E Shashi

    2014-01-01

    Transmission Pipeline Calculations and Simulations Manual is a valuable time- and money-saving tool to quickly pinpoint the essential formulae, equations, and calculations needed for transmission pipeline routing and construction decisions. The manual's three-part treatment starts with gas and petroleum data tables, followed by self-contained chapters concerning applications. Case studies at the end of each chapter provide practical experience for problem solving. Topics in this book include pressure and temperature profile of natural gas pipelines, how to size pipelines for specified f

  12. A quick guide to pipeline engineering

    CERN Document Server

    Alkazraji, D

    2008-01-01

    Pipeline engineering requires an understanding of a wide range of topics. Operators must take into account numerous pipeline codes and standards, calculation approaches, and reference materials in order to make accurate and informed decisions.A Quick Guide to Pipeline Engineering provides concise, easy-to-use, and accessible information on onshore and offshore pipeline engineering. Topics covered include: design; construction; testing; operation and maintenance; and decommissioning.Basic principles are discussed and clear guidance on regulations is provided, in a way that will

  13. Tubular lining material for pipelines having bends

    Energy Technology Data Exchange (ETDEWEB)

    Moringa, A.; Sakaguchi, Y.; Hyodo, M.; Yagi, I.

    1987-03-24

    A tubular lining material for pipelines having bends or curved portions comprises a tubular textile jacket made of warps and wefts woven in a tubular form overlaid with a coating of a flexible synthetic resin. It is applicable onto the inner surface of a pipeline having bends or curved portions in such manner that the tubular lining material with a binder onto the inner surface thereof is inserted into the pipeline and allowed to advance within the pipeline, with or without the aid of a leading rope-like elongated element, while turning the tubular lining material inside out under fluid pressure. In this manner the tubular lining material is applied onto the inner surface of the pipeline with the binder being interposed between the pipeline and the tubular lining material. The lining material is characterized in that a part of all of the warps are comprised of an elastic yarn around which, over the full length thereof, a synthetic fiber yarn or yarns have been left-and/or right-handedly coiled. This tubular lining material is particularly suitable for lining a pipeline having an inner diameter of 25-200 mm and a plurality of bends, such as gas service pipelines or house pipelines, without occurrence of wrinkles in the lining material in a bend.

  14. Screening of different sample types associated with sheep and cattle for the presence of nematophagous fungi in China.

    Science.gov (United States)

    Cai, Kui-Zheng; Liu, Jun-Lin; Liu, Wei; Wang, Bo-Bo; Xu, Qiang; Sun, Long-Jie; Chen, Ming-Yue; Zhao, Ming-Wang; Wu, Jia-Yan; Li, Xiao-Shan; Yang, Jing; Wei, Shuan; Chen, Chun-Rong; Ma, Zhong-Ren; Xu, Chun-Lan; Wang, Feng; Hu, Qian-Lin; Fang, Wen-Xiu; Zheng, Tian-Hui; Wang, Yue-Ying; Zhu, Wen-Long; Li, Dan; Li, Qing; Zhang, Chao; Cai, Bing; Wang, Fan; Yang, Zai-Yun; Liu, Yan-Qiu

    2016-03-01

    A total of 1502 samples, including feces of sheep (793) and cattle (348), pasture soil (118), dung compost (147) and barn soil (96), were examined between October 2012 and August 2014 to discover potential strains of nematophagous fungi for the biological control of livestock-parasitic nematodes. These samples were collected from 87 sites located in 48 counties of 20 provinces (autonomous regions/municipalities) of China. Fungi were identified down to a species level. Four hundred and seventy-seven isolates, which were distributed in 8 genera and 28 taxa, were identified as nematophagous fungi. Nematode-trapping fungi included 17 species and one unidentified species of Arthrobotrys, two of Dactylella, Drechslerella dactyloides, and Duddingtonia flagrans. Five identified species and two unidentified species of endoparasitic fungi were isolated. The predominant species from all regions were Arthrobotrys oligospora, followed by Arthrobotrys musiformis, Arthrobotrys (Monacrosporium) thaumasiun, and Arthrobotrys (Monacrosporium) microscaphoides. Species with adhesive networks were the most frequently isolated. Among the endoparasitic fungi, Podocrella harposporifera (Harposporium anguillulae) was the most common species, followed by Harposporium lilliputanum and Harposporium arcuatum. Based on Shannon diversity index, the diversity levels of nematophagous fungi were relatively higher in samples associated with cattle, barn soil, and subtropical monsoon climate zone. Three species isolated from this study, namely, Duddingtonia flagrans, Arthrobotrys salina (Monacrosporium salinum), and Arthrobotrys oligospora var. sarmatica, are newly recorded in China, and 20 species (including one unidentified species) are newly recorded in sheep and cattle barn soils worldwide. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  15. Novel synthesis of nanocomposite for the extraction of Sildenafil Citrate (Viagra) from water and urine samples: Process screening and optimization.

    Science.gov (United States)

    Asfaram, Arash; Ghaedi, Mehrorang; Purkait, Mihir Kumar

    2017-09-01

    A sensitive analytical method is investigated to concentrate and determine trace level of Sildenafil Citrate (SLC) present in water and urine samples. The method is based on a sample treatment using dispersive solid-phase micro-extraction (DSPME) with laboratory-made Mn@ CuS/ZnS nanocomposite loaded on activated carbon (Mn@ CuS/ZnS-NCs-AC) as a sorbent for the target analyte. The efficiency was enhanced by ultrasound-assisted (UA) with dispersive nanocomposite solid-phase micro-extraction (UA-DNSPME). Four significant variables affecting SLC recovery like; pH, eluent volume, sonication time and adsorbent mass were selected by the Plackett-Burman design (PBD) experiments. These selected factors were optimized by the central composite design (CCD) to maximize extraction of SLC. The results exhibited that the optimum conditions for maximizing extraction of SLC were 6.0 pH, 300μL eluent (acetonitrile) volume, 10mg of adsorbent and 6min sonication time. Under optimized conditions, virtuous linearity of SLC was ranged from 30 to 4000ngmL -1 with R 2 of 0.99. The limit of detection (LOD) was 2.50ngmL -1 and the recoveries at two spiked levels were ranged from 97.37 to 103.21% with the relative standard deviation (RSD) less than 4.50% (n=15). The enhancement factor (EF) was 81.91. The results show that the combination UAE with DNSPME is a suitable method for the determination of SLC in water and urine samples. Copyright © 2017 Elsevier B.V. All rights reserved.

  16. Improved ultrasonic-based sample treatment for the screening of anabolic steroids by gas chromatography/mass spectrometry.

    Science.gov (United States)

    Galesio, M; Rial-Otero, R; Simal-Gándara, J; de la Torre, X; Botrè, F; Capelo-Martínez, J L

    2010-08-30

    A rapid sample treatment procedure for the gas chromatography/mass spectrometry (GC/MS) determination of anabolic steroids in human urine has been developed. The new procedure makes use of ultrasonic energy to reduce reaction times and increase the overall sensitivity. The following variables affecting the performance of the ultrasonic treatment were optimised: (i) time, (ii) device, (iii) frequency, and (iv) temperature. It was found that, under an ultrasonic field, the hydrolysis of conjugated steroids with beta-glucuronidase from Escherichia coli K12 was possible with a treatment time of 10 min. The accuracy and precision of the ultrasonic method were found to be in agreement with those achieved with the conventional thermal conductivity procedure (Student's t-test; p = 0.05, n = 10). After the enzymatic hydrolysis, the derivatisation of the target compounds with trimethylsilyl (TMS) reagent, methyl-N-trimethylsilyltrifluoroacetamide (MSTFA)/NH(4)I/dithioerythritol (DTE) (1000:2:4, v/w/w), was also accelerated using ultrasonic energy. In order to test the applicability of the use of ultrasonic energy in the acceleration of the derivatisation reaction with TMS, the classic method of thermal conductivity was applied for comparative purposes to a pool of 35 androgenic anabolic steroids (AAS) and/or their metabolites. The results demonstrated that after 3 min of sonication in a Sonoreactor device (50% amplitude), 19 of the 35 compounds studied showed similar reaction yield to those obtained with the classic procedure requiring 30 min (Student's t-test; p = 0.05, n = 5); 13 increased to higher silylation yields; and for the steroids 1-testosterone, danazol and etiocholanolone-D5, the same results were obtained using a sonication time of 5 min.The overall applicability of the ultrasonic-based sample treatment method is shown by the analysis of five urine samples. The results are similar to those achieved by the routine procedure. The new method is fast, robust, and

  17. The Primary Care PTSD Screen for DSM-5 (PC-PTSD-5): Development and Evaluation Within a Veteran Primary Care Sample.

    Science.gov (United States)

    Prins, Annabel; Bovin, Michelle J; Smolenski, Derek J; Marx, Brian P; Kimerling, Rachel; Jenkins-Guarnieri, Michael A; Kaloupek, Danny G; Schnurr, Paula P; Kaiser, Anica Pless; Leyva, Yani E; Tiet, Quyen Q

    2016-10-01

    Posttraumatic Stress Disorder (PTSD) is associated with increased health care utilization, medical morbidity, and tobacco and alcohol use. Consequently, screening for PTSD has become increasingly common in primary care clinics, especially in Veteran healthcare settings where trauma exposure among patients is common. The objective of this study was to revise the Primary Care PTSD screen (PC-PTSD) to reflect the new Diagnostic and Statistical Manual of Mental Disorders (DSM-5) criteria for PTSD (PC-PTSD-5) and to examine both the diagnostic accuracy and the patient acceptability of the revised measure. We compared the PC-PTSD-5 results with those from a brief psychiatric interview for PTSD. Participants also rated screening preferences and acceptability of the PC-PTSD-5. A convenience sample of 398 Veterans participated in the study (response rate = 41 %). Most of the participants were male, in their 60s, and the majority identified as non-Hispanic White. The PC-PTSD-5 was used as the screening measure, a modified version of the PTSD module of the MINI-International Neuropsychiatric Interview was used to diagnose DSM-5 PTSD, and five brief survey items were used to assess acceptability and preferences. The PC-PTSD-5 demonstrated excellent diagnostic accuracy (AUC = 0.941; 95 % C.I.: 0.912- 0.969). Whereas a cut score of 3 maximized sensitivity (κ[1]) = 0.93; SE = .041; 95 % C.I.: 0.849-1.00), a cut score of 4 maximized efficiency (κ[0.5] = 0.63; SE = 0.052; 95 % C.I.: 0.527-0.731), and a cut score of 5 maximized specificity (κ[0] = 0.70; SE = 0.077; 95 % C.I.: 0.550-0.853). Patients found the screen acceptable and indicated a preference for administration by their primary care providers as opposed to by other providers or via self-report. The PC-PTSD-5 demonstrated strong preliminary results for diagnostic accuracy, and was broadly acceptable to patients.

  18. Screening for DSM-5 Other Specified Feeding or Eating Disorder in a Weight-Loss Treatment–Seeking Obese Sample

    Science.gov (United States)

    Gorman, Mark J.; Sogg, Stephanie; Lamont, Evan M.; Eddy, Kamryn T.; Becker, Anne E.; Thomas, Jennifer J.

    2014-01-01

    Objective: To evaluate the effectiveness of specific self-report questionnaires in detecting DSM-5 eating disorders identified via structured clinical interview in a weight-loss treatment–seeking obese sample, to improve eating disorder recognition in general clinical settings. Method: Individuals were recruited over a 3-month period (November 2, 2011, to January 10, 2012) when initially presenting to a hospital-based weight-management center in the northeastern United States, which offers evaluation and treatment for outpatients who are overweight or obese. Participants (N = 100) completed the Structured Clinical Interview for DSM-IV eating disorder module, a DSM-5 feeding and eating disorders interview, and a battery of self-report questionnaires. Results: Self-reports and interviews agreed substantially in the identification of bulimia nervosa (DSM-IV and DSM-5: tau-b = 0.71, P eating disorder (DSM-IV and DSM-5: tau-b = 0.60, P eating disorder (tau-b = 0.44, P eating syndrome: tau-b = –0.04, P = .72, r = 0.06 [DSM-5]). Discussion: Current self-report assessments are likely to identify full syndrome DSM-5 eating disorders in treatment-seeking obese samples, but unlikely to detect DSM-5 other specified feeding or eating disorders. We propose specific content changes that might enhance clinical utility as suggestions for future evaluation. PMID:25667810

  19. 77 FR 45417 - Pipeline Safety: Inspection and Protection of Pipeline Facilities After Railway Accidents

    Science.gov (United States)

    2012-07-31

    ..., depth and location of the pipelines so that the movement of heavy equipment and debris on the right-of... the presence, depth and location of the pipelines so that the movement of heavy equipment on the right... cover permitted by the current Federal and industry pipeline construction standards, it likely would...

  20. Addressing the workforce pipeline challenge

    Energy Technology Data Exchange (ETDEWEB)

    Leonard Bond; Kevin Kostelnik; Richard Holman

    2006-11-01

    A secure and affordable energy supply is essential for achieving U.S. national security, in continuing U.S. prosperity and in laying the foundations to enable future economic growth. To meet this goal the next generation energy workforce in the U.S., in particular those needed to support instrumentation, controls and advanced operations and maintenance, is a critical element. The workforce is aging and a new workforce pipeline, to support both current generation and new build has yet to be established. The paper reviews the challenges and some actions being taken to address this need.

  1. Trace-Level Screening of Chemicals Related to Clandestine Desomorphine Production with Ambient Sampling, Portable Mass Spectrometry

    Directory of Open Access Journals (Sweden)

    Seth E. Hall

    2017-01-01

    Full Text Available Desomorphine is a semisynthetic opioid that is responsible for the psychoactive effects of a dangerous homemade injectable mixture that goes by street name “Krokodil.” Desorption electrospray ionization (DESI and paper spray ionization (PSI are implemented on a portable mass spectrometer for the direct analysis of desomorphine and precursor reagent codeine from multiple substrates of potential relevance to clandestine drug laboratory synthesis and paraphernalia seizure. Minimal sample preparation required for analysis and portability of the instrument suggest the potential for rapid, on-site analysis of evidence, a highly desired benefit for forensic science and law enforcement practitioners. Both DESI-MS and PSI-MS can generate spectra consistent with preceding data obtained using traditional ionization methods, while demonstrating detection limits in the low- to sub-ng levels.

  2. Evaluation of culture methods for rapid screening of swine faecal samples for Yersinia enterocolitica O : 3 biotype 4

    DEFF Research Database (Denmark)

    Hoorfar, Jeffrey; Holmvig, C.B.F.

    1999-01-01

    In two studies, seven different culture protocols were compared to test naturally contaminated faecal samples from pigs for isolation of Y. enterocolitica serotype O; 3/biotype 4( n = 70 and n = 79). Four of the protocols were based on the Nordic Committee on Food Analysis (NMKL protocols), while...... three protocols were based on a rapid and selective method (here called ITC protocols). The protocols differed mainly in time of pre-enrichment (1, 10 and 24 d) and enrichment (2, 10, 24 d) and the type of selective enrichment media (ITC vs. MRB). The sensitivity of the rapid ITC protocol (24% and 9...... indicate possibilities of shortening the culture methods by replacing most of the biochemical tests with an agglutination test based on a monoclonal antibody....

  3. Investigation of CPD and HMDS sample preparation techniques for cervical cells in developing computer-aided screening system based on FE-SEM/EDX.

    Science.gov (United States)

    Jusman, Yessi; Ng, Siew Cheok; Abu Osman, Noor Azuan

    2014-01-01

    This paper investigated the effects of critical-point drying (CPD) and hexamethyldisilazane (HMDS) sample preparation techniques for cervical cells on field emission scanning electron microscopy and energy dispersive X-ray (FE-SEM/EDX). We investigated the visualization of cervical cell image and elemental distribution on the cervical cell for two techniques of sample preparation. Using FE-SEM/EDX, the cervical cell images are captured and the cell element compositions are extracted for both sample preparation techniques. Cervical cell image quality, elemental composition, and processing time are considered for comparison of performances. Qualitatively, FE-SEM image based on HMDS preparation technique has better image quality than CPD technique in terms of degree of spread cell on the specimen and morphologic signs of cell deteriorations (i.e., existence of plate and pellet drying artifacts and membrane blebs). Quantitatively, with mapping and line scanning EDX analysis, carbon and oxygen element compositions in HMDS technique were higher than the CPD technique in terms of weight percentages. The HMDS technique has shorter processing time than the CPD technique. The results indicate that FE-SEM imaging, elemental composition, and processing time for sample preparation with the HMDS technique were better than CPD technique for cervical cell preparation technique for developing computer-aided screening system.

  4. Ultrasonic or accelerated solvent extraction followed by U-HPLC-high mass accuracy MS for screening of pharmaceuticals and fungicides in soil and plant samples.

    Science.gov (United States)

    Chitescu, Carmen Lidia; Oosterink, Efraim; de Jong, Jacob; Stolker, Alida Adriana Maria Linda

    2012-01-15

    Different veterinary pharmaceuticals are used in agricultural livestock becoming a source of environment contamination. Furthermore, no regulation exists for the concentration limits of pharmaceuticals in soil or water. Monitoring programs for environment contamination with pharmaceuticals are needed, requiring new sensitive and selective screening methods. The present study focuses on developing a method for the simultaneous scanning of forty-two compounds (pharmaceuticals, azole biocides and fungicides) in soil and plant material samples. For extraction purposes the use of ultrasonic assisted and accelerated solvent extraction (ASE) were compared. The extract was purified and concentrated by applying a solid phase extraction step followed by ultra-high-performance-chromatographic separation and accurate-mass spectrometric detection using Exacte Orbitrap technology (FWHM 50,000). The effects of the different extraction solvents and conditions on the extraction efficiency were tested. Although both extraction approaches are applicable the optimal extraction efficiency was obtained by applying accelerated solvent extraction using solvent mixtures containing acetone for soil and methanol for plant samples. An ASE process has been validated for the determination of selected pharmaceuticals and fungicides in soil and in plant material. The recoveries from soil samples were >70% for more than 68% of the compounds. The levels of detection were ≤10 μg kg(-1) for 93% of the compounds tested. The recoveries from plant material were >70% for 64% of the compounds tested. The levels of detection were ≤10 μg kg(-1) for 66% of the compounds. The developed method was used to screen soil and plant material collected throughout the Netherlands and oxytetracycline residues were detected. Copyright © 2011 Elsevier B.V. All rights reserved.

  5. Comparison of automated devices UX-2000 and SediMAX/AutionMax for urine samples screening: A multicenter Spanish study.

    Science.gov (United States)

    Sánchez-Mora, Catalina; Acevedo, Delia; Porres, Maria Amelia; Chaqués, Ana María; Zapardiel, Javier; Gallego-Cabrera, Aurelia; López, Jose María; Maesa, Jose María

    2017-08-01

    In this study we aim to compare UX2000 (Sysmex Corp, Japan) and SediMAX/AutionMax (Arkray Factory Inc., Japan), totally automatized analyzers, against Fuchs-Rosenthal counting chamber, the gold standard technique for sediment analysis. Urine samples of 1454 patients from three Spanish hospitals were assessed for red and white blood cells (RBC; WBC) using three different techniques: flow cytometry, image-based method and Fuchs-Rosenthal counting chamber. Test strip results were subjected to concordance evaluation. Agreement was assessed by Cohen's weighted kappa for multinomial results. Sensitivity (SE) and specificity (SP) were calculated. The categorization of the results showed that UX-2000 had higher concordance over SediMAX for WBC (0.819 vs. 0.546) and similar for RBC (0.573 vs. 0.630). For RBC, UX-2000 had higher SE (92.7% vs. 80.3%) but lower SP (77.1% vs. 87.4%), and showed higher both SE (94.3% vs. 76.7%) and SP (94.7% vs. 88.2%) for WBC. Inter-devices test strip agreement was substantial (kappa>0.600) for all variables except for bilirubin (kappa: 0.598). Intra-device test strip agreement was similar for UX2000 and SediMAX with regard to RBC (kappa: 0.553 vs. 0.482) but better for UX2000 with regard to WBC (0.688 vs. 0.465). Both analyzers studied are acceptable for daily routine lab work, even though SediMAX is easier to use in laboratories thanks to its lower maintenance procedure. UX-2000 has shown to have better concordance with the gold standard method. However, it needs some improvements such as an image module in order to decrease manual microscopy review for urine samples. Copyright © 2017 The Canadian Society of Clinical Chemists. Published by Elsevier Inc. All rights reserved.

  6. Temperature-controlled micro-TLC: a versatile green chemistry and fast analytical tool for separation and preliminary screening of steroids fraction from biological and environmental samples.

    Science.gov (United States)

    Zarzycki, Paweł K; Slączka, Magdalena M; Zarzycka, Magdalena B; Bartoszuk, Małgorzata A; Włodarczyk, Elżbieta; Baran, Michał J

    2011-11-01

    This paper is a continuation of our previous research focusing on development of micro-TLC methodology under temperature-controlled conditions. The main goal of present paper is to demonstrate separation and detection capability of micro-TLC technique involving simple analytical protocols without multi-steps sample pre-purification. One of the advantages of planar chromatography over its column counterpart is that each TLC run can be performed using non-previously used stationary phase. Therefore, it is possible to fractionate or separate complex samples characterized by heavy biological matrix loading. In present studies components of interest, mainly steroids, were isolated from biological samples like fish bile using single pre-treatment steps involving direct organic liquid extraction and/or deproteinization by freeze-drying method. Low-molecular mass compounds with polarity ranging from estetrol to progesterone derived from the environmental samples (lake water, untreated and treated sewage waters) were concentrated using optimized solid-phase extraction (SPE). Specific bands patterns for samples derived from surface water of the Middle Pomerania in northern part of Poland can be easily observed on obtained micro-TLC chromatograms. This approach can be useful as simple and non-expensive complementary method for fast control and screening of treated sewage water discharged by the municipal wastewater treatment plants. Moreover, our experimental results show the potential of micro-TLC as an efficient tool for retention measurements of a wide range of steroids under reversed-phase (RP) chromatographic conditions. These data can be used for further optimalization of SPE or HPLC systems working under RP conditions. Furthermore, we also demonstrated that micro-TLC based analytical approach can be applied as an effective method for the internal standard (IS) substance search. Generally, described methodology can be applied for fast fractionation or screening of the

  7. Assessing the special need for protection of vulnerable refugees: testing the applicability of a screening method (RHS-15) to detect traumatic disorders in a refugee sample in Germany.

    Science.gov (United States)

    Stingl, Markus; Knipper, Michael; Hetzger, Björge; Richards, Jessica; Yazgan, Bülent; Gallhofer, Bernd; Hanewald, Bernd

    2017-10-29

    Although EU member states are obligated to take special account of the situation of particularly vulnerable refugees, appropriate and specific measures to detect affected asylum seekers are not yet available. This study tries to pave the way for the implementation of an adequate instrument which at the same time assesses these needs of suffering people whilst responding to the need for mental health assessments specifically designed for refugees. This was done by testing the implementation of a screening method (Refugee Health Screener RHS-15) for trauma related mental health problems in refugees. Two refugee samples in Germany (differing in arrival time: 126 applicants for asylum residing in the initial reception center and 116 living in long term communal accommodations) were assessed with the culturally sensitive Refugee Health Screener (RHS-15) to detect the incidence of mental health problems amongst them. Test fairness, reasonableness, susceptibility, transparency, acceptance, external design, utility and economy of the instrument were examined to check the applicability of the RHS-15 standardization test. The RHS-15 indicates a good practical feasibility as the examination of the focused psychometric characteristics suggests. It became apparent, that implementing a screening procedure depends on political, legal and medical context factors that need to be considered. 2/3 of the participants had a positive screening result, which needs further diagnostic clarification in a second step. The RHS-15 seems to be practicable, economical, and rapidly deployable for the widespread detection of traumatic disorders in refugees living in Europe. The tool proved useful to aid diagnostic assessments and provide treatment to individuals in need, however the time of examination (resp. the duration of staying in the target land) influences the results.

  8. [Evaluation of a new medium, eggplant (Solanum melongena) agar as a screening medium for Cryptococcus neoformans in environmental samples].

    Science.gov (United States)

    Sengul, Mustafa; Ergin, Cağrı; Kartal, Tuğba

    2014-04-01

    Cryptococcus neofomans is an encapsulated yeast-like fungus that causes life-threatening infections, especially in immunosuppresive patients. C.neoformans infection is believed to be acquired via inhalation of aerosolized particles from the environment. Avian guano, decaying tree hollows and soil are the related known environmental niches. Brown pigmented yeast growth from the precursors in growth media is an important step for the identification and isolation of C.neoformans. Seeds of plants in nature are preferred owing to easy accessibility and low costs for the preparation of such media. Guizotia abysinicca (Niger seed) as Staib agar, Helianthus annus (Sunflower) as Pal's medium, Brassica nigra (Mustard) agar, tobacco agar, Mucuna pruriens (Velvet bean) seed agar, Perilla frutescens (Beefsteak plant) seed agar, Rubus fruticosus (Blackberry) agar and ground red hot pepper agar are pigment-based selective media for the differentiation of C.neoformans. The aim of this study was to observe the pigment production of C.neoformans in a new medium based on eggplant (Solanum melongena) and also to compare its performance with the simplified Staib, Pal's and tobacco agar for isolation from the environment. Three different eggplant-based medium (S.melongena Melanzaza viserba, S.melongena Pinstripe F1 and S.ovigerum Ivory F1) were included in the study. Pigment-forming eggplant medium, simplified Staib agar, Pal's agar and tobacco agar were used for the cultivation of the environmental swabbed samples from 19 Eucalyptus camaldulensis trunk hollows in continuous colonization region. While pigment formation were observed with S.melongena Melanzaza viserba and S.melongena Pinstripe F1 containing media, S.ovigerum Ivory F1 medium was found to be non-reactive. In colonization area (Gökova-Akyaka, Turkey), 11 (57.9%) out of 19 E.camaldulensis samples were positive with simplified Staib agar, Pal's agar and eggplant agar while 10 (52.6%) of them are positive with tobacco agar. C

  9. Development of a miniature dielectric barrier discharge–optical emission spectrometric system for bromide and bromate screening in environmental water samples

    Energy Technology Data Exchange (ETDEWEB)

    Yu, Yong-Liang [Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang 110819 (China); Research Center for Analytical Sciences, College of Sciences, Northeastern University, Box 332, Shenyang 110819 (China); Cai, Yi [Research Center for Analytical Sciences, College of Sciences, Northeastern University, Box 332, Shenyang 110819 (China); Chen, Ming-Li, E-mail: chenml@mail.neu.edu.cn [Research Center for Analytical Sciences, College of Sciences, Northeastern University, Box 332, Shenyang 110819 (China); Wang, Jian-Hua, E-mail: jianhuajrz@mail.neu.edu.cn [Research Center for Analytical Sciences, College of Sciences, Northeastern University, Box 332, Shenyang 110819 (China); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin 300071 (China)

    2014-01-27

    Graphical abstract: -- Highlights: •Dielectric barrier discharge (DBD) is for the first time used as a radiation source for the excitation of bromine and its emission. •A DBD–optical emission spectrometric (OES) system was developed for the detection of bromide and bromate. •The DBD–OES system has been demonstrated by screening trace bromide and bromate in a series of environmental water samples. -- Abstract: Dielectric barrier discharge (DBD) at atmospheric pressure provides an efficient radiation source for the excitation of bromine and it is used for the first time for optical emission spectrometric (OES) detection of bromide and bromate. A portable DBD–OES system is developed for screening potential pollution from bromide and bromate in environmental waters. Bromide is on-line oxidized to bromine for in-situ generation of volatile bromine. Meanwhile, a helium stream carries bromine into the DBD micro-plasma for its excitation at a discharging voltage of 3.7 kV and optical emission spectrometric detection with a QE65000 charge-coupled device (CCD) spectrometer in the near-infrared spectral region. Similarly, the quantification of bromate is performed by its pre-reduction into bromide and then oxidized to bromine. The spectral characteristics and configuration of the DBD micro-plasma excitation source in addition to the oxidation vapor generation of bromine have been thoroughly investigated. With a sampling volume of 1 mL, a linear range of 0.05–10.0 mg L{sup −1} is obtained with a detection limit of 0.014 mg L{sup −1} by measuring the emission at 827 nm. A precision of 2.3% is achieved at 3 mg L{sup −1} bromide. The system is validated by bromine detection in certified reference material of laver (GBW10023) at mg L{sup −1} level, giving rise to satisfactory agreement. In addition, it is further demonstrated by screening trace bromide and bromate as well as spiking recoveries in a series of environmental water samples.

  10. RNAi screening in Drosophila cells and in vivo

    Science.gov (United States)

    Mohr, Stephanie E.

    2014-01-01

    Here, I discuss how RNAi screening can be used effectively to uncover gene function. Specifically, I discuss the types of high-throughput assays that can be done in Drosophila cells and in vivo, RNAi reagent design and available reagent collections, automated screen pipelines, analysis of screen results, and approaches to RNAi results verification. PMID:24576618

  11. Oil and Natural Gas Pipelines, North America, 2010, Platts

    Data.gov (United States)

    U.S. Environmental Protection Agency — The Oil and Natural Gas Pipeline geospatial data layer contains gathering, interstate, and intrastate natural gas pipelines, crude and product oil pipelines, and...

  12. Direct solid sample analysis with graphite furnace atomic absorption spectrometry—a fast and reliable screening procedure for the determination of inorganic arsenic in fish and seafood.

    Science.gov (United States)

    Zmozinski, Ariane V; Llorente-Mirandes, Toni; Damin, Isabel C F; López-Sánchez, José F; Vale, Maria Goreti R; Welz, Bernhard; Silva, Márcia M

    2015-03-01

    Direct solid sample analysis with graphite furnace atomic absorption spectrometry (SS-GF AAS) was investigated initially with the intention of developing a method for the determination of total As in fish and other seafood. A mixture of 0.1% Pd+0.06% Mg+0.06% Triton X-100 was used as the chemical modifier, added in solution over the solid samples, making possible the use of pyrolysis and atomization temperatures of 1200 °C and 2400 °C, respectively. The sample mass had to be limited to 0.25 mg, as the integrated absorbance did not increase further with increasing sample mass. Nevertheless, the recovery of As from several certified reference materials was of the order of 50% lower than the certified value. Strong molecular absorption due to the phosphorus monoxide molecule (PO) was observed with high-resolution continuum source AAS (HR CS AAS), which, however, did not cause any spectral interference. A microwave-assisted digestion with HNO3/H2O2 was also investigated to solve the problem; however, the results obtained for several certified reference materials were statistically not different from those found with direct SS-GF AAS. Accurate values were obtained using inductively coupled plasma mass spectrometry (ICP-MS) to analyze the digested samples, which suggested that organic As compounds are responsible for the low recoveries. HPLC-ICP-MS was used to determine the arsenobetaine (AB) concentration. Accurate results that were not different from the certified values were obtained when the AB concentration was added to the As concentration found by SS-GF AAS for most certified reference materials (CRM) and samples, suggesting that SS-GF AAS could be used as a fast screening procedure for inorganic As determination in fish and seafood. Copyright © 2014 Elsevier B.V. All rights reserved.

  13. Quantum dots and microfluidic single-molecule detection for screening genetic and epigenetic cancer markers in clinical samples

    Science.gov (United States)

    Wang, Tza-Huei; Bailey, Vasudev; Liu, Kelvin

    2011-06-01

    Genomic analysis of biomarkers, including genetic markers such as point mutations and epigenetic markers such as DNA methylation, has become a central theme in modern disease diagnosis and prognosis. Recently there is an increasing interest in using single-molecule detection (SMD) for genomic detection. The driving force not only comes from its ultrahigh sensitivity that can allow the detection of low-abundance nucleic acids with reduced or without the need of amplification but also from its potential in achieving high-accuracy quantification of rare targets via singlemolecule sorting. The unique photophysical properties of semiconductor quantum dots (QDs) have made them ideal for use as spectral labels and luminescent probes. QDs also make excellent donors to pair with organic dyes in the fluorescence resonance energy transfer (FRET) process due to the features of narrow emission spectra and small Stokes shift. We have developed highly sensitive, quantitative and clinically relevant technologies for analysis of genomic markers based on the convergence of SMD, microfluidic manipulations, and quantum dot fluorescence resonance energy transfer technology (QD-FRET). Extraordinary performances of these new technologies have been exemplified by analysis of a variety of biomarkers including point mutations, DNA integrity and DNA methylation in clinical samples.

  14. Anaesthetic machine pipeline inlet pressure gauges do not always measure pipeline pressure.

    Science.gov (United States)

    Craig, D B; Longmuir, J

    1980-09-01

    Some anaesthetic gas machines have pipeline inlet pressure gauges which indicate the higher of either pipeline pressure, or machine circuit pressure (the pressure distal to the pressure reducing valve, and proximal to the flowmeter control valve). Failure by the operator to appreciate this feature may in specific circumstances lead to a delayed appreciation of pipeline malfunction or disconnection. The Canadian Standards Association Z168.3-M1980 Anaesthetic Gas Machine Standard requires pipeline inlet gauges which measure only pipeline (hose) pressure. Existing machines should be modified to accommodate this requirement.

  15. The Epworth Sleepiness Scale for screening of the drowsy driving: comparison with the maintenance of wakefulness test in an Iranian sample of commercial drivers.

    Science.gov (United States)

    Sadeghniiat-Haghighi, Khosro; Moller, Henry J; Saraei, Maryam; Aminian, Omid; Khajeh-Mehrizi, Ahmad

    2014-01-01

    Traffic fatalities are a major cause of morbidity and mortality in Iran. Occupational sleep medicine field needs more cost-effective and applicable tests for screening purposes. This study reports on a pilot screening study for drowsy drivers in an urban Iranian sample of commercial drivers. The Maintenance of Wakefulness Test (MWT) measures the ability to remain awake objectively. Sleep latency in MWT is a reasonable predictor of driving simulator performance in drivers. In this study, we evaluate whether the Epworth Sleepiness Scale (ESS) and MWT are equally useful in drivers with possible Excessive Daytime Sleepiness (EDS). 46 consecutive road truck drivers in a transportation terminal entered into this study. The ESS score of patients with normal and abnormal MWT was 3.24±2.4 and 4.08±3 respectively which was not significantly differenced (P value = 0.34). No significant correlation was found between the ESS and sleep latency in MWT (r=-0.28, 95%CI= -0.58 to 0.02). By using the receiver operating characteristic analysis, the area under the curve was found to be 0.57 (95% confidence interval = 0.37- 0.77) which is not statistically acceptable (P value=0.46). Our finding showed that the MWT and ESS do not measure the same parameter.

  16. Sanger Sequencing for BRCA1 c.68_69del, BRCA1 c.5266dup and BRCA2 c.5946del Mutation Screen on Pap Smear Cytology Samples

    Directory of Open Access Journals (Sweden)

    Sin Hang Lee

    2016-02-01

    Full Text Available Three sets of polymerase chain reaction (PCR primers were designed for heminested PCR amplification of the target DNA fragments in the human genome which include the site of BRCA1 c.68_69del, BRCA1 c.5266dup and BRCA2 c.5946del respectively, to prepare the templates for direct Sanger sequencing screen of these three founder mutations. With a robust PCR mixture, crude proteinase K digestate of the fixed cervicovaginal cells in the liquid-based Papanicolaou (Pap cytology specimens can be used as the sample for target DNA amplification without pre-PCR DNA extraction, purification and quantitation. The post-PCR products can be used directly as the sequencing templates without further purification or quantitation. By simplifying the frontend procedures for template preparation, the cost for screening these three founder mutations can be reduced to about US $200 per test when performed in conjunction with human papillomavirus (HPV assays now routinely ordered for cervical cancer prevention. With this projected price structure, selective patients in a high-risk population can be tested and each provided with a set of DNA sequencing electropherograms to document the absence or presence of these founder mutations in her genome to help assess inherited susceptibility to breast and ovarian cancer in this era of precision molecular personalized medicine.

  17. The Epworth Sleepiness Scale for screening of the drowsy driving: comparison with the maintenance of wakefulness test in an Iranian sample of commercial drivers.

    Directory of Open Access Journals (Sweden)

    Khosro Sadeghniiat-Haghighi

    2014-02-01

    Full Text Available Traffic fatalities are a major cause of morbidity and mortality in Iran. Occupational sleep medicine field needs more cost-effective and applicable tests for screening purposes. This study reports on a pilot screening study for drowsy drivers in an urban Iranian sample of commercial drivers. The Maintenance of Wakefulness Test (MWT measures the ability to remain awake objectively. Sleep latency in MWT is a reasonable predictor of driving simulator performance in drivers. In this study, we evaluate whether the Epworth Sleepiness Scale (ESS and MWT are equally useful in drivers with possible Excessive Daytime Sleepiness (EDS. 46 consecutive road truck drivers in a transportation terminal entered into this study. The ESS score of patients with normal and abnormal MWT was 3.24±2.4 and 4.08±3 respectively which was not significantly differenced (P value = 0.34. No significant correlation was found between the ESS and sleep latency in MWT (r=-0.28, 95%CI= -0.58 to 0.02. By using the receiver operating characteristic analysis, the area under the curve was found to be 0.57 (95% confidence interval = 0.37- 0.77 which is not statistically acceptable (P value=0.46. Our finding showed that the MWT and ESS do not measure the same parameter.

  18. Breast Density Awareness and Knowledge, and Intentions for Breast Cancer Screening in a Diverse Sample of Women Age Eligible for Mammography.

    Science.gov (United States)

    Santiago-Rivas, Marimer; Benjamin, Shayna; Andrews, Janna Z; Jandorf, Lina

    2017-08-14

    The objectives of this study were to assess breast density knowledge and breast density awareness, and to identify information associated with intention to complete routine and supplemental screening for breast cancer in a diverse sample of women age eligible for mammography. We quantitatively (self-report) assessed breast density awareness and knowledge (N = 264) in black (47.7%), Latina (35.2%), and white (17%) women recruited online and in the community. Most participants reported having heard about breast density (69.2%); less than one third knew their own breast density status (30.4%). Knowing their own breast density, believing that women should be notified of their breast density in their mammogram report, and feeling informed if being provided this information are associated with likelihood of completing mammogram. Intending mammogram completion and knowledge regarding the impact of breast density on mammogram accuracy are associated with likelihood of completing supplemental ultrasound tests of the breast. These findings help inform practitioners and policy makers about information and communication factors that influence breast cancer screening concerns and decisions. Knowing this information should prepare practitioners to better identify women who may have not been exposed to breast density messages.

  19. Oil pipeline energy consumption and efficiency

    Energy Technology Data Exchange (ETDEWEB)

    Hooker, J.N.

    1981-01-01

    This report describes an investigation of energy consumption and efficiency of oil pipelines in the US in 1978. It is based on a simulation of the actual movement of oil on a very detailed representation of the pipeline network, and it uses engineering equations to calculate the energy that pipeline pumps must have exerted on the oil to move it in this manner. The efficiencies of pumps and drivers are estimated so as to arrive at the amount of energy consumed at pumping stations. The throughput in each pipeline segment is estimated by distributing each pipeline company's reported oil movements over its segments in proportions predicted by regression equations that show typical throughput and throughput capacity as functions of pipe diameter. The form of the equations is justified by a generalized cost-engineering study of pipelining, and their parameters are estimated using new techniques developed for the purpose. A simplified model of flow scheduling is chosen on the basis of actual energy use data obtained from a few companies. The study yields energy consumption and intensiveness estimates for crude oil trunk lines, crude oil gathering lines and oil products lines, for the nation as well as by state and by pipe diameter. It characterizes the efficiency of typical pipelines of various diameters operating at capacity. Ancillary results include estimates of oil movements by state and by diameter and approximate pipeline capacity utilization nationwide.

  20. Testing the School-to-Prison Pipeline

    Science.gov (United States)

    Owens, Emily G.

    2017-01-01

    The School-to-Prison Pipeline is a social phenomenon where students become formally involved with the criminal justice system as a result of school policies that use law enforcement, rather than discipline, to address behavioral problems. A potentially important part of the School-to-Prison Pipeline is the use of sworn School Resource Officers…

  1. pipelines cathodic protection design methodologies for impressed ...

    African Journals Online (AJOL)

    HOD

    total external surface area of 226224m2. The computation further showed the current requirement was attainable with connection of 3620 anodes to set up a natural potential between sacrificial anode and pipeline. Key words: Cathodic protection, corrosion, impressed current, pipeline, sacrificial anodes. 1. INTRODUCTION.

  2. Characterization of corrosive bacterial consortia isolated from petroleum-product-transporting pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Rajasekar, Aruliah; Ting, Yen-Peng [National Univ. of Singapore (Singapore). Dept. of Chemical and Biomolecular Engineering; Anandkumar, Balakrishnan [Sourashtra Coll., Madurai (India). Dept. of Biotechnology; Maruthamuthu, Sundaram [Central Electrochemical Research Inst., Karaikudi (India). Biocorrosion Group; Rahman, Pattanathu K.S.M. [Teesside Univ., Tees Valley (United Kingdom). Chemical and Bioprocess Engineering Group

    2010-01-15

    Microbiologically influenced corrosion is a problem commonly encountered in facilities in the oil and gas industries. The present study describes bacterial enumeration and identification in diesel and naphtha pipelines located in the northwest and southwest region in India, using traditional cultivation technique and 16S rDNA gene sequencing. Phylogenetic analysis of 16S rRNA sequences of the isolates was carried out, and the samples obtained from the diesel and naphtha-transporting pipelines showed the occurrence of 11 bacterial species namely Serratia marcescens ACE2, Bacillus subtilis AR12, Bacillus cereus ACE4, Pseudomonas aeruginosa AI1, Klebsiella oxytoca ACP, Pseudomonas stutzeri AP2, Bacillus litoralis AN1, Bacillus sp., Bacillus pumilus AR2, Bacillus carboniphilus AR3, and Bacillus megaterium AR4. Sulfate-reducing bacteria were not detected in samples from both pipelines. The dominant bacterial species identified in the petroleum pipeline samples were B. cereus and S. marcescens in the diesel and naphtha pipelines, respectively. Therefore, several types of bacteria may be involved in biocorrosion arising from natural biofilms that develop in industrial facilities. In addition, localized (pitting) corrosion of the pipeline steel in the presence of the consortia was observed by scanning electron microscopy analysis. The potential role of each species in biofilm formation and steel corrosion is discussed. (orig.)

  3. Offshore Pipeline Locations in the Gulf of Mexico, Geographic NAD27, MMS (2007) [pipelines_vectors_mms_2007

    Data.gov (United States)

    Louisiana Geographic Information Center — Offshore Minerals Management Pipeline Locations for the Gulf of Mexico (GOM). Contains the lines of the pipeline in the GOM. All pipelines existing in the databases...

  4. Offshore Pipeline Locations in the Gulf of Mexico, Geographic NAD27, MMS (2007) [pipelines_points_mms_2007

    Data.gov (United States)

    Louisiana Geographic Information Center — Offshore Minerals Management Pipeline Locations for the Gulf of Mexico (GOM). Contains the points of the pipeline in the GOM. All pipelines existing in the databases...

  5. The Pittsburgh sleep quality index as a screening tool for sleep dysfunction in clinical and non-clinical samples: A systematic review and meta-analysis.

    Science.gov (United States)

    Mollayeva, Tatyana; Thurairajah, Pravheen; Burton, Kirsteen; Mollayeva, Shirin; Shapiro, Colin M; Colantonio, Angela

    2016-02-01

    This review appraises the process of development and the measurement properties of the Pittsburgh sleep quality index (PSQI), gauging its potential as a screening tool for sleep dysfunction in non-clinical and clinical samples; it also compares non-clinical and clinical populations in terms of PSQI scores. MEDLINE, Embase, PsycINFO, and HAPI databases were searched. Critical appraisal of studies of measurement properties was performed using COSMIN. Of 37 reviewed studies, 22 examined construct validity, 19 - known-group validity, 15 - internal consistency, and three - test-retest reliability. Study quality ranged from poor to excellent, with the majority designated fair. Internal consistency, based on Cronbach's alpha, was good. Discrepancies were observed in factor analytic studies. In non-clinical and clinical samples with known differences in sleep quality, the PSQI global scores and all subscale scores, with the exception of sleep disturbance, differed significantly. The best evidence synthesis for the PSQI showed strong reliability and validity, and moderate structural validity in a variety of samples, suggesting the tool fulfills its intended utility. A taxonometric analysis can contribute to better understanding of sleep dysfunction as either a dichotomous or continuous construct. Copyright © 2015 Elsevier Ltd. All rights reserved.

  6. Application of micro-thin-layer chromatography as a simple fractionation tool for fast screening of raw extracts derived from complex biological, pharmaceutical and environmental samples.

    Science.gov (United States)

    Zarzycki, Paweł K; Ślączka, Magdalena M; Zarzycka, Magdalena B; Włodarczyk, Elżbieta; Baran, Michał J

    2011-03-04

    The main goal of present paper is to demonstrate the separation and detection capability of micro-TLC technique involving simple one step liquid extraction protocols of complex materials without multi-steps sample pre-purification. In the present studies target components (cyanobacteria pigments, lipids and fullerenes) were isolated from heavy loading complex matrices including spirulina dried cells, birds' feathers and fatty oils as well as soot samples derived from biomass fuel and fossils-fired home heating systems. In each case isocratic separation protocol involving less that 1 mL of one component or binary mixture mobile phases can be completed within time of 5-8 min. Sensitive detection of components of interest was performed via fluorescence or staining techniques using iodine or phosphomolybdic acid. Described methodology can be applied for fast fractionation or screening of whole range of target substances as well as chemo-taxonomic studies and fingerprinting of complex mixtures, which are present in raw biological or environmental samples. Copyright © 2011 Elsevier B.V. All rights reserved.

  7. Application of micro-thin-layer chromatography as a simple fractionation tool for fast screening of raw extracts derived from complex biological, pharmaceutical and environmental samples

    Energy Technology Data Exchange (ETDEWEB)

    Zarzycki, Pawel K., E-mail: pawel_k_z@hotmail.com [Section of Toxicology and Bioanalytics, Department of Civil and Environmental Engineering, Koszalin University of Technology, Sniadeckich 2, 75-453 Koszalin (Poland); Slaczka, Magdalena M.; Zarzycka, Magdalena B.; Wlodarczyk, Elzbieta; Baran, Michal J. [Section of Toxicology and Bioanalytics, Department of Civil and Environmental Engineering, Koszalin University of Technology, Sniadeckich 2, 75-453 Koszalin (Poland)

    2011-03-04

    The main goal of present paper is to demonstrate the separation and detection capability of micro-TLC technique involving simple one step liquid extraction protocols of complex materials without multi-steps sample pre-purification. In the present studies target components (cyanobacteria pigments, lipids and fullerenes) were isolated from heavy loading complex matrices including spirulina dried cells, birds' feathers and fatty oils as well as soot samples derived from biomass fuel and fossils-fired home heating systems. In each case isocratic separation protocol involving less that 1 mL of one component or binary mixture mobile phases can be completed within time of 5-8 min. Sensitive detection of components of interest was performed via fluorescence or staining techniques using iodine or phosphomolybdic acid. Described methodology can be applied for fast fractionation or screening of whole range of target substances as well as chemo-taxonomic studies and fingerprinting of complex mixtures, which are present in raw biological or environmental samples.

  8. Reprint of: Application of micro-thin-layer chromatography as a simple fractionation tool for fast screening of raw extracts derived from complex biological, pharmaceutical and environmental samples

    Energy Technology Data Exchange (ETDEWEB)

    Zarzycki, Pawel K., E-mail: pawel_k_z@hotmail.com [Section of Toxicology and Bioanalytics, Department of Civil and Environmental Engineering, Koszalin University of Technology, Sniadeckich 2, 75-453 Koszalin (Poland); Slaczka, Magdalena M.; Zarzycka, Magdalena B.; Wlodarczyk, Elzbieta; Baran, Michal J. [Section of Toxicology and Bioanalytics, Department of Civil and Environmental Engineering, Koszalin University of Technology, Sniadeckich 2, 75-453 Koszalin (Poland)

    2012-02-24

    The main goal of present paper is to demonstrate the separation and detection capability of micro-TLC technique involving simple one step liquid extraction protocols of complex materials without multi-steps sample pre-purification. In the present studies target components (cyanobacteria pigments, lipids and fullerenes) were isolated from heavy loading complex matrices including spirulina dried cells, birds' feathers and fatty oils as well as soot samples derived from biomass fuel and fossils-fired home heating systems. In each case isocratic separation protocol involving less that 1 mL of one component or binary mixture mobile phases can be completed within time of 5-8 min. Sensitive detection of components of interest was performed via fluorescence or staining techniques using iodine or phosphomolybdic acid. Described methodology can be applied for fast fractionation or screening of whole range of target substances as well as chemo-taxonomic studies and fingerprinting of complex mixtures, which are present in raw biological or environmental samples.

  9. Efficiency improvements in pipeline transportation systems

    Energy Technology Data Exchange (ETDEWEB)

    Banks, W. F.; Horton, J. F.

    1977-09-09

    This report identifies potential energy-conservative pipeline innovations that are most energy- and cost-effective and formulates recommendations for the R, D, and D programs needed to exploit those opportunities. From a candidate field of over twenty classes of efficiency improvements, eight systems are recommended for pursuit. Most of these possess two highly important attributes: large potential energy savings and broad applicability outside the pipeline industry. The R, D, and D program for each improvement and the recommended immediate next step are described. The eight technologies recommended for R, D, and D are gas-fired combined cycle compressor station; internally cooled internal combustion engine; methanol-coal slurry pipeline; methanol-coal slurry-fired and coal-fired engines; indirect-fired coal-burning combined-cycle pump station; fuel-cell pump station; drag-reducing additives in liquid pipelines; and internal coatings in pipelines.

  10. The Hyper Suprime-Cam software pipeline

    Science.gov (United States)

    Bosch, James; Armstrong, Robert; Bickerton, Steven; Furusawa, Hisanori; Ikeda, Hiroyuki; Koike, Michitaro; Lupton, Robert; Mineo, Sogo; Price, Paul; Takata, Tadafumi; Tanaka, Masayuki; Yasuda, Naoki; AlSayyad, Yusra; Becker, Andrew C.; Coulton, William; Coupon, Jean; Garmilla, Jose; Huang, Song; Krughoff, K. Simon; Lang, Dustin; Leauthaud, Alexie; Lim, Kian-Tat; Lust, Nate B.; MacArthur, Lauren A.; Mandelbaum, Rachel; Miyatake, Hironao; Miyazaki, Satoshi; Murata, Ryoma; More, Surhud; Okura, Yuki; Owen, Russell; Swinbank, John D.; Strauss, Michael A.; Yamada, Yoshihiko; Yamanoi, Hitomi

    2018-01-01

    In this paper, we describe the optical imaging data processing pipeline developed for the Subaru Telescope's Hyper Suprime-Cam (HSC) instrument. The HSC Pipeline builds on the prototype pipeline being developed by the Large Synoptic Survey Telescope's Data Management system, adding customizations for HSC, large-scale processing capabilities, and novel algorithms that have since been reincorporated into the LSST codebase. While designed primarily to reduce HSC Subaru Strategic Program (SSP) data, it is also the recommended pipeline for reducing general-observer HSC data. The HSC pipeline includes high-level processing steps that generate coadded images and science-ready catalogs as well as low-level detrending and image characterizations.

  11. Failure modes for pipelines in landslide areas

    Energy Technology Data Exchange (ETDEWEB)

    Bruschi, R.; Spinazze, M.; Tomassini, D. [Snamprogetti SpA, Fano (Italy); Cuscuna, S.; Venzi, S. [SNAM SpA, San Donato Milanese (Italy)

    1995-12-31

    In recent years a number of incidences of pipelines affected by slow soil movements have been reported in the relevant literature. Further related issues such as soil-pipe interaction have been studied both theoretically and through experimental surveys, along with the environmental conditions which are responsible for hazard to the pipeline integrity. A suitable design criteria under these circumstances has been discussed by several authors, in particular in relation to a limit state approach and hence a strain based criteria. The scope of this paper is to describe the failure mechanisms which may affect the pipeline in the presence of slow soil movements impacting on the pipeline, both in the longitudinal and transverse direction. Particular attention is paid to environmental, geometric and structural parameters which steer the process towards one or other failure mechanism. Criteria for deciding upon remedial measures required to guarantee the structural integrity of the pipeline, both in the short and in the long term, are discussed.

  12. optimization for trenchless reconstruction of pipelines

    Directory of Open Access Journals (Sweden)

    Zhmakov Gennadiy Nikolaevich

    2015-01-01

    Full Text Available Today the technologies of trenchless reconstruction of pipelines are becoming and more widely used in Russia and abroad. One of the most perspective is methods is shock-free destruction of the old pipeline being replaced with the help of hydraulic installations with working mechanism representing a cutting unit with knife disks and a conic expander. A construction of a working mechanism, which allows making trenchless reconstruction of pipelines of different diameters, is optimized and patented and its developmental prototype is manufactured. The dependence of pipeline cutting force from knifes obtusion of the working mechanisms. The cutting force of old steel pipelines with obtuse knife increases proportional to the value of its obtusion. Two stands for endurance tests of the knifes in laboratory environment are offered and patented.

  13. Pipeline integrity: ILI baseline data for QRA

    Energy Technology Data Exchange (ETDEWEB)

    Porter, Todd R. [Tuboscope Pipeline Services, Houston, TX (United States)]. E-mail: tporter@varco.com; Silva, Jose Augusto Pereira da [Pipeway Engenharia, Rio de Janeiro, RJ (Brazil)]. E-mail: guto@pipeway.com; Marr, James [MARR and Associates, Calgary, AB (Canada)]. E-mail: jmarr@marr-associates.com

    2003-07-01

    The initial phase of a pipeline integrity management program (IMP) is conducting a baseline assessment of the pipeline system and segments as part of Quantitative Risk Assessment (QRA). This gives the operator's integrity team the opportunity to identify critical areas and deficiencies in the protection, maintenance, and mitigation strategies. As a part of data gathering and integration of a wide variety of sources, in-line inspection (ILI) data is a key element. In order to move forward in the integrity program development and execution, the baseline geometry of the pipeline must be determined with accuracy and confidence. From this, all subsequent analysis and conclusions will be derived. Tuboscope Pipeline Services (TPS), in conjunction with Pipeway Engenharia of Brazil, operate ILI inertial navigation system (INS) and Caliper geometry tools, to address this integrity requirement. This INS and Caliper ILI tool data provides pipeline trajectory at centimeter level resolution and sub-metre 3D position accuracy along with internal geometry - ovality, dents, misalignment, and wrinkle/buckle characterization. Global strain can be derived from precise INS curvature measurements and departure from the initial pipeline state. Accurate pipeline elevation profile data is essential in the identification of sag/over bend sections for fluid dynamic and hydrostatic calculations. This data, along with pipeline construction, operations, direct assessment and maintenance data is integrated in LinaViewPRO{sup TM}, a pipeline data management system for decision support functions, and subsequent QRA operations. This technology provides the baseline for an informed, accurate and confident integrity management program. This paper/presentation will detail these aspects of an effective IMP, and experience will be presented, showing the benefits for liquid and gas pipeline systems. (author)

  14. Pipeline maintenance, evaluation and inspection in water crossing: OSBRA case in Paranaiba River; Inspecao, avaliacao e manutencao de oleoduto em travessia: caso OSBRA (Oleoduto Sao Paulo-Brasilia) no Rio Paranaiba

    Energy Technology Data Exchange (ETDEWEB)

    Castro, Newton Camelo de; Spagnolo, Rodrigo Alves; Vieira Paulo de Tarso [TRANSPETRO - PETROBRAS Transportes, Rio de Janeiro, RJ (Brazil)

    2005-07-01

    Attempting to pipeline integrity proceeding of PETROBRAS, the OSBRA (Sao Paulo-Brasilia Pipeline) Management promoted field inspections by divers at Paranaiba River water crossing, located at your right-of-way pipeline. These services were composed by topography, visual inspections and local screened of the pipeline, determining the equipment layout at that water crossing. At Paranaiba River, the pipeline is seated above the river bed. The results indicated high spans in the pipeline structure. Considering this configuration, were made water speed and vibration measurements near the equipment. The activities were executed in order to assist the structural analysis of the pipeline. These studies had concluded to a temporary solution, which consisted in reducing loads and building additional supports. (author)

  15. Screening of cDNA libraries on glass slide microarrays.

    Science.gov (United States)

    Berger, Dave K; Crampton, Bridget G; Hein, Ingo; Vos, Wiesner

    2007-01-01

    A quantitative screening method was developed to evaluate the quality of cDNA libraries constructed by suppression subtraction hybridization (SSH) or other enrichment techniques. The SSH technique was adapted to facilitate screening of the resultant library on a small number of glass slide microarrays. A simple data analysis pipeline named SSHscreen using "linear models for microarray data" (limma) functions in the R computing environment was developed to identify clones in the cDNA libraries that are significantly differentially expressed, and to determine if they were rare or abundant in the original treated sample. This approach facilitates the choice of clones from the cDNA library for further analysis, such as DNA sequencing, Northern blotting, RT-PCR, or detailed expression profiling using a custom cDNA microarray. Furthermore, this strategy is particularly useful for studies of nonmodel organisms for which there is little genome sequence information.

  16. Pipeline Decommissioning Trial AWE Berkshire UK - 13619

    Energy Technology Data Exchange (ETDEWEB)

    Agnew, Kieran [AWE, Aldermaston, Reading, RG7 4PR (United Kingdom)

    2013-07-01

    This Paper details the implementation of a 'Decommissioning Trial' to assess the feasibility of decommissioning the redundant pipeline operated by AWE located in Berkshire UK. The paper also presents the tool box of decommissioning techniques that were developed during the decommissioning trial. Constructed in the 1950's and operated until 2005, AWE used a pipeline for the authorised discharge of treated effluent. Now redundant, the pipeline is under a care and surveillance regime awaiting decommissioning. The pipeline is some 18.5 km in length and extends from AWE site to the River Thames. Along its route the pipeline passes along and under several major roads, railway lines and rivers as well as travelling through woodland, agricultural land and residential areas. Currently under care and surveillance AWE is considering a number of options for decommissioning the pipeline. One option is to remove the pipeline. In order to assist option evaluation and assess the feasibility of removing the pipeline a decommissioning trial was undertaken and sections of the pipeline were removed within the AWE site. The objectives of the decommissioning trial were to: - Demonstrate to stakeholders that the pipeline can be removed safely, securely and cleanly - Develop a 'tool box' of methods that could be deployed to remove the pipeline - Replicate the conditions and environments encountered along the route of the pipeline The onsite trial was also designed to replicate the physical prevailing conditions and constraints encountered along the remainder of its route i.e. working along a narrow corridor, working in close proximity to roads, working in proximity to above ground and underground services (e.g. Gas, Water, Electricity). By undertaking the decommissioning trial AWE have successfully demonstrated the pipeline can be decommissioned in a safe, secure and clean manor and have developed a tool box of decommissioning techniques. The tool box of includes

  17. The Very Large Array Data Processing Pipeline

    Science.gov (United States)

    Kent, Brian R.; Masters, Joseph S.; Chandler, Claire J.; Davis, Lindsey E.; Kern, Jeffrey S.; Ott, Juergen; Schinzel, Frank K.; Medlin, Drew; Muders, Dirk; Williams, Stewart; Geers, Vincent C.; Momjian, Emmanuel; Butler, Bryan J.; Nakazato, Takeshi; Sugimoto, Kanako

    2018-01-01

    We present the VLA Pipeline, software that is part of the larger pipeline processing framework used for the Karl G. Jansky Very Large Array (VLA), and Atacama Large Millimeter/sub-millimeter Array (ALMA) for both interferometric and single dish observations.Through a collection of base code jointly used by the VLA and ALMA, the pipeline builds a hierarchy of classes to execute individual atomic pipeline tasks within the Common Astronomy Software Applications (CASA) package. Each pipeline task contains heuristics designed by the team to actively decide the best processing path and execution parameters for calibration and imaging. The pipeline code is developed and written in Python and uses a "context" structure for tracking the heuristic decisions and processing results. The pipeline "weblog" acts as the user interface in verifying the quality assurance of each calibration and imaging stage. The majority of VLA scheduling blocks above 1 GHz are now processed with the standard continuum recipe of the pipeline and offer a calibrated measurement set as a basic data product to observatory users. In addition, the pipeline is used for processing data from the VLA Sky Survey (VLASS), a seven year community-driven endeavor started in September 2017 to survey the entire sky down to a declination of -40 degrees at S-band (2-4 GHz). This 5500 hour next-generation large radio survey will explore the time and spectral domains, relying on pipeline processing to generate calibrated measurement sets, polarimetry, and imaging data products that are available to the astronomical community with no proprietary period. Here we present an overview of the pipeline design philosophy, heuristics, and calibration and imaging results produced by the pipeline. Future development will include the testing of spectral line recipes, low signal-to-noise heuristics, and serving as a testing platform for science ready data products.The pipeline is developed as part of the CASA software package by an

  18. Current pipelines for neglected diseases.

    Directory of Open Access Journals (Sweden)

    Paolo di Procolo

    2014-09-01

    Full Text Available This paper scrutinises pipelines for Neglected Diseases (NDs, through freely accessible and at-least-weekly updated trials databases. It updates to 2012 data provided by recent publications, and integrates these analyses with information on location of trials coordinators and patients recruitment status. Additionally, it provides (i disease-specific information to better understand the rational of investments in NDs, (ii yearly data, to understand the investment trends. The search identified 650 clinical studies. Leishmaniasis, Arbovirus infection, and Dengue are the top three diseases by number of clinical studies. Disease diffusion risk seems to be the most important driver of the clinical trials target choice, whereas the role played by disease prevalence and unmet need is controversial. Number of trials is stable between 2005 and 2010, with an increase in the last two years. Patient recruitment was completed for most studies (57.6%, and Phases II and III account for 35% and 28% of trials, respectively. The primary purpose of clinical investigations is prevention (49.3%, especially for infectious diseases with mosquitoes and sand flies as the vector, and treatment (43.2%, which is the primary target for parasitic diseases Research centres and public organisations are the most important clinical studies sponsors (58.9%, followed by the pharmaceutical industry (24.1%, foundations and non-governmental organisations (9.3%. Many coordinator centres are located in less affluent countries (43.7%, whereas OECD countries and BRICS account for 34.7% and 17.5% of trials, respectively. Information was partially missing for some parameters. Notwithstanding, and despite its descriptive nature, this research has enhanced the evidence of the literature on pipelines for NDs. Future contributions may further investigate whether trials metrics are consistent with the characteristics of the interested countries and the explicative variables of trials location

  19. Current pipelines for neglected diseases.

    Science.gov (United States)

    di Procolo, Paolo; Jommi, Claudio

    2014-09-01

    This paper scrutinises pipelines for Neglected Diseases (NDs), through freely accessible and at-least-weekly updated trials databases. It updates to 2012 data provided by recent publications, and integrates these analyses with information on location of trials coordinators and patients recruitment status. Additionally, it provides (i) disease-specific information to better understand the rational of investments in NDs, (ii) yearly data, to understand the investment trends. The search identified 650 clinical studies. Leishmaniasis, Arbovirus infection, and Dengue are the top three diseases by number of clinical studies. Disease diffusion risk seems to be the most important driver of the clinical trials target choice, whereas the role played by disease prevalence and unmet need is controversial. Number of trials is stable between 2005 and 2010, with an increase in the last two years. Patient recruitment was completed for most studies (57.6%), and Phases II and III account for 35% and 28% of trials, respectively. The primary purpose of clinical investigations is prevention (49.3%), especially for infectious diseases with mosquitoes and sand flies as the vector, and treatment (43.2%), which is the primary target for parasitic diseases Research centres and public organisations are the most important clinical studies sponsors (58.9%), followed by the pharmaceutical industry (24.1%), foundations and non-governmental organisations (9.3%). Many coordinator centres are located in less affluent countries (43.7%), whereas OECD countries and BRICS account for 34.7% and 17.5% of trials, respectively. Information was partially missing for some parameters. Notwithstanding, and despite its descriptive nature, this research has enhanced the evidence of the literature on pipelines for NDs. Future contributions may further investigate whether trials metrics are consistent with the characteristics of the interested countries and the explicative variables of trials location, target

  20. Total α1-acid glycoprotein determination in serum samples using disposable screen-printed electrodes and osmium (VI) as electrochemical tag.

    Science.gov (United States)

    Sierra, Tania; González, María Cristina; Moreno, Begoña; Crevillen, Agustin G; Escarpa, Alberto

    2018-04-01

    Alpha-1-acid glycoprotein (AGP) or Orosomucoid is a serum glycoprotein which belongs to the group of acute phase proteins. It is a potential biomarker for inflammatory bowel diseases. In this sense, there is a need for developing fast and cheap analytical methods for diagnosis, prognosis and follow-up of these diseases. In this work, we propose a simple and cheap electrochemical method for total AGP determination using disposable carbon screen-printed electrodes (SPE) and using a selective acidic precipitation of the rest of proteins. This method avoids the use of biological components, decreasing dramatically the analysis cost. Firstly, AGP is labeled with an electrochemical tag (osmium (VI) complex) and then the total amount of AGP is quantified by adsorptive transfer stripping square wave voltammetry. The method optimized showed a good linear correlation (r = 0.9992) and limit of detection of 1.6mgl-1. The methodology was successfully applied to quantify AGP in a commercial serum sample. This methodology could be useful in clinical diagnosis because of AGP levels increase two or three times when inflammatory processes happen. Moreover, the inherent advantages of SPE technology (low sample consumption, low cost and point of care testing) make this methodology very attractive in this field. Copyright © 2017 Elsevier B.V. All rights reserved.

  1. DEVELOPMENT OF SOFTWARE SYSTEM FOR MONITORING OF STRESS CORROSION CRACKING OF THE PIPELINE UNDER TENSION

    Directory of Open Access Journals (Sweden)

    Z. K. Abaev

    2016-01-01

    Full Text Available The software and hardware development tendency, providing the automated monitoring and control of basic and auxiliary technological processes of gas transportation via system of main gas pipelines has been revealed. The article discusses the stages of creation of the software of system of monitoring corrosion cracking under tension (SCC. The new useful adequate regression models development determining the risk level of LCC is shown. A ranking sections algorithm of main gas pipeline (MG on the propensity to SCC is presented. Adequate developed regression equation determining the LCC risk level has been developed. To count the main gas pipeline lifetime the variable rank of the danger of SCC (RSCC on the basis of methods of fuzzy logic is proposed to use. Implementation of the fuzzy model was carried out using the graphical tools developed in MATLAB using the expansion pack Fuzzy Logic Toolbox. The working algorithm of developed program and the screen forms are presented.

  2. ARTIP: Automated Radio Telescope Image Processing Pipeline

    Science.gov (United States)

    Sharma, Ravi; Gyanchandani, Dolly; Kulkarni, Sarang; Gupta, Neeraj; Pathak, Vineet; Pande, Arti; Joshi, Unmesh

    2018-02-01

    The Automated Radio Telescope Image Processing Pipeline (ARTIP) automates the entire process of flagging, calibrating, and imaging for radio-interferometric data. ARTIP starts with raw data, i.e. a measurement set and goes through multiple stages, such as flux calibration, bandpass calibration, phase calibration, and imaging to generate continuum and spectral line images. Each stage can also be run independently. The pipeline provides continuous feedback to the user through various messages, charts and logs. It is written using standard python libraries and the CASA package. The pipeline can deal with datasets with multiple spectral windows and also multiple target sources which may have arbitrary combinations of flux/bandpass/phase calibrators.

  3. Optimal hub location in pipeline networks

    Energy Technology Data Exchange (ETDEWEB)

    Dott, D.R.; Wirasinghe, S.C.; Chakma, A. [Univ. of Calgary, Alberta (Canada)

    1996-12-31

    This paper discusses optimization strategies and techniques for the location of natural gas marketing hubs in the North American gas pipeline network. A hub is a facility at which inbound and outbound network links meet and freight is redirected towards their destinations. Common examples of hubs used in the gas pipeline industry include gas plants, interconnects and market centers. Characteristics of the gas pipeline industry which are relevant to the optimization of transportation costs using hubs are presented. Allocation techniques for solving location-allocation problems are discussed. An outline of the research in process by the authors in the field of optimal gas hub location concludes the paper.

  4. High-risk human papillomavirus detection in self-sampling compared to physician-taken smear in a responder population of the Dutch cervical screening: Results of the VERA study.

    Science.gov (United States)

    Ketelaars, P J W; Bosgraaf, R P; Siebers, A G; Massuger, L F A G; van der Linden, J C; Wauters, C A P; Rahamat-Langendoen, J C; van den Brule, A J C; IntHout, J; Melchers, W J G; Bekkers, R L M

    2017-08-01

    In 2017 the cervical cancer screening program in The Netherlands will be revised. Cervical smears will primarily be tested for the presence of high-risk human papillomavirus (hrHPV) instead of cytology, and vaginal self-sampling will be offered to non-responders. This includes a potential risk that part of the women who would otherwise opt for a cervical smear will wait for self-sampling. However, self-sampling for hrHPV in a responder population has never been studied yet. The aim of this study was to investigate the applicability and accuracy of self-sampling in detecting hrHPV in a screening responder population. A total of 2049 women, aged 30-60years, participating in the screening program in The Netherlands were included from April 2013 to May 2015. After they had their cervical smear taken, women self-collected a cervicovaginal sample with a brush-based device, the Evalyn Brush. Both the cervical smear and self-sample specimen were tested with the COBAS 4800 HPV platform. The hrHPV prevalence was 8.0% (95% CI 6.9-9.2) among the physician-taken samples, and 10.0% (95% CI 8.7-11.3) among the self-samples. There was 96.8% (95% CI 96.0-97.5) concordance of hrHPV prevalence between self-samples and physician-taken samples. Women in our study evaluated self-sampling as convenient (97.1%), user-friendly (98.5%), and 62.8% preferred self-sampling over a physician-taken sampling for the next screening round. In conclusion, self-sampling showed high concordance with physician-taken sampling for hrHPV detection in a responder screening population and highly acceptable to women. Implementation of HPV-self-sampling for the responder population as a primary screening tool may be considered. Copyright © 2017 Elsevier Inc. All rights reserved.

  5. 49 CFR 192.513 - Test requirements for plastic pipelines.

    Science.gov (United States)

    2010-10-01

    ... 49 Transportation 3 2010-10-01 2010-10-01 false Test requirements for plastic pipelines. 192.513 Section 192.513 Transportation Other Regulations Relating to Transportation (Continued) PIPELINE AND... Test requirements for plastic pipelines. (a) Each segment of a plastic pipeline must be tested in...

  6. 49 CFR 195.57 - Filing offshore pipeline condition reports.

    Science.gov (United States)

    2010-10-01

    ... TRANSPORTATION OF HAZARDOUS LIQUIDS BY PIPELINE Annual, Accident, and Safety-Related Condition Reporting § 195.57... inspected. (5) Length and date of installation of each exposed pipeline segment, and location; including, if... tract. (6) Length and date of installation of each pipeline segment, if different from a pipeline...

  7. Regular pipeline maintenance of gas pipeline using technical operational diagnostics methods

    Energy Technology Data Exchange (ETDEWEB)

    Volentic, J. [Gas Transportation Department, Slovensky plynarensky priemysel, Slovak Gas Industry, Bratislava (Slovakia)

    1997-12-31

    Slovensky plynarensky priemysel (SPP) has operated 17 487 km of gas pipelines in 1995. The length of the long-line pipelines reached 5 191 km, distribution network was 12 296 km. The international transit system of long-line gas pipelines ranged 1 939 km of pipelines of various dimensions. The described scale of transport and distribution system represents a multibillion investments stored in the ground, which are exposed to the environmental influences and to pipeline operational stresses. In spite of all technical and maintenance arrangements, which have to be performed upon operating gas pipelines, the gradual ageing takes place anyway, expressed in degradation process both in steel tube, as well as in the anti-corrosion coating. Within a certain time horizon, a consistent and regular application of methods and means of in-service technical diagnostics and rehabilitation of existing pipeline systems make it possible to save substantial investment funds, postponing the need in funds for a complex or partial reconstruction or a new construction of a specific gas section. The purpose of this presentation is to report on the implementation of the programme of in-service technical diagnostics of gas pipelines within the framework of regular maintenance of SPP s.p. Bratislava high pressure gas pipelines. (orig.) 6 refs.

  8. Pipelines in Louisiana, Geographic NAD83, USGS (1999) [pipelines_la_usgs_1999

    Data.gov (United States)

    Louisiana Geographic Information Center — This dataset contains vector line map information of various pipelines throughout the State of Louisiana. The vector data contain selected base categories of...

  9. Fuzzy logic for pipelines risk assessment

    Directory of Open Access Journals (Sweden)

    Ali Alidoosti

    2012-08-01

    Full Text Available Pipelines systems are identified to be the safest way of transporting oil and natural gas. One of the most important aspects in developing pipeline systems is determining the potential risks that implementers may encounter. Therefore, risk analysis can determine critical risk items to allocate the limited resources and time. Risk Analysis and Management for Critical Asset Protection (RAMCAP is one of the best methodologies for assessing the security risks. However, the most challenging problem in this method is uncertainty. Therefore, fuzzy set theory is used to model the uncertainty. Thus, Fuzzy RAMCAP is introduced in order to risk analysis and management for pipeline systems. Finally, a notional example from pipeline systems is provided to demonstrate an application of the proposed methodology.

  10. GLAST (FERMI) Data-Processing Pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Flath, Daniel L.; Johnson, Tony S.; Turri, Massimiliano; Heidenreich, Karen A.; /SLAC

    2011-08-12

    The Data Processing Pipeline ('Pipeline') has been developed for the Gamma-Ray Large Area Space Telescope (GLAST) which launched June 11, 2008. It generically processes graphs of dependent tasks, maintaining a full record of its state, history and data products. The Pipeline is used to automatically process the data down-linked from the satellite and to deliver science products to the GLAST collaboration and the Science Support Center and has been in continuous use since launch with great success. The pipeline handles up to 2000 concurrent jobs and in reconstructing science data produces approximately 750GB of data products using 1/2 CPU-year of processing time per day.

  11. Citizenship program in near communities of pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Mascarenhas, Carina R.; Vilas Boas, Ianne P. [TELSAN Engenharia, Belo Horizonte, MG (Brazil); Bourscheid, Pitagoras [PETROBRAS S.A., Rio de Janeiro, RJ (Brazil)

    2009-12-19

    During the construction of a pipeline, the IENE - Engineering Unit of PETROBRAS, responsible for the construction and erection of pipelines and related plants in northeastern Brazil, crossed more than 7 states and 250 counties, had implemented a social responsibility program, in special a citizenship program. This action was the result of community studies located near of the pipelines AID - Direct Influence Area (438 yards right and left of the pipeline) and through the evidence that those locations were poor and have no personal documents and citizen position in society. This paper intents to share the experience of IENE about its citizen program that worked in three big lines: community mobilization; citizenship qualification; and citizenship board. This last one, turns possible to people obtains theirs personal documents and exercise the plenitude of citizenship. (author)

  12. Depression Screening

    Science.gov (United States)

    ... Depression Screening Substance Abuse Screening Alcohol Use Screening Depression Screening (PHQ-9) - Instructions The following questions are ... this tool, there is also text-only version . Depression Screening - Manual Instructions The following questions are a ...

  13. A possible role of the Infant/Toddler Sensory Profile in screening for autism: a proof-of-concept study in the specific sample of prematurely born children with birth weights <1,500 g.

    Science.gov (United States)

    Beranova, Stepanka; Stoklasa, Jan; Dudova, Iva; Markova, Daniela; Kasparova, Martina; Zemankova, Jana; Urbanek, Tomas; Talasek, Tomas; Luukka, Pasi; Hrdlicka, Michal

    2017-01-01

    The objective of this study was to explore the potential of the Infant/Toddler Sensory Profile (ITSP) as a screening tool for autism spectrum disorders (ASD) in prematurely born children. Parents of 157 children with birth weights Toddlers (M-CHAT), and the Communication and Symbolic Behavior Scales Developmental Profile Infant-Toddler Checklist (CSBS-DP-ITC). Children with known disabilities were excluded. All the children who were screened positive on any of the screening tools subsequently underwent clinical examination including the Autism Diagnostic Observation Schedule. We used classification trees to answer the question whether ITSP (or some of its subscales) could be combined with the M-CHAT and/or the CSBS-DP-ITC or its subscales into an effective ASD screening tool. Using the CSBS-DP-ITC, overall score, and the Sensation Seeking subscale of the ITSP, we obtained a screening tool that was able to identify all of the ASD children in our sample (confirmed by cross-validation). The proposed screening tool is scored as follows: 1) if the overall CSBS-DP-ITC value is <45.5, then the screening is positive; 2) if the overall CSBS-DP-ITC value is ≥45.5 and the z-score of the Sensation Seeking subscale of ITSP is ≥1.54, then the screening is positive; 3) otherwise, the screening is negative. The use of CSBS-DP-ITC in combination with the Sensation Seeking subscale of the ITSP improved the accuracy of autism screening in preterm children.

  14. Epoxy Pipelining Composition and Method of Manufacture.

    Science.gov (United States)

    1994-12-14

    ARLINGTON VA 22217-5660 "Accesion For NTIS CRA &I DTIC TAB El Unannounced i- Justification .- ---- ----- By ---- ----- Distribution I Availability Codes... corrosion and erosion. The pipelining 10 composition forms a barrier which prevents the leaching of, for example, metals from 11 pipes. This invention...invention, 13 more particularly, relates to an epoxy resin/curing agent corrosion -resistant network 14 pipelining composition suitable for the in

  15. A review of bioinformatic pipeline frameworks

    Science.gov (United States)

    2017-01-01

    Abstract High-throughput bioinformatic analyses increasingly rely on pipeline frameworks to process sequence and metadata. Modern implementations of these frameworks differ on three key dimensions: using an implicit or explicit syntax, using a configuration, convention or class-based design paradigm and offering a command line or workbench interface. Here I survey and compare the design philosophies of several current pipeline frameworks. I provide practical recommendations based on analysis requirements and the user base. PMID:27013646

  16. The French Version of the Screen for Child Anxiety Related Emotional Disorders-Revised (Scared-R: Factor Structure, Convergent and Divergent Validity in a Sample of Teenagers

    Directory of Open Access Journals (Sweden)

    Martine Bouvard

    2013-06-01

    Full Text Available The principal objective of this study is to provide data on the French version of the SCARED-R. This article investigates the factor structure of the French version of the Screen for Child Anxiety Related Emotional Disorders-Revised (SCARED-R and its convergent and divergent validity. 704 normal adolescents aged 10 to 19 years completed the questionnaires in their classrooms. A sub-sample of 595 adolescents also completed an anxiety questionnaire (the French version of the Fear Survey Schedule for Children-Revised, FSSC-R and a depression questionnaire (the French version of the Center for Epidemiological Studies Depression Scale, CES-D. Confirmatory factor analysis of the SCARED-R suggested reasonable fit for the 9-factor model. The comparison of the convergent and divergent validity revealed that the SCARED-R total score and five SCARED-R subscales (SAD, Social Phobia and the three Specific Phobias correlated more strongly with anxiety than depression. The other SCARED-R subscales (GAD, Panic Disorder, OCD and PTSD are positively related to levels of anxiety and depression. Altogether, the French version of the SCARED-R showed reasonable psychometric properties.

  17. GRAVITY PIPELINE TRANSPORT FOR HARDENING FILLING MIXTURES

    Directory of Open Access Journals (Sweden)

    Leonid KROUPNIK

    2015-12-01

    Full Text Available In underground mining of solid minerals becoming increasingly common development system with stowing hardening mixtures. In this case the natural ore array after it is replaced by an artificial excavation of solidified filling mixture consisting of binder, aggregates and water. Such a mixture is prepared on the surface on special stowing complexes and transported underground at special stowing pipelines. However, it is transported to the horizons of a few kilometers, which requires a sustainable mode of motion of such a mixture in the pipeline. Hardening stowing mixture changes its rheological characteristics over time, which complicates the calculation of the parameters of pipeline transportation. The article suggests a method of determining the initial parameters of such mixtures: the status coefficient, indicator of transportability, coefficient of hydrodynamic resistance to motion of the mixture. These indicators characterize the mixture in terms of the possibility to transport it through pipes. On the basis of these indicators is proposed methodology for calculating the parameters of pipeline transport hardening filling mixtures in drift mode when traffic on the horizontal part of the mixture under pressure column of the mixture in the vertical part of the backfill of the pipeline. This technique allows stable operation is guaranteed to provide pipeline transportation.

  18. The Ruptured Pipeline: Analysis of the Mining Engineering Faculty Pipeline

    Science.gov (United States)

    Poulton, M.

    2011-12-01

    The booming commodities markets of the past seven years have created an enormous demand for economic geologists, mining engineers, and extractive metallurgists. The mining sector has largely been recession proof due to demand drivers coming from developing rather than developed nations. The strong demand for new hires as well as mid-career hires has exposed the weakness of the U.S. university supply pipeline for these career fields. A survey of mining and metallurgical engineering faculty and graduate students was conducted in 2010 at the request of the Society for Mining, Metallurgy, and Exploration. The goals of the surveys were to determine the demographics of the U.S. faculty in mining and metallurgical engineering, the expected faculty turn over by 2010 and the potential supply of graduate students as the future professorate. All Mining Engineering and Metallurgical Engineering degrees in the U.S. are accredited by the Accreditation Board for Engineering and Technology (ABET) and the specific courses required are set by the sponsoring professional society, Society for Mining, Metallurgy, and Exploration. There are 13 universities in the U.S. that offer a degree in Mining Engineering accredited as Mining Engineering and 1 university that grants a Mining Engineering degree accredited under general engineering program requirements. Faculty numbers are approximately 87 tenure track positions with a total undergraduate enrollment of slightly over 1,000 in the 2008-2009 academic year. There are approximately 262 graduate students in mining engineering in the U.S. including 87 Ph.D. students. Mining Engineering department heads have identified 14 positions open in 2010 and 18 positions expected to be open in the next 5 years and an additional 21 positions open by 2020. The current survey predicts a 56% turn over in mining faculty ranks over the next 10 years but a retirement of 100% of senior faculty over 10 years. 63% of graduate students say they are interested in

  19. Overview of interstate hydrogen pipeline systems.

    Energy Technology Data Exchange (ETDEWEB)

    Gillette, J .L.; Kolpa, R. L

    2008-02-01

    The use of hydrogen in the energy sector of the United States is projected to increase significantly in the future. Current uses are predominantly in the petroleum refining sector, with hydrogen also being used in the manufacture of chemicals and other specialized products. Growth in hydrogen consumption is likely to appear in the refining sector, where greater quantities of hydrogen will be required as the quality of the raw crude decreases, and in the mining and processing of tar sands and other energy resources that are not currently used at a significant level. Furthermore, the use of hydrogen as a transportation fuel has been proposed both by automobile manufacturers and the federal government. Assuming that the use of hydrogen will significantly increase in the future, there would be a corresponding need to transport this material. A variety of production technologies are available for making hydrogen, and there are equally varied raw materials. Potential raw materials include natural gas, coal, nuclear fuel, and renewables such as solar, wind, or wave energy. As these raw materials are not uniformly distributed throughout the United States, it would be necessary to transport either the raw materials or the hydrogen long distances to the appropriate markets. While hydrogen may be transported in a number of possible forms, pipelines currently appear to be the most economical means of moving it in large quantities over great distances. One means of controlling hydrogen pipeline costs is to use common rights-of-way (ROWs) whenever feasible. For that reason, information on hydrogen pipelines is the focus of this document. Many of the features of hydrogen pipelines are similar to those of natural gas pipelines. Furthermore, as hydrogen pipeline networks expand, many of the same construction and operating features of natural gas networks would be replicated. As a result, the description of hydrogen pipelines will be very similar to that of natural gas pipelines

  20. Transformation pipelines for PROJ.4

    Science.gov (United States)

    Knudsen, Thomas; Evers, Kristian

    2017-04-01

    Convert the geographic coordinates to 3D cartesian geocentric coordinates Apply a Helmert transformation from ED50 to ETRS89 Convert back from cartesian to geographic coordinates Finally project the geographic coordinates to UTM zone 32 planar coordinates. The homology between these steps and a Unix shell style pipeline is evident. With this as its main architectural inspiration, the primary feature of our implementation is a pipeline driver, that takes as its user supplied arguments, a series of elementary operations, which it strings together in order to implement the full transformation needed. Also, we have added a number of elementary geodetic operations, including Helmert transformations, general high order polynomial shifts (2D Horner's scheme) and the abridged Molodensky transformation. In anticipation of upcoming support for full time-varying transformations, we also introduce a 4D spatiotemporal data type, and a programming interface (API) for handling this. With these improvements in place, we assert that PROJ.4 is now well on its way from being a mostly-map-projection library, to becoming an almost-generic-geodetic-transformation library.

  1. Planning for purging and loading of a newly constructed gas pipeline system using a pipeline simulator

    Energy Technology Data Exchange (ETDEWEB)

    Mohitpour, M.; Kazakoff, J.; Jenkins, A.; Montemurro, D. [TransCanada Corp., Calgary, AB (Canada)

    2000-07-01

    A brief review of purging and loading of a gas pipeline was presented with a summary of current industry practices. If purging is done when pipelines are put into service, it involves the displacement of air or nitrogen by high pressure natural gas into one end of the pipeline section. If purging is done when a pipeline goes out of service, it involves the displacement of natural gas by air or other neutral gases. Current practices give no consideration to minimize the emission of methane gas into the atmosphere. This paper described a simplified purging calculation method and a simulation technique using commercially available software for planning purging and loading operations of gas pipeline systems. The hydraulic-based simulation technique made it possible to minimize the gas to air interface and minimize the emission of methane gas. The simulation also helped to predict the timing of purging and loading of the pipeline. An example was presented of the newly constructed Mayakan Pipeline in Mexico to demonstrate how the process was developed. Simulation results were favourably compared with field data collected during the actual purging and loading of the pipeline. 11 refs., 5 tabs., 8 figs.

  2. 76 FR 18750 - Humble Gas Pipeline Company; Cobra Pipeline Ltd.; Notice of Baseline Filings

    Science.gov (United States)

    2011-04-05

    ... From the Federal Register Online via the Government Publishing Office DEPARTMENT OF ENERGY Federal Energy Regulatory Commission Humble Gas Pipeline Company; Cobra Pipeline Ltd.; Notice of Baseline Filings Take notice that on March 28, 2011, the applicants listed above submitted a revised baseline filing of...

  3. Integrated surface management for pipeline construction: The Mid-America Pipeline Company Four Corners Project

    Science.gov (United States)

    Maria L. Sonett

    1999-01-01

    Integrated surface management techniques for pipeline construction through arid and semi-arid rangeland ecosystems are presented in a case history of a 412-mile pipeline construction project in New Mexico. Planning, implementation and monitoring for restoration of surface hydrology, soil stabilization, soil cover, and plant species succession are discussed. Planning...

  4. The Dangers of Pipeline Thinking: How the School-to-Prison Pipeline Metaphor Squeezes out Complexity

    Science.gov (United States)

    McGrew, Ken

    2016-01-01

    In this essay Ken McGrew critically examines the "school-to-prison pipeline" metaphor and associated literature. The origins and influence of the metaphor are compared with the origins and influence of the competing "prison industrial complex" concept. Specific weaknesses in the "pipeline literature" are examined.…

  5. 76 FR 44985 - Pipeline Safety: Potential for Damage to Pipeline Facilities Caused by Flooding

    Science.gov (United States)

    2011-07-27

    ... River in the past few months. While the cause of the accident is still under investigation, ExxonMobil.... Coordinate with other pipeline operators in the flood area and establish emergency response centers to act as... others involved in post-flood restoration activities of the presence of pipelines and the risks posed by...

  6. 78 FR 41991 - Pipeline Safety: Potential for Damage to Pipeline Facilities Caused by Flooding

    Science.gov (United States)

    2013-07-12

    ... forces sufficient to cause a failure. These forces are increased by the accumulation of debris against... other pipeline operators in the flood area and establish emergency response centers to act as a liaison... involved in post-flood restoration activities of the presence of pipelines and the risks posed by reduced...

  7. 75 FR 4134 - Pipeline Safety: Leak Detection on Hazardous Liquid Pipelines

    Science.gov (United States)

    2010-01-26

    ... safety study on pipeline Supervisory Control and Data Acquisition (SCADA) systems (NTSB/SS-05/02). The... indications of a leak on the SCADA interface was the impetus for this study. The NTSB examined 13 hazardous... large pipeline breaks. The line balance processes incorporating SCADA or other technology are geared to...

  8. 77 FR 32631 - Lion Oil Trading & Transportation, Inc., Magnolia Pipeline Company, and El Dorado Pipeline...

    Science.gov (United States)

    2012-06-01

    ... Energy Regulatory Commission Lion Oil Trading & Transportation, Inc., Magnolia Pipeline Company, and El... 385.202 (2011), Lion Oil Trading & Transportation, Inc., Magnolia Pipeline Company, and El Dorado... to Lion subject to certain conditions at specified price spreads. In support of the request for...

  9. A novel approach to pipeline tensioner modeling

    Energy Technology Data Exchange (ETDEWEB)

    O' Grady, Robert; Ilie, Daniel; Lane, Michael [MCS Software Division, Galway (Ireland)

    2009-07-01

    As subsea pipeline developments continue to move into deep and ultra-deep water locations, there is an increasing need for the accurate prediction of expected pipeline fatigue life. A significant factor that must be considered as part of this process is the fatigue damage sustained by the pipeline during installation. The magnitude of this installation-related damage is governed by a number of different agents, one of which is the dynamic behavior of the tensioner systems during pipe-laying operations. There are a variety of traditional finite element methods for representing dynamic tensioner behavior. These existing methods, while basic in nature, have been proven to provide adequate forecasts in terms of the dynamic variation in typical installation parameters such as top tension and sagbend/overbend strain. However due to the simplicity of these current approaches, some of them tend to over-estimate the frequency of tensioner pay out/in under dynamic loading. This excessive level of pay out/in motion results in the prediction of additional stress cycles at certain roller beds, which in turn leads to the prediction of unrealistic fatigue damage to the pipeline. This unwarranted fatigue damage then equates to an over-conservative value for the accumulated damage experienced by a pipeline weld during installation, and so leads to a reduction in the estimated fatigue life for the pipeline. This paper describes a novel approach to tensioner modeling which allows for greater control over the velocity of dynamic tensioner pay out/in and so provides a more accurate estimation of fatigue damage experienced by the pipeline during installation. The paper reports on a case study, as outlined in the proceeding section, in which a comparison is made between results from this new tensioner model and from a more conventional approach. The comparison considers typical installation parameters as well as an in-depth look at the predicted fatigue damage for the two methods

  10. Pipeline risk assessment and control: Nigerian National Petroleum Pipeline network experience

    Energy Technology Data Exchange (ETDEWEB)

    Adubi, F.A.; Egho, P.I. [Pipelines and Products Marketing Company Ltd., Nigerian National Petroleum Corporation, Lagos (Nigeria)

    1992-12-31

    Third party encroachment and corrosion were identified as major causes of pipeline failure in Nigeria. The multi-faceted approach developed by the Nigerian National Petroleum Pipeline Corporation for effective assessment and control of risks to pipelines was described. In essence, information provided from each activity is used to complement information from other activities. This approach led to a better understanding of pipeline status and reduced risk of failures. Aerial surveillance was intensified in order to detect illegal activities, halt them, and remedy any damage. Efforts were also made to intensify corrosion monitoring and pipeline integrity surveys to avoid premature failures. Cathodic protection equipment was found to be only partially effective. due to vandalism and uncontrolled bush burning. 10 figs., 1 ref.

  11. The Independent and Interactive Associations of Screen Time and Physical Activity on Mental Health, School Connectedness and Academic Achievement among a Population-Based Sample of Youth.

    Science.gov (United States)

    Trinh, Linda; Wong, Bonny; Faulkner, Guy E

    2015-01-01

    Few studies have addressed the links between sedentary behaviour (SED) and mental health in youth. Most studies on physical activity (PA) and SED examine their independent effects on mental health, or fail to account for PA in this relationship. The purpose of this study is to examine the independent effects of PA and screen time on mental health, school connectedness and academic achievement, and potential interactions between PA and screen time in such associations. Data was obtained through 2,660 adolescents who completed the self-administered Ontario Student Drug Use and Health Survey (OSDUHS) in 2009. Self-reported variables of demographics, PA, screen time, and mental health indicators were also collected. Using logistic regression, screen time was inversely associated with all mental health indicators (pself-esteem was found only in males. Higher screen time was associated with lower self-esteem in males, independent of PA (pacademic outcomes. Being physically active did not result in higher self-esteem in the presence of high screen time among males. These results confirm the value in distinguishing the independent and interactive effects of PA and SED on mental health. Future research should promote PA and reduce screen time to improve mental health outcomes among youth.

  12. Italian Adolescent Gambling Behaviour: Psychometric Evaluation of the South Oaks Gambling Screen: Revised for Adolescents (SOGS-RA) among a sample of Italian students.

    Science.gov (United States)

    Colasante, Emanuela; Gori, Mercedes; Bastiani, Luca; Scalese, Marco; Siciliano, Valeria; Molinaro, Sabrina

    2014-12-01

    Since no Italian validated instrument focuses specifically on the measurement of pathological gambling in very young people, with this study, we aim to adapt an international instrument (SOGS-RA) and assess its psychometric properties in a sample (n = 14.910) of young Italian students aged between 15 and 19 years. Cross-cultural adaptation of the instrument was performed through translation, synthesis of translation, back-translation, expert committee review, and pre-testing. The kappa statistic for test-retest concordance ranged from 0.53 to 0.80. Internal validity was assessed by the MCA that identified one principal component with eigenvalue equal to 3,875: the Divgi index and very simple structure analysis also pointed out one common factor, so uni-dimensionality of the SOGS-RA was accepted. Moreover the SOGS-RA was found to have acceptable internal consistency (α = 0.780). Cronbach's alpha was also assessed separately among males and females (respectively 0.786 and 0.707). The SOGS-RA was assessed in relation to gambling frequency, alcohol and drug use: Chi squared test revealed a strong association both for males and females with gambling frequency (p value ≤ 0.0001), frequent use of illicit drugs (for each drug p value ≤ 0.0001) and having had 3 or more occasions of binge drinking in the last month (p value ≤ 0.0001). At the end we can say that, the results of our study suggest that the SOGS-RA screen may be useful to assess at-risk or problem gambling for both genders in comprehensive youth surveys.

  13. Pipeline four-dimension management is the trend of pipeline integrity management in the future

    Energy Technology Data Exchange (ETDEWEB)

    Shaohua, Dong; Feifan; Zhongchen, Han [China National Petroleum Corporation (CNPC), Beijing (China)

    2009-07-01

    Pipeline integrity management is essential for today's operators to operate their pipelines safety and cost effectively. The latest developments of pipeline integrity management around the world are involved with change of regulation, industry standard and innovation of technology. And who know the trend of PIM in the future, which can be answered in the paper. As a result, the concept of P4DM was set up firstly in the world. The paper analyzed the pipeline HSE management, pipeline integrity management (PIM) and asset integrity management (AIM), the problem of management was produced, and also the Pipeline 4-dimension Management (P4DM) theory was brought forward. According to P4DM, from the hierarchy of P4DM, the management elements, fields, space and time was analyzed. The main content is P4DM integrate the space geography location and time, control and manage the pipeline system in whole process, anywhere and anytime. It includes the pipeline integrity, pipeline operation and emergency, which is integrated by IT system. It come true that the idea, solution, technology, organization, manager alternately intelligently control the process of management. What the paper talks about included the definition of pipeline 4D management, the research develop of P4DM, the theory of P4DM, the relationship between P4DM and PIM, the technology basis of P4DM, how to perform the P4DM and conclusion. The P4DM was produced, which provide the development direction of PIM in the future, and also provide the new ideas for PetroChina in the field of technology and management. (author)

  14. BreakPoint Surveyor: a pipeline for structural variant visualization.

    Science.gov (United States)

    Wyczalkowski, Matthew A; Wylie, Kristine M; Cao, Song; McLellan, Michael D; Flynn, Jennifer; Huang, Mo; Ye, Kai; Fan, Xian; Chen, Ken; Wendl, Michael C; Ding, Li

    2017-10-01

    BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure. Source code and sample data freely available for download at https://github.com/ding-lab/BreakPointSurveyor, distributed under the GNU GPLv3 license, implemented in R, Python and BASH scripts, and supported on Unix/Linux/OS X operating systems. lding@wustl.edu. Supplementary data are available at Bioinformatics online.

  15. A possible role of the Infant/Toddler Sensory Profile in screening for autism: a proof-of-concept study in the specific sample of prematurely born children with birth weights <1,500 g

    Directory of Open Access Journals (Sweden)

    Beranova S

    2017-01-01

    to identify all of the ASD children in our sample (confirmed by cross-validation. The proposed screening tool is scored as follows: 1 if the overall CSBS-DP-ITC value is <45.5, then the screening is positive; 2 if the overall CSBS-DP-ITC value is ≥45.5 and the z-score of the Sensation Seeking subscale of ITSP is ≥1.54, then the screening is positive; 3 otherwise, the screening is negative.Conclusion: The use of CSBS-DP-ITC in combination with the Sensation Seeking subscale of the ITSP improved the accuracy of autism screening in preterm children. Keywords: autism spectrum disorders, preterm children, screening, Modified Checklist for Autism in Toddlers, Communication and Symbolic Behavior Scales Developmental Profile Infant-Toddler Checklist, Infant/Toddler Sensory Profile

  16. A Pipeline for High-Throughput Concentration Response Modeling of Gene Expression for Toxicogenomics.

    Science.gov (United States)

    House, John S; Grimm, Fabian A; Jima, Dereje D; Zhou, Yi-Hui; Rusyn, Ivan; Wright, Fred A

    2017-01-01

    Cell-based assays are an attractive option to measure gene expression response to exposure, but the cost of whole-transcriptome RNA sequencing has been a barrier to the use of gene expression profiling for in vitro toxicity screening. In addition, standard RNA sequencing adds variability due to variable transcript length and amplification. Targeted probe-sequencing technologies such as TempO-Seq, with transcriptomic representation that can vary from hundreds of genes to the entire transcriptome, may reduce some components of variation. Analyses of high-throughput toxicogenomics data require renewed attention to read-calling algorithms and simplified dose-response modeling for datasets with relatively few samples. Using data from induced pluripotent stem cell-derived cardiomyocytes treated with chemicals at varying concentrations, we describe here and make available a pipeline for handling expression data generated by TempO-Seq to align reads, clean and normalize raw count data, identify differentially expressed genes, and calculate transcriptomic concentration-response points of departure. The methods are extensible to other forms of concentration-response gene-expression data, and we discuss the utility of the methods for assessing variation in susceptibility and the diseased cellular state.

  17. Antisocial process screening device: validation on a Russian sample of juvenile delinquents with the emphasis on the role of personality and parental rearing.

    Science.gov (United States)

    Väfors Fritz, Marie; Ruchkin, Vladislav; Koposov, Roman; Af Klinteberg, Britt

    2008-01-01

    The objectives of the present study were 1) to validate the Antisocial Process Screening Device (APSD) in a sample of Russian juvenile delinquents; 2) to examine subgroups of delinquents with higher versus lower levels of childhood problem behaviors with respect to the APSD subscales, personality traits, and parental rearing; and 3) to attempt to replicate the previous finding that the APSD subscale measuring callous/unemotional traits can differentiate subgroups of delinquents with different precursors for problem behaviors (predominantly biological versus predominantly social). A group of 250 Russian juvenile inmates (mean age=16.4) was examined by means of the APSD completed by the staff at the correctional institution. The inmates completed several self-reports assessing their current and childhood behavior problems, personality traits and experienced parental rearing practices. A factor structure of the APSD was obtained that is similar, albeit not identical, to that from the original studies by Frick and colleagues [Frick, P.J., O'Brien, B.S., Wootton, J.M., McBurnett, K., (1994). Psychopathy and conduct problems in children. Journal of Abnormal Psychology, 103, 700-707]; [Frick, P.J., Barry, C.T., Bodin, S.D., (1999). Applying the concept of psychopathy to children: Implications for the Assessment of antisocial youth. In Gacono, C.B. (Ed), The clinical and forensic assessment of psychopathy: A practitioners guide. Hillsdale, NJ: Erlbaum]; [Frick, P.J., Lilienfeld, S.O., Ellis, M., Loney, B., Silverthorn, P., (1999). The association between anxiety and psychopathy dimensions in children. Journal of Abnormal Child Psychology, 27, 383-392]; callous unemotional traits in the present sample were expressed in manipulative behavior. Results further disclosed higher levels of antisocial and aggressive activities, higher levels of personality attributes such as narcissism and novelty seeking, as well as lower cooperativeness, and negatively perceived parental rearing

  18. Performance of HPV E6/E7 mRNA RT-qPCR for screening and diagnosis of cervical cancer with ThinPrep Pap test samples.

    Science.gov (United States)

    Munkhdelger, Jijgee; Kim, Geehyuk; Wang, Hye-young; Lee, Dongsup; Kim, Sunghyun; Choi, Yeonim; Choi, Eunhee; Park, Sunyoung; Jin, Hyunwoo; Park, Kwang Hwa; Lee, Hyeyoung

    2014-10-01

    Recent research has shown that oncogenic human papillomavirus (HPV) DNA, which is currently used in the screening and diagnosis of cervical cancer, can be detected not only in high-grade cervical lesions, but also in low-grade cervical lesions and normal tissues. For this reason, HPV tests targeting the E6 and E7 mRNA of five oncogenic HPV strains (HPV genotypes 16, 18, 31, 33, and 45), which are known to be responsible for the oncogenesis of cervical cancer, have been commercialized using a real-time nucleic acid sequence based amplification (NASBA) assay. Previous data has shown that the real-time NASBA assay has higher clinical specificity than HPV DNA testing (97.1% vs. 53.7%). However, the sensitivity of the real-time NASBA assay was lower than that of HPV DNA testing (41.1% vs. 100%). Despite the fact that there are more than 16 oncogenic HPV genotypes known to cause cervical cancer (HPV genotypes 16, 18, 31, 33, 35, 39, 45, 51, 52, 53, 56, 58, 59, 66, 68, and 69), the commercialized real-time NASBA kit was designed to detect only five genotypes (16, 18, 31, 33, and 45). Therefore, in the present study, CervicGen HPV RT-qDX (Optipharm), a commercial diagnostic kit targeting a HPV E6/E7 mRNA based on RT-qPCR assay was evaluated with RNA extracted from ThinPrep Pap samples, and the results were compared to real-time NASBA data. The sensitivity and specificity of the RT-qPCR assay were 91% and 98.6%, respectively, for the detection of cervical intraepithelial neoplasia CIN2(+) high-grade cervical lesions. Therefore, the CervicGen HPV RT-qDX assay showed a significantly higher sensitivity (91.1%) compared to the real-time NASBA assay (41.1%). In normal cytohistology cases, the specificity was 98.6% and 53.7% for HPV mRNA RT-qPCR and HPV DNA testing, respectively. These results demonstrate that HPV mRNA RT-qPCR better reflects clinical diagnosis. In conclusion, it is suggested that HPV mRNA RT-qPCR overcomes the shortcomings of lower specificity seen in the DNA

  19. JGI Plant Genomics Gene Annotation Pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Shu, Shengqiang; Rokhsar, Dan; Goodstein, David; Hayes, David; Mitros, Therese

    2014-07-14

    Plant genomes vary in size and are highly complex with a high amount of repeats, genome duplication and tandem duplication. Gene encodes a wealth of information useful in studying organism and it is critical to have high quality and stable gene annotation. Thanks to advancement of sequencing technology, many plant species genomes have been sequenced and transcriptomes are also sequenced. To use these vastly large amounts of sequence data to make gene annotation or re-annotation in a timely fashion, an automatic pipeline is needed. JGI plant genomics gene annotation pipeline, called integrated gene call (IGC), is our effort toward this aim with aid of a RNA-seq transcriptome assembly pipeline. It utilizes several gene predictors based on homolog peptides and transcript ORFs. See Methods for detail. Here we present genome annotation of JGI flagship green plants produced by this pipeline plus Arabidopsis and rice except for chlamy which is done by a third party. The genome annotations of these species and others are used in our gene family build pipeline and accessible via JGI Phytozome portal whose URL and front page snapshot are shown below.

  20. Bauxite slurry pipeline: start up operation

    Energy Technology Data Exchange (ETDEWEB)

    Othon, Otilio; Babosa, Eder; Edvan, Francisco; Brittes, Geraldo; Melo, Gerson; Janir, Joao; Favacho, Orlando; Leao, Marcos; Farias, Obadias [Vale, Rio de Janeiro, RJ (Brazil); Goncalves, Nilton [Anglo Ferrous Brazil S.A., Rio de Janeiro, RJ (Brazil)

    2009-07-01

    The mine of Miltonia is located in Paragominas-PA, in the north of Brazil. Bauxite slurry pipeline starts at the Mine of Miltonia and finishes in the draining installation of Alunorte refinery at the port of Barcarena-PA, located approximately 244km away from the mine. The pipeline runs over seven cities and passes below four great rivers stream beds. The system was designed for an underground 24 inches OD steel pipe to carry 9.9 million dry metric tonnes per annum (dMTAs) of 50.5% solid concentration bauxite slurry, using only one pumping station. The system is composed by four storage tanks and six piston diaphragm pumps, supplying a flow of 1680 m3/h. There is a cathodic protection system along the pipeline extension to prevent external corrosion and five pressure monitoring stations to control hydraulic conditions, there is also a fiber optic cable interconnection between pump station and terminal station. Pipeline Systems Incorporated (PSI) was the designer and followed the commissioning program of the start up operations. This paper will describe the beginning of the pipeline operations, technical aspects of the project, the operational experiences acquired in these two years, the faced problems and also the future planning. (author)

  1. Diagnostics and reliability of pipeline systems

    CERN Document Server

    Timashev, Sviatoslav

    2016-01-01

    The book contains solutions to fundamental problems which arise due to the logic of development of specific branches of science, which are related to pipeline safety, but mainly are subordinate to the needs of pipeline transportation.          The book deploys important but not yet solved aspects of reliability and safety assurance of pipeline systems, which are vital aspects not only for the oil and gas industry and, in general, fuel and energy industries , but also to virtually all contemporary industries and technologies. The volume will be useful to specialists and experts in the field of diagnostics/ inspection, monitoring, reliability and safety of critical infrastructures. First and foremost, it will be useful to the decision making persons —operators of different types of pipelines, pipeline diagnostics/inspection vendors, and designers of in-line –inspection (ILI) tools, industrial and ecological safety specialists, as well as to researchers and graduate students.

  2. Bad Actors Criticality Assessment for Pipeline system

    Science.gov (United States)

    Nasir, Meseret; Chong, Kit wee; Osman, Sabtuni; Siaw Khur, Wee

    2015-04-01

    Failure of a pipeline system could bring huge economic loss. In order to mitigate such catastrophic loss, it is required to evaluate and rank the impact of each bad actor of the pipeline system. In this study, bad actors are known as the root causes or any potential factor leading to the system downtime. Fault Tree Analysis (FTA) is used to analyze the probability of occurrence for each bad actor. Bimbaum's Importance and criticality measure (BICM) is also employed to rank the impact of each bad actor on the pipeline system failure. The results demonstrate that internal corrosion; external corrosion and construction damage are critical and highly contribute to the pipeline system failure with 48.0%, 12.4% and 6.0% respectively. Thus, a minor improvement in internal corrosion; external corrosion and construction damage would bring significant changes in the pipeline system performance and reliability. These results could also be useful to develop efficient maintenance strategy by identifying the critical bad actors.

  3. Bioinformatic pipelines in Python with Leaf

    Science.gov (United States)

    2013-01-01

    Background An incremental, loosely planned development approach is often used in bioinformatic studies when dealing with custom data analysis in a rapidly changing environment. Unfortunately, the lack of a rigorous software structuring can undermine the maintainability, communicability and replicability of the process. To ameliorate this problem we propose the Leaf system, the aim of which is to seamlessly introduce the pipeline formality on top of a dynamical development process with minimum overhead for the programmer, thus providing a simple layer of software structuring. Results Leaf includes a formal language for the definition of pipelines with code that can be transparently inserted into the user’s Python code. Its syntax is designed to visually highlight dependencies in the pipeline structure it defines. While encouraging the developer to think in terms of bioinformatic pipelines, Leaf supports a number of automated features including data and session persistence, consistency checks between steps of the analysis, processing optimization and publication of the analytic protocol in the form of a hypertext. Conclusions Leaf offers a powerful balance between plan-driven and change-driven development environments in the design, management and communication of bioinformatic pipelines. Its unique features make it a valuable alternative to other related tools. PMID:23786315

  4. Underwater pipeline impact localization using piezoceramic transducers

    Science.gov (United States)

    Zhu, Junxiao; Ho, Siu Chun Michael; Patil, Devendra; Wang, Ning; Hirsch, Rachel; Song, Gangbing

    2017-10-01

    Reports indicated that impact events accounted for 47% of offshore pipeline failures, which calls for impact detection and localization for subsea pipelines. In this paper, an innovative method for rapid localization of impacts on underwater pipelines utilizing a novel determination technique for both arrival-time and group velocity (ATGV) of ultrasonic guided waves with lead zirconate titanate (PZT) transducers is described. PZT transducers mounted on the outer surface of a model pipeline were utilized to measure ultrasonic guided waves generated by impact events. Based on the signals from PZT sensors, the ATGV technique integrates wavelet decomposition, Hilbert transform and statistical analysis to pinpoint the arrival-time of the designated ultrasonic guided waves with a specific group velocity. Experimental results have verified the effectiveness and the localization accuracy for eight impact points along a model underwater pipeline. All estimations errors were small and were comparable with the wavelength of the designated ultrasonic guided waves. Furthermore, the method is robust against the low frequency structural vibration introduced by other external forces.

  5. Hazard identification studies applied to oil pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Savio, Augusto; Alpert, Melina L. [TECNA S.A., Buenos Aires (Argentina)], e-mail: asavio@tecna.com, e-mail: malpert@tecna.com

    2008-07-01

    In order to assess risks inherent to an Oil Pipeline, it is imperative to analyze what happens 'outside the process'. HAZID (HAZard IDentification) studies are mainly carried out for this purpose. HAZID is a formal study which identifies hazards and risks associated to an operation or facility and enable its acceptability assessment. It is a brainstorming exercise guided by a typical 'Checklist', divided into four Sections: External, Facilities and Health Hazards and Issues pertaining to Project Execution, which are further subdivided into Hazard Categories. For each Category, there are 'Guide-words' and 'Prompts'. Even if an Oil Pipeline Risk Assessment can be performed by means of the above referred 'Checklist', carrying out the actual process can become lengthy and annoying due to the lack of specificity. This work aims at presenting the most suitable 'Checklist' for the identification of Oil Pipeline Risk Assessment, although it could be used for Gas Pipeline Risk Assessment too. Prepared ad hoc, this list, is based on the spill causes established by CONCAWE (CONservation of Clean Air Water in Europe). Performing Oil Pipeline Risk Assessment by means of specially formulated Checklist enables the Study Team to easily identify risks, shortens execution time and provides both accuracy and specificity. (author)

  6. The Dark Energy Survey Image Processing Pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Morganson, E.; et al.

    2018-01-09

    The Dark Energy Survey (DES) is a five-year optical imaging campaign with the goal of understanding the origin of cosmic acceleration. DES performs a 5000 square degree survey of the southern sky in five optical bands (g,r,i,z,Y) to a depth of ~24th magnitude. Contemporaneously, DES performs a deep, time-domain survey in four optical bands (g,r,i,z) over 27 square degrees. DES exposures are processed nightly with an evolving data reduction pipeline and evaluated for image quality to determine if they need to be retaken. Difference imaging and transient source detection are also performed in the time domain component nightly. On a bi-annual basis, DES exposures are reprocessed with a refined pipeline and coadded to maximize imaging depth. Here we describe the DES image processing pipeline in support of DES science, as a reference for users of archival DES data, and as a guide for future astronomical surveys.

  7. Digitally assisted pipeline ADCs theory and implementation

    CERN Document Server

    Murmann, Boris

    2007-01-01

    List of Figures. List of Tables. Acknowledgements. Preface. 1: Introduction. 1. Motivation. 2. Overview. 3. Chapter Organization. 2: Performance Trends. 1. Introduction. 2. Digital Performance Trends. 3. ADC Performance Trends. 3: Scaling Analysis. 1. Introduction. 2. Basic Device Scaling from a Digital Perspective. 3. Technology Metrics for Analog Circuits. 4. Scaling Impact on Matching-Limited Circuits. 5. Scaling Impact on Noise-Limited Circuits. 4: Improving Analog Circuit Efficiency. 1. Introduction. 2. Analog Circuit Challenges. 3. The Cost of Feedback. 4. Two-Stage Feedback Amplifier vs. Open-Loop Gain Stage. 5. Discussion. 5: Open-Loop Pipelined ADCs. 1. A Brief Review of Pipelined ADCs. 2. Conventional Stage Implementation. 3. Open-Loop Pipeline Stages. 4. Alternative Transconductor Implementations. 6: Digital Nonlinearity Correction. 1. Overview. 2. Error Model and Digital Correction. 3. Alternative Error Models. 7: Statistics-Based Parameter Estimation. 1. Introduction. 2. Modulation Approach. 3. R...

  8. V-GAP: Viral genome assembly pipeline

    KAUST Repository

    Nakamura, Yoji

    2015-10-22

    Next-generation sequencing technologies have allowed the rapid determination of the complete genomes of many organisms. Although shotgun sequences from large genome organisms are still difficult to reconstruct perfect contigs each of which represents a full chromosome, those from small genomes have been assembled successfully into a very small number of contigs. In this study, we show that shotgun reads from phage genomes can be reconstructed into a single contig by controlling the number of read sequences used in de novo assembly. We have developed a pipeline to assemble small viral genomes with good reliability using a resampling method from shotgun data. This pipeline, named V-GAP (Viral Genome Assembly Pipeline), will contribute to the rapid genome typing of viruses, which are highly divergent, and thus will meet the increasing need for viral genome comparisons in metagenomic studies.

  9. Hubble Legacy Archive (HLA) Pipeline Progression

    Science.gov (United States)

    Anderson, Rachel E.; Casertano, S.; Lindsay, K.

    2013-01-01

    The HLA maintains a strong commitment to continuing improvement of our Hubble Space Telescope data processing pipelines with the goal of generating better science-ready data products. The HLA image processing pipeline is transitioning from the use of MultiDrizzle to AstroDrizzle for image registration and combination. It is expected that this change will allow for the creation of higher quality science products with improved astrometric solutions. Headerlets, a newly developed tool for AstroDrizzle, will be utilized and made available to simplify access to multiple astrometric solutions for a given data set. The capabilities of AstroDrizzle will allow for functionally simplified data processing, standardizing and streamlining the data reduction process and making it easier for users to reproduce our results. We are beginning with the HLA WFC3 data processing pipeline, and then plan to extend its application to other HST instrument data.

  10. Cervical cancer screening in rural Bhutan with the careHPV test on self-collected samples: an ongoing cross-sectional, population-based study (REACH-Bhutan).

    Science.gov (United States)

    Baussano, Iacopo; Tshering, Sangay; Choden, Tashi; Lazzarato, Fulvio; Tenet, Vanessa; Plummer, Martyn; Franceschi, Silvia; Clifford, Gary M; Tshomo, Ugyen

    2017-07-19

    The Bhutanese Screening Programme recommends a Pap smear every 3 years for women aged 25-65 years, and coverage ranges from 20% to 60%, being especially challenging in rural settings. The 'REACH-Bhutan' study was conducted to assess the feasibility and outcomes of a novel approach to cervical cancer screening in rural Bhutan. Cross-sectional, population-based study of cervical cancer screening based on the careHPV test on self-collected samples. Women were recruited in rural primary healthcare centres, that is, Basic Health Units (BHU), across Bhutan. Overall, 3648 women aged 30-60 were invited from 15 BHUs differing in accessibility, size and ethnic composition of the population. Participants provided a self-collected cervicovaginal sample and were interviewed. Samples were tested using careHPV in Thimphu (the Bhutanese capital) referral laboratory. Screening participation by geographic area, centre, age and travelling time. Previous screening history and careHPV positivity by selected characteristics of the participants. In April/May 2016, 2590 women (median age: 41) were enrolled. Study participation was 71% and significantly heterogeneous by BHU (range: 31%-96%). Participation decreased with increase in age (81% in women aged 30-39 years; 59% in ≥50 years) and travelling time (90% in women living 6 hours away). 50% of participants reported no previous screening, with the proportion of never-screened women varying significantly by BHU (range: 2%-72%). 265 women (10%; 95% CI 9% to 11%) were careHPV positive, with a significant variation by BHU (range: 5%-19%) and number of sexual partners (prevalence ratio for ≥3 vs 0-1, 1.55; 95% CI 1.05 to 2.27). Community-based cervical cancer screening by testing self-collected samples for human papillomavirus (HPV) can achieve high coverage in rural Bhutan. However, solutions to bring self-collection, HPV testing and precancer treatment closer to the remotest villages are needed. © Article author(s) (or

  11. 5. symposium of pipeline technology. Proceedings; 5. Symposium Pipelinetechnik. Vortraege

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2002-07-01

    Innovations in the technical systems of rules for pipelines. Data and speech transmission at pipelines via light wiring. Dynamic leak detection and localisation. Future integrity as part of the total pipeline integrity. Assessment of pipeline flaws using the European SINTAP procedure. Automatic registration of alternating pressure loads. Rehabilitation of a crude oil pipeline. Online Inspektion von ''Non-piggable pipelines''. New technologies for the inspection of longitudinal welds and longitudinal oriented defects in pipelines. Construction of intelligent pigs with regard to the assessment of defects in pipelines. (orig./GL) [German] Aus dem Inhalt: Neuerungen im technischen Regelwerk fuer Fernleitungen. Daten- und Sprachuebertragung an Fernleitungen ueber Lichtwellenleiter. Dynamische Leckerkennung und -ortung. Future intergrity as part of the total pipeline integrity. Fehlerstellenbewertung an einer Pipeline durch Anwendung des SINTAP-Verfahrens. Automatische Lastwechselerfassung. Sanierung einer Rohoelpipeline. Online Inspektion von ''Non-piggable pipelines''. Neue Technologien im Bereich der Inspektion von Laengsnaehten und laengsorientierten Fehlern in Pipelines. Neubau von intelligenten Molchen unter dem Aspekt der Bewertung von Fehlern in Pipelines. (orig./GL)

  12. Analysis of Bacterial and Archaeal Communities along a High-Molecular-Weight Polyacrylamide Transportation Pipeline System in an Oil Field

    OpenAIRE

    Li, Cai-Yun; Li, Jing-Yan; Mbadinga, Serge; Liu, Jin-Feng; Gu, Ji-Dong; Mu, Bo-Zhong

    2015-01-01

    Viscosity loss of high-molecular-weight partially hydrolyzed polyacrylamide (HPAM) solution was observed in a water injection pipeline before being injected into subterranean oil wells. In order to investigate the possible involvement of microorganisms in HPAM viscosity loss, both bacterial and archaeal community compositions of four samples collected from different points of the transportation pipeline were analyzed using PCR-amplification of the 16S rRNA gene and clone library construction...

  13. The e-MERLIN Data Reduction Pipeline

    OpenAIRE

    Megan Kirsty Argo

    2015-01-01

    Written in Python and utilising ParselTongue to interface with the Astronomical Image Processing System (AIPS), the e-MERLIN data reduction pipeline is intended to automate the procedures required in processing and calibrating radio astronomy data from the e-MERLIN correlator. Driven by a plain text file of input parameters, the pipeline is modular and can be run in stages by the user, depending on requirements. The software includes options to load raw data, average in time and/or frequency,...

  14. Self lubrication of bitumen froth in pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Joseph, D.D. [Univ. of Minnesota, Minneapolis, MN (United States)

    1997-12-31

    In this paper I will review the main properties of water lubricated pipelines and explain some new features which have emerged from studies of self-lubrication of Syncrudes` bitumen froth. When heavy oils are lubricated with water, the water and oil are continuously injected into a pipeline and the water is stable when in a lubricating sheath around the oil core. In the case of bitumen froth obtained from the Alberta tar sands, the water is dispersed in the bitumen and it is liberated at the wall under shear; water injection is not necessary because the froth is self-lubricating.

  15. Desain Layout 1-Stage ADC Pipeline 80Msps dengan Mentor Graphics 0,35µm untuk Aplikasi Kamera Kecepatan Tinggi

    Directory of Open Access Journals (Sweden)

    Hamzah Afandi

    2012-10-01

    Full Text Available Design layout 1-stage pipeline is part of the 8-stage pipeline 80 Msps ADC. Layout 1-stage pipeline consists of 3 units : op-amp, switch capacitor, precision comparator with latch. Pipeline ADC works gradually and requires synchronization of digital output 8 stage by using a unit delay circuit (D-FF. Pipeline ADC requires pulse rate (clockgenerator to support its work. Units OP-AMP transconductance CMOS components designed with the correct specification ADC applications with capacitive loads, with a large input impedance and minimize noise. The precision comparator has Vos(offset voltage approximately equal to 0V. The capacitor switch designs use NMOS switch as a switch for the sampling and multiplying. In the sampling phase and multiplying processes, the ADC requires a clock pulse with a non-intersect mode (lapping. The width of non-overlapping period was adjusted to the time of constance in the sampling process and multiplying. The total number of each pulse period equal to 12.5 ns or equal to the frequency of 80MHz. In the 1-stage layout an additional correction capacitor was required to correct residual voltage. The total area of the layout 1-stage pipeline ADC is 1-bit 200 μm x 98μm.

  16. QUANTITATIVE RISK MAPPING OF URBAN GAS PIPELINE NETWORKS USING GIS

    National Research Council Canada - National Science Library

    P. Azari; M. Karimi

    2017-01-01

    Natural gas is considered an important source of energy in the world. By increasing growth of urbanization, urban gas pipelines which transmit natural gas from transmission pipelines to consumers, will become a dense network...

  17. 75 FR 38799 - ETC Tiger Pipeline, LLC; Notice of Application

    Science.gov (United States)

    2010-07-06

    ...] ETC Tiger Pipeline, LLC; Notice of Application June 25, 2010. Take notice that on June 15, 2010, ETC Tiger Pipeline, LLC (ETC Tiger), 711 Louisiana Street, Suite 900, Houston, Texas 77002, filed an...

  18. SIMPLEX: cloud-enabled pipeline for the comprehensive analysis of exome sequencing data.

    Directory of Open Access Journals (Sweden)

    Maria Fischer

    Full Text Available In recent studies, exome sequencing has proven to be a successful screening tool for the identification of candidate genes causing rare genetic diseases. Although underlying targeted sequencing methods are well established, necessary data handling and focused, structured analysis still remain demanding tasks. Here, we present a cloud-enabled autonomous analysis pipeline, which comprises the complete exome analysis workflow. The pipeline combines several in-house developed and published applications to perform the following steps: (a initial quality control, (b intelligent data filtering and pre-processing, (c sequence alignment to a reference genome, (d SNP and DIP detection, (e functional annotation of variants using different approaches, and (f detailed report generation during various stages of the workflow. The pipeline connects the selected analysis steps, exposes all available parameters for customized usage, performs required data handling, and distributes computationally expensive tasks either on a dedicated high-performance computing infrastructure or on the Amazon cloud environment (EC2. The presented application has already been used in several research projects including studies to elucidate the role of rare genetic diseases. The pipeline is continuously tested and is publicly available under the GPL as a VirtualBox or Cloud image at http://simplex.i-med.ac.at; additional supplementary data is provided at http://www.icbi.at/exome.

  19. SIMPLEX: cloud-enabled pipeline for the comprehensive analysis of exome sequencing data.

    Science.gov (United States)

    Fischer, Maria; Snajder, Rene; Pabinger, Stephan; Dander, Andreas; Schossig, Anna; Zschocke, Johannes; Trajanoski, Zlatko; Stocker, Gernot

    2012-01-01

    In recent studies, exome sequencing has proven to be a successful screening tool for the identification of candidate genes causing rare genetic diseases. Although underlying targeted sequencing methods are well established, necessary data handling and focused, structured analysis still remain demanding tasks. Here, we present a cloud-enabled autonomous analysis pipeline, which comprises the complete exome analysis workflow. The pipeline combines several in-house developed and published applications to perform the following steps: (a) initial quality control, (b) intelligent data filtering and pre-processing, (c) sequence alignment to a reference genome, (d) SNP and DIP detection, (e) functional annotation of variants using different approaches, and (f) detailed report generation during various stages of the workflow. The pipeline connects the selected analysis steps, exposes all available parameters for customized usage, performs required data handling, and distributes computationally expensive tasks either on a dedicated high-performance computing infrastructure or on the Amazon cloud environment (EC2). The presented application has already been used in several research projects including studies to elucidate the role of rare genetic diseases. The pipeline is continuously tested and is publicly available under the GPL as a VirtualBox or Cloud image at http://simplex.i-med.ac.at; additional supplementary data is provided at http://www.icbi.at/exome.

  20. The HEASARC Swift Gamma-Ray Burst Archive: The Pipeline and the Catalog

    Science.gov (United States)

    Donato, Davide; Angelini, Lorella; Padgett, C.A.; Reichard, T.; Gehrels, Neil; Marshall, Francis E.; Sakamoto, Takanori

    2012-01-01

    Since its launch in late 2004, the Swift satellite triggered or observed an average of one gamma-ray burst (GRB) every 3 days, for a total of 771 GRBs by 2012 January. Here, we report the development of a pipeline that semi automatically performs the data-reduction and data-analysis processes for the three instruments on board Swift (BAT, XRT, UVOT). The pipeline is written in Perl, and it uses only HEAsoft tools and can be used to perform the analysis of a majority of the point-like objects (e.g., GRBs, active galactic nuclei, pulsars) observed by Swift. We run the pipeline on the GRBs, and we present a database containing the screened data, the output products, and the results of our ongoing analysis. Furthermore, we created a catalog summarizing some GRB information, collected either by running the pipeline or from the literature. The Perl script, the database, and the catalog are available for downloading and querying at the HEASARC Web site.

  1. Development of an automated imaging pipeline for the analysis of the zebrafish larval kidney.

    Directory of Open Access Journals (Sweden)

    Jens H Westhoff

    Full Text Available The analysis of kidney malformation caused by environmental influences during nephrogenesis or by hereditary nephropathies requires animal models allowing the in vivo observation of developmental processes. The zebrafish has emerged as a useful model system for the analysis of vertebrate organ development and function, and it is suitable for the identification of organotoxic or disease-modulating compounds on a larger scale. However, to fully exploit its potential in high content screening applications, dedicated protocols are required allowing the consistent visualization of inner organs such as the embryonic kidney. To this end, we developed a high content screening compatible pipeline for the automated imaging of standardized views of the developing pronephros in zebrafish larvae. Using a custom designed tool, cavities were generated in agarose coated microtiter plates allowing for accurate positioning and orientation of zebrafish larvae. This enabled the subsequent automated acquisition of stable and consistent dorsal views of pronephric kidneys. The established pipeline was applied in a pilot screen for the analysis of the impact of potentially nephrotoxic drugs on zebrafish pronephros development in the Tg(wt1b:EGFP transgenic line in which the developing pronephros is highlighted by GFP expression. The consistent image data that was acquired allowed for quantification of gross morphological pronephric phenotypes, revealing concentration dependent effects of several compounds on nephrogenesis. In addition, applicability of the imaging pipeline was further confirmed in a morpholino based model for cilia-associated human genetic disorders associated with different intraflagellar transport genes. The developed tools and pipeline can be used to study various aspects in zebrafish kidney research, and can be readily adapted for the analysis of other organ systems.

  2. Development of an automated imaging pipeline for the analysis of the zebrafish larval kidney.

    Science.gov (United States)

    Westhoff, Jens H; Giselbrecht, Stefan; Schmidts, Miriam; Schindler, Sebastian; Beales, Philip L; Tönshoff, Burkhard; Liebel, Urban; Gehrig, Jochen

    2013-01-01

    The analysis of kidney malformation caused by environmental influences during nephrogenesis or by hereditary nephropathies requires animal models allowing the in vivo observation of developmental processes. The zebrafish has emerged as a useful model system for the analysis of vertebrate organ development and function, and it is suitable for the identification of organotoxic or disease-modulating compounds on a larger scale. However, to fully exploit its potential in high content screening applications, dedicated protocols are required allowing the consistent visualization of inner organs such as the embryonic kidney. To this end, we developed a high content screening compatible pipeline for the automated imaging of standardized views of the developing pronephros in zebrafish larvae. Using a custom designed tool, cavities were generated in agarose coated microtiter plates allowing for accurate positioning and orientation of zebrafish larvae. This enabled the subsequent automated acquisition of stable and consistent dorsal views of pronephric kidneys. The established pipeline was applied in a pilot screen for the analysis of the impact of potentially nephrotoxic drugs on zebrafish pronephros development in the Tg(wt1b:EGFP) transgenic line in which the developing pronephros is highlighted by GFP expression. The consistent image data that was acquired allowed for quantification of gross morphological pronephric phenotypes, revealing concentration dependent effects of several compounds on nephrogenesis. In addition, applicability of the imaging pipeline was further confirmed in a morpholino based model for cilia-associated human genetic disorders associated with different intraflagellar transport genes. The developed tools and pipeline can be used to study various aspects in zebrafish kidney research, and can be readily adapted for the analysis of other organ systems.

  3. pISTil: a pipeline for yeast two-hybrid Interaction Sequence Tags identification and analysis

    Directory of Open Access Journals (Sweden)

    de Chassey Benoît

    2009-10-01

    Full Text Available Abstract Background High-throughput screening of protein-protein interactions opens new systems biology perspectives for the comprehensive understanding of cell physiology in normal and pathological conditions. In this context, yeast two-hybrid system appears as a promising approach to efficiently reconstruct protein interaction networks at the proteome-wide scale. This protein interaction screening method generates a large amount of raw sequence data, i.e. the ISTs (Interaction Sequence Tags, which urgently need appropriate tools for their systematic and standardised analysis. Findings We develop pISTil, a bioinformatics pipeline combined with a user-friendly web-interface: (i to establish a standardised system to analyse and to annotate ISTs generated by two-hybrid technologies with high performance and flexibility and (ii to provide high-quality protein-protein interaction datasets for systems-level approach. This pipeline has been validated on a large dataset comprising more than 11.000 ISTs. As a case study, a detailed analysis of ISTs obtained from yeast two-hybrid screens of Hepatitis C Virus proteins against human cDNA libraries is also provided. Conclusion We have developed pISTil, an open source pipeline made of a collection of several applications governed by a Perl script. The pISTil pipeline is intended to laboratories, with IT-expertise in system administration, scripting and database management, willing to automatically process large amount of ISTs data for accurate reconstruction of protein interaction networks in a systems biology perspective. pISTil is publicly available for download at http://sourceforge.net/projects/pistil.

  4. Molgenis-impute: imputation pipeline in a box.

    Science.gov (United States)

    Kanterakis, Alexandros; Deelen, Patrick; van Dijk, Freerk; Byelas, Heorhiy; Dijkstra, Martijn; Swertz, Morris A

    2015-08-19

    Genotype imputation is an important procedure in current genomic analysis such as genome-wide association studies, meta-analyses and fine mapping. Although high quality tools are available that perform the steps of this process, considerable effort and expertise is required to set up and run a best practice imputation pipeline, particularly for larger genotype datasets, where imputation has to scale out in parallel on computer clusters. Here we present MOLGENIS-impute, an 'imputation in a box' solution that seamlessly and transparently automates the set up and running of all the steps of the imputation process. These steps include genome build liftover (liftovering), genotype phasing with SHAPEIT2, quality control, sample and chromosomal chunking/merging, and imputation with IMPUTE2. MOLGENIS-impute builds on MOLGENIS-compute, a simple pipeline management platform for submission and monitoring of bioinformatics tasks in High Performance Computing (HPC) environments like local/cloud servers, clusters and grids. All the required tools, data and scripts are downloaded and installed in a single step. Researchers with diverse backgrounds and expertise have tested MOLGENIS-impute on different locations and imputed over 30,000 samples so far using the 1,000 Genomes Project and new Genome of the Netherlands data as the imputation reference. The tests have been performed on PBS/SGE clusters, cloud VMs and in a grid HPC environment. MOLGENIS-impute gives priority to the ease of setting up, configuring and running an imputation. It has minimal dependencies and wraps the pipeline in a simple command line interface, without sacrificing flexibility to adapt or limiting the options of underlying imputation tools. It does not require knowledge of a workflow system or programming, and is targeted at researchers who just want to apply best practices in imputation via simple commands. It is built on the MOLGENIS compute workflow framework to enable customization with additional

  5. [Chemical-microbiological diagnosis of stress-corrosive damage to pipelines

    Science.gov (United States)

    Kholodenko, V P; Zhigletsova, S K; Chugunov, V A; Rodin, V B; Kobelev, V S; Karpov, S V

    2000-01-01

    Samples of soil, ground, electrolyte, corrosion products, and protective coating were taken after excavating pipelines. The depth of stress corrosion cracks of the pipe steel was mostly related to the numbers of sulfate-reducing and denitrifying bacteria. In certain types of soil, damage correlated with the number of acid-producing microorganisms and aerobic chemoorganotrophs (saprophytes). A correlation was found between the extent of stress-corrosion damage to pipelines and the contents of reduced iron, sulfides, and organic carbon in surrounding ground.

  6. 76 FR 68828 - Pipeline Safety: Emergency Responder Forum

    Science.gov (United States)

    2011-11-07

    ... Administration [Docket ID PHMSA-2011-0295] Pipeline Safety: Emergency Responder Forum AGENCY: Pipeline and Hazardous Materials Safety Administration (PHMSA), DOT. ACTION: Notice of Forum. SUMMARY: PHMSA is co-sponsoring a one-day Emergency Responder Forum with the National Association of Pipeline Safety...

  7. legal and institutional framework for promoting oil pipeline security ...

    African Journals Online (AJOL)

    RAYAN_

    The hacking into pipelines to steal crude oil to refine later and sell abroad is illegal bunkering. Pipeline vandalism is the intentional destruction of pipelines, platforms loading barge and other facilities for selfish .... of funnels, drilling tools and plastic hoses to syphon the products. Also, only a few cases of vandalism occurred.

  8. Legal and instututional framework for promoting oil pipeline security ...

    African Journals Online (AJOL)

    ... of the security agencies saddled with the overall responsibility for managing as well as safeguarding the pipelines to ensure their productivity; and overhauling the entire security apparatus put in place to protect oil pipelines in Nigeria by having a sustainable and strategic approach to dealing with oil pipeline insecurity.

  9. 18 CFR 2.57 - Temporary certificates-pipeline companies.

    Science.gov (United States)

    2010-04-01

    ...-pipeline companies. 2.57 Section 2.57 Conservation of Power and Water Resources FEDERAL ENERGY REGULATORY... Policy and Interpretations Under the Natural Gas Act § 2.57 Temporary certificates—pipeline companies... the proposed construction is of major proportions. Pipeline companies are accordingly urged to conduct...

  10. 75 FR 73160 - Pipeline Safety: Information Collection Activities

    Science.gov (United States)

    2010-11-29

    ... Natural Gas Facilities. OMB Control Number: 2137-0578. Type of Request: Renewal of a currently approved... Safety-Related Conditions on Gas, Hazardous Liquid, and Carbon Dioxide Pipelines and Liquefied Natural... Dioxide Pipelines and Liquefied Natural Gas Facilities.'' The Pipeline Safety Laws (49 U.S.C. 60132...

  11. 75 FR 66046 - Capacity Transfers on Intrastate Natural Gas Pipelines

    Science.gov (United States)

    2010-10-27

    ... Energy Regulatory Commission 18 CFR Part 284 Capacity Transfers on Intrastate Natural Gas Pipelines... capacity on intrastate natural gas pipelines providing interstate transportation and storage services under section 311 of the Natural Gas Policy Act of 1978 and Hinshaw pipelines providing such services pursuant...

  12. Testing the GONG ring-diagram pipeline with HMI Dopplergrams

    Energy Technology Data Exchange (ETDEWEB)

    Jain, Kiran; Tripathy, S C; Hernandez, I Gonzalez; Kholikov, S; Hill, F; Komm, R [GONG, National Solar Observatory, Tucson, AZ 85719-4933 (United States); Bogart, R [HEPL, Stanford University, Stanford, CA 94305-4085 (United States); Haber, D, E-mail: kjain@noao.edu [JILA, University of Colorado, Boulder, CO 80309-0440 (United States)

    2011-01-01

    The GONG ring-diagram pipeline was developed to analyze GONG+ Dopplergrams in order to extract information about solar subsurface flows and has been extensively tested for this purpose. Here we present preliminary results obtained by analyzing the HMI Dopplergrams with the GONG pipeline and compare them with those obtained from the HMI ring-diagram pipeline.

  13. 77 FR 46155 - Pipeline Safety: Information Collection Activities

    Science.gov (United States)

    2012-08-02

    ... information collections relate to the pipeline integrity management requirements for gas transmission pipeline... comments received will be posted without change to http://www.regulations.gov , including any personal... activity. PHMSA requests comments on the following information collections: 1. Title: Pipeline Integrity...

  14. Development of a Free-Swimming Acoustic Tool for Liquid Pipeline Leak Detection Including Evaluation for Natural Gas Pipeline Applications

    Science.gov (United States)

    2010-08-01

    Significant financial and environmental consequences often result from line leakage of oil product pipelines. Product can escape into the surrounding soil as even the smallest leak can lead to rupture of the pipeline. From a health perspective, water...

  15. Total pipeline integrity management system implemented for KOC pipelines - a case study

    Energy Technology Data Exchange (ETDEWEB)

    Isaac, M. Robb [NDT Middle East FZE (Kuwait)], email: Robb.Isaac@ndt-global.com; Al-Sulaiman, Saleh; Sharma, Sandeep [Kuwait Oil Company (Kuwait)], email: ssulaima@kockw.com, email: sasharma@kockw.com; Martin, Monty R. [NDT Systems and services Inc. (Canada)], email: Monty.Martin@ndt-global.com

    2010-07-01

    Kuwait Oil Company (KOC) is a subsidiary of Kuwait Petroleum Corporation and they both own and operate the whole oil and gas pipeline network in Kuwait. KOC transit system consists of hundreds of pipelines, thousands of wellhead flow lines and offshore lines. Since many data were missing, in 2005 KOC implemented a total pipeline integrity management system (TPIMS) to conduct an integrity assessment of its facilities. This study aims at providing the results of TPIMS's implementation at KOC. The project digitalized and centralized information relevant to the integrity of the pipeline network while reducing the effort required in terms of mitigating hazards and threats to the facilities. Results showed that the implementation of the TPIMS at KOC made it possible to manage information in a single environment. This study highlighted the benefits of implementing the TPIMS for efficient planning and utilization of data.

  16. Modeling and monitoring of pipelines and networks advanced tools for automatic monitoring and supervision of pipelines

    CERN Document Server

    Torres, Lizeth

    2017-01-01

    This book focuses on the analysis and design of advanced techniques for on-line automatic computational monitoring of pipelines and pipe networks. It discusses how to improve the systems’ security considering mathematical models of the flow, historical flow rate and pressure data, with the main goal of reducing the number of sensors installed along a pipeline. The techniques presented in the book have been implemented in digital systems to enhance the abilities of the pipeline network’s operators in recognizing anomalies. A real leak scenario in a Mexican water pipeline is used to illustrate the benefits of these techniques in locating the position of a leak. Intended for an interdisciplinary audience, the book addresses researchers and professionals in the areas of mechanical, civil and control engineering. It covers topics on fluid mechanics, instrumentation, automatic control, signal processing, computing, construction and diagnostic technologies.

  17. Marine pipeline study for underwater crossing of Georgia and Malaspina straits: twin ten-inch pipeline

    National Research Council Canada - National Science Library

    1981-01-01

    A feasibility study was conducted for the installation of twin 273.1 mm diameter submarine pipelines across the Straits of Georgia and Malaspina between Powell River and Little River areas in British Columbia...

  18. Lay Pipeline Abandonment Head during Some

    African Journals Online (AJOL)

    2016-12-01

    Dec 1, 2016 ... computations and analysis do not cover adequately the effect of number of cyclic wave loading on the girth welds on long exposure period, especially as certain degree of weld surface and buried imperfections are often allowed during pipeline fabrication. In a normal practice, stoppage of offshore pipe-lay.

  19. Non-destructive Testing of Pipelines

    CERN Document Server

    Annila, L

    2001-01-01

    This paper shall present different, contemporarily available non-destructive testing (NDT) methods of pipelines and compare them to each other from the technical and economical point of view. An evaluation of their suitability for CERN activities, based on the opinions and experience of various specialists at CERN (LHC, ST, TIS), is also introduced.

  20. System Reliability Assessment of Offshore Pipelines

    NARCIS (Netherlands)

    Mustaffa, Z.

    2011-01-01

    The title of this thesis, System Reliability Assessment of Offshore Pipelines, portrays the application of probabilistic methods in assessing the reliability of these structures. The main intention of this thesis is to identify, apply and judge the suitability of the probabilistic methods in

  1. Pipeline : Hebrew data from ETCBC to Github

    NARCIS (Netherlands)

    Roorda, Dirk

    2017-01-01

    This pipeline delivers, among other good things, a file bhsa_xx.mql.bz2 which contains all ETCBC data and research additions to it. The form is MQL, compressed, and the size is less than 30 MB. Where ever you have Emdros installed, you can query this data. If you take this file from the continuous

  2. Safe purging of natural gas pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Perkins, T.K. (Arco Oil and Gas Co. (US)); Euchner, J.A. (Nynex Corp. (US))

    1988-11-01

    When a newly constructed natural gas pipeline is put into service, it can be safely purged of air by injection of a slug of inert gas, such as N/sub 2/. The method of sizing the required slug is based on a model of dispersion in turbulent flow in conjunction with flammability limits.

  3. An integrative bioinformatics pipeline for the genomewide ...

    Indian Academy of Sciences (India)

    2013-12-06

    Dec 6, 2013 ... [Fang W., Zhou N., Li D., Chen Z., Jiang P. and Zhang D. 2013 An integrative bioinformatics pipeline for the genomewide identification of novel porcine microRNA genes. J. Genet. 92, 587–593]. Introduction. MicroRNA (miRNA) is a pivotal type of noncoding RNA gene in posttranscriptional gene regulation ...

  4. Internal Corrosion Detection in Liquids Pipelines

    Science.gov (United States)

    2012-01-01

    PHMSA project DTRS56-05-T-0005 "Development of ICDA for Liquid Petroleum Pipelines" led to the development of a Direct Assessment (DA) protocol to prioritize locations of possible internal corrosion. The underlying basis LP-ICDA is simple; corrosion ...

  5. pipelines cathodic protection design methodologies for impressed ...

    African Journals Online (AJOL)

    HOD

    The current and voltage requirements were achievable by installing six transformer rectifiers with minimum direct current output of 500amperes and direct voltage output of 200volts. But the sacrificial anode design calculation indicated direct current output of 2262240mA was needed to marginally polarize the X42 pipeline ...

  6. Pipeline or Personal Preference: Women in Engineering

    Science.gov (United States)

    Schreuders, P. D.; Mannon, S. E.; Rutherford, B.

    2009-01-01

    Although the number of women in the engineering field has increased since the 1960s, those increases have largely stagnated over the last few years. This paper re-examines the pipeline for bringing women into engineering and, based on survey data, examines the attitudes, motivations, and interests of 969 male and female engineering students.…

  7. The Effect of Landslide on Gas Pipeline

    Directory of Open Access Journals (Sweden)

    Valkovič Vojtech

    2016-11-01

    Full Text Available The present paper deals with the calculation of stresses on the pipeline system embedded on a flexible substrate which is burdened by a landslide. As well as taking into account the probability of the influences acting on the pipe as wall thickness, and others.

  8. Commissioning of a new helium pipeline

    Science.gov (United States)

    2000-01-01

    At the commissioning of a new high-pressure helium pipeline at Kennedy Space Center, participants cut the lines to helium-filled balloons. From left, they are Center Director Roy Bridges; Michael Butchko, president, SGS; Pierre Dufour, president and CEO, Air Liquide America Corporation; David Herst, director, Delta IV Launch Sites; Pamela Gillespie, executive administrator, office of Congressman Dave Weldon; and Col. Samuel Dick, representative of the 45th Space Wing. The nine-mile-long buried pipeline will service launch needs at the new Delta IV Complex 37 at Cape Canaveral Air Force Station. It will also serve as a backup helium resource for Shuttle launches. Nearly one launch's worth of helium will be available in the pipeline to support a Shuttle pad in an emergency. The line originates at the Helium Facility on KSC and terminates in a meter station at the perimeter of the Delta IV launch pad. Others at the ceremony were Jerry Jorgensen, pipeline project manager, Space Gateway Support (SGS), and Ramon Lugo, acting executive director, JPMO.

  9. The First Steps into a "Leaky Pipeline"

    DEFF Research Database (Denmark)

    Emerek, Ruth; Larsen, Britt Østergaard

    2011-01-01

    Research shows that the higher the level of academic positions at universities the lower the percentage of women among employees also applies at Danish universities. This may be due to a historical backlog or merely to a 'Leaky pipeline', as earlier studies have revealed that an increasing propor...

  10. 27 CFR 19.587 - Pipelines.

    Science.gov (United States)

    2010-04-01

    ... THE TREASURY LIQUORS DISTILLED SPIRITS PLANTS Containers and Marks Containers § 19.587 Pipelines... used for (a) the conveyance on bonded premises of spirits, denatured spirits, articles, and wines, and (b) the conveyance to and from bonded premises of spirits, denatured spirits, articles, and wines...

  11. Women Engineering Faculty: Expanding the Pipeline

    Science.gov (United States)

    Greni, Nadene Deiterman

    2006-01-01

    The purpose for this case study was to explore the features of undergraduate engineering departmental and college support that influenced the persistence of women students. Women engineering faculty members were among the participants at three Land Grant universities in the Midwest. The data revealed the theme, Expanding the Pipeline, and…

  12. Runtime Modifications of Spark Data Processing Pipelines

    NARCIS (Netherlands)

    Lazovik, E.; Medema, M.; Albers, T.; Langius, E.A.F.; Lazovik, A.

    2017-01-01

    Distributed data processing systems are the standard means for large-scale data analysis in the Big Data field. These systems are based on processing pipelines where the processing is done via a composition of multiple elements or steps. In current distributed data processing systems, the code and

  13. A SIMPLE AND RAPID MATRIX-ASSISTED LASER DESORPTION/IONIZATION TIME OF FLIGHT MASS SPECTROMETRY METHOD TO SCREEN FISH PLASMA SAMPLES FOR ESTROGEN-RESPONSIVE BIOMARKERS

    Science.gov (United States)

    In this study, we describe and evaluate the performance of a simple and rapid mass spectral method for screening fish plasma for estrogen-responsive biomarkers using matrix assisted laster desorption/ionization time of flight mass spectrometry (MALDI-TOF-MS) couopled with a short...

  14. A rapid, accurate and robust particle-based assay for the simultaneous screening of plasma samples for the presence of five different anti-cytokine autoantibodies

    DEFF Research Database (Denmark)

    Guldager, Daniel Kring Rasmussen; von Stemann, Jakob Hjorth; Larsen, Rune

    2015-01-01

    PURPOSE: To establish and validate a rapid, cost-effective and accurate screening assay for the simultaneous testing of human naturally occurring anti-cytokine autoantibodies (c-aAb) targeting interleukin-1α (IL-1α), interleukin-6 (IL-6), interleukin-10 (IL-10), granulocyte-macrophage colony...

  15. Interpretation and evaluation of monitoring results for main pipelines hydraulic pressure testing under non-isothermal conditions

    Science.gov (United States)

    Kraus, Ju. A.; Ivanov, R. N.; Grinevich, V. A.; Pakhotin, A. N.

    2017-08-01

    The paper examines hydraulic pressure testing of main oil pipelines. The research objective is to identify and describe the characteristic features of pressure changes in pressure testing of the main pipeline, caused by temperature changes. The notions on the interpretation and evaluation of the results for pipeline pressure testing under non-isothermal conditions are given, the number of pressure sampling points and temperature information being limited; and considering the elevation difference along the length of the test section (where applicable). A formula for calculating the fresh water volumetric expansion coefficient correlation with temperature and pressure is proposed. A method for interpreting the hydraulic pressure testing results is developed, considering the parameters spread effect on the coefficients of the volumetric expansion and the modulus of elasticity for the test fluid, as well as the coefficients of linear expansion and Young's modulus for pipe steel. The application of the method allows to monitor the hydraulic pressure testing for main oil pipelines.

  16. Emergency gas pipeline transportation with computer documentation

    Energy Technology Data Exchange (ETDEWEB)

    None

    1978-08-01

    Methods developed by the staff of the Federal Energy Regulatory Commission in cooperation with the natural gas industry to expedite the emergency transfer of natural gas are described. The majority of the United States' natural gas fields are concentrated in the south central region, comprised of Louisiana, Oklahoma, and Texas together with adjacent areas offshore in the Gulf of Mexico. This is the major source area for gas consumed in the northern, northeastern, southeastern, and far western population/industrial centers. The geographic pattern of gas flow through interstate pipelines emanates in gas producing areas and terminates in gas consuming areas. There are many other areas in the United States which produce gas but the amounts are comparatively small compared with Texas, Louisiana, and offshore Louisiana production. The various interconnections associated with a given pipeline for both receipts and deliveries are defined. The maximum volume capability in MMCFD and the volume being delivered in MMCFD are to be considered as estimated volumes. These volumes do not represent absolute volumes that are available but rather volumes for general planning purposes to define the magnitude of each interconnection. If an actual transportation route is desired, a routing may be derived from this report which then must be checked for actual volumes at a particular point in time. It is always possible that at the time of interest, there is no available capacity or deliveries.The data and information are arranged by pipeline company name followed by which companies supply gas to the named pipeline and to which companies the named pipeline delivers gas. Each receipt or delivery location is defined by the county and state.

  17. Diverless pipeline repair system for deep water

    Energy Technology Data Exchange (ETDEWEB)

    Spinelli, Carlo M. [Eni Gas and Power, Milan (Italy); Fabbri, Sergio; Bachetta, Giuseppe [Saipem/SES, Venice (Italy)

    2009-07-01

    SiRCoS (Sistema Riparazione Condotte Sottomarine) is a diverless pipeline repair system composed of a suite of tools to perform a reliable subsea pipeline repair intervention in deep and ultra deep water which has been on the ground of the long lasting experience of Eni and Saipem in designing, laying and operating deep water pipelines. The key element of SiRCoS is a Connection System comprising two end connectors and a repair spool piece to replace a damaged pipeline section. A Repair Clamp with elastomeric seals is also available for pipe local damages. The Connection System is based on pipe cold forging process, consisting in swaging the pipe inside connectors with suitable profile, by using high pressure seawater. Three swaging operations have to be performed to replace the damaged pipe length. This technology has been developed through extensive theoretical work and laboratory testing, ending in a Type Approval by DNV over pipe sizes ranging from 20 inches to 48 inches OD. A complete SiRCoS system has been realised for the Green Stream pipeline, thoroughly tested in workshop as well as in shallow water and is now ready, in the event of an emergency situation.The key functional requirements for the system are: diverless repair intervention and fully piggability after repair. Eni owns this technology and is now available to other operators under Repair Club arrangement providing stand-by repair services carried out by Saipem Energy Services. The paper gives a description of the main features of the Repair System as well as an insight into the technological developments on pipe cold forging reliability and long term duration evaluation. (author)

  18. Advances in riser and pipeline technologies

    Energy Technology Data Exchange (ETDEWEB)

    Kan, Wan C.; Mortazavi, Mehrdad; Weir, Michael S. [ExxonMobil Development Company, Dallas, TX (United States)

    2009-12-19

    As oil and gas production continues to move into new frontier areas, novel applications of the existing riser and pipeline technologies need to be developed to meet the often more stringent requirements encountered in these environments. The challenges include ultra deep water, harsh environments, aggressive fluid conditions, and local content objectives, etc. They will require industry to constantly extend, expand, and enhance the broad range of solution options. Also, the existing design criteria in industry may need to be revised or new criteria may need to be developed to satisfy these needs. Exxon Mobil (Em) employs, and works with others in industry to promote robust design and operating practices. This approach requires in-depth understanding, sound engineering principles, advanced analysis, uncertainty management, and supportive qualification test data. It enables confident selection, extrapolation, and innovation of technologies to address new riser system and pipeline challenges. Focus on fundamental is imperative to ensure integrity of the selected systems during fabrication, installation, and operation phases. Recent and past project experience in deep water Gulf of Mexico and West Africa provides many successful examples of this approach. This paper reviews several examples of the key riser system and pipeline technology enhancements recently achieved by EM to provide confidence in addressing technical and project application challenges. Riser system technology enhancements addressed in this paper include steel catenary riser (SCR) application on turret-moored FPSO with severe motions, pipe-in-pipe (PIP) hybrid production riser to effectively manage gas lift and flow assurance requirements, irregular wave analysis methodology for flexible risers and umbilicals to reduce conservatism, and qualification of riser and pipeline VIV prediction and mitigation methods. Pipeline technology enhancements detailed in this paper include lateral buckling prediction

  19. Energy cost reduction in oil pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Limeira, Fabio Machado; Correa, Joao Luiz Lavoura; Costa, Luciano Macedo Josino da; Silva, Jose Luiz da; Henriques, Fausto Metzger Pessanha [Petrobras Transporte S.A. (TRANSPETRO), Rio de Janeiro, RJ (Brazil)

    2012-07-01

    One of the key questions of modern society consists on the rational use of the planet's natural resources and energy. Due to the lack of energy, many companies are forced to reduce their workload, especially during peak hours, because residential demand reaches its top and there is not enough energy to fulfill the needs of all users, which affects major industries. Therefore, using energy more wisely has become a strategic issue for any company, due to the limited supply and also for the excessive cost it represents. With the objective of saving energy and reducing costs for oil pipelines, it has been identified that the increase in energy consumption is primordially related to pumping stations and also by the way many facilities are operated, that is, differently from what was originally designed. Realizing this opportunity, in order to optimize the process, this article intends to examine the possibility of gains evaluating alternatives regarding changes in the pump scheme configuration and non-use of pump stations at peak hours. Initially, an oil pipeline with potential to reduce energy costs was chosen being followed by a history analysis, in order to confirm if there was sufficient room to change the operation mode. After confirming the pipeline choice, the system is briefly described and the literature is reviewed, explaining how the energy cost is calculated and also the main characteristics of a pumping system in series and in parallel. In that sequence, technically feasible alternatives are studied in order to operate and also to negotiate the energy demand contract. Finally, costs are calculated to identify the most economical alternative, that is, for a scenario with no increase in the actual transported volume of the pipeline and for another scenario that considers an increase of about 20%. The conclusion of this study indicates that the chosen pipeline can achieve a reduction on energy costs of up to 25% without the need for investments in new

  20. Development of a preparation method to produce a single sample that can be applied to both LC-MS/MS and GC-MS for the screening of postmortem specimens.

    Science.gov (United States)

    Hara, Kenji; Waters, Brian; Ikematsu, Natsuki; Tokuyasu, Tomoko; Fujii, Hiroshi; Takayama, Mio; Matsusue, Aya; Kashiwagi, Masayuki; Kubo, Shin-Ichi

    2016-07-01

    Simple and efficient extraction methods have been developed for the screening of a wide array of drugs in postmortem autopsy specimens. Acidic and basic compounds were targeted with two extraction methods that can be applied to both GC-MS and LC-MS/MS instrumentation. The extractions were achieved by utilizing lipid-removal and solid-phase extraction cartridges while carefully monitoring the pH of the samples to ensure the adequate removal of interfering substances like lipids and amino acid derivatives. These methods were applied to actual autopsy cases, with 94 and 124 compounds detected by GC-MS and LC-MS/MS, respectively. The developed methods could easily be incorporated into a forensic laboratory's daily routine for screening many different compounds from postmortem samples. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

  1. 77 FR 16052 - Information Collection Activities: Pipelines and Pipeline Rights-of-Way; Submitted for Office of...

    Science.gov (United States)

    2012-03-19

    ... through the submerged lands of the OCS for pipelines ``* * * for the transportation of oil, natural gas... ensure that the pipeline, as constructed, will provide for safe transportation of oil and gas and other... pipeline would not conflict with any State requirements or unduly interfere with other OCS activities. BSEE...

  2. Windshield splatter analysis with the Galaxy metagenomic pipeline.

    Science.gov (United States)

    Kosakovsky Pond, Sergei; Wadhawan, Samir; Chiaromonte, Francesca; Ananda, Guruprasad; Chung, Wen-Yu; Taylor, James; Nekrutenko, Anton

    2009-11-01

    How many species inhabit our immediate surroundings? A straightforward collection technique suitable for answering this question is known to anyone who has ever driven a car at highway speeds. The windshield of a moving vehicle is subjected to numerous insect strikes and can be used as a collection device for representative sampling. Unfortunately the analysis of biological material collected in that manner, as with most metagenomic studies, proves to be rather demanding due to the large number of required tools and considerable computational infrastructure. In this study, we use organic matter collected by a moving vehicle to design and test a comprehensive pipeline for phylogenetic profiling of metagenomic samples that includes all steps from processing and quality control of data generated by next-generation sequencing technologies to statistical analyses and data visualization. To the best of our knowledge, this is also the first publication that features a live online supplement providing access to exact analyses and workflows used in the article.

  3. An integrated system for pipeline condition monitoring

    Energy Technology Data Exchange (ETDEWEB)

    Strong, Andrew P.; Lees, Gareth; Hartog, Arthur; Twohig, Richard; Kader, Kamal; Hilton, Graeme; Mullens, Stephen; Khlybov, Artem [Schlumberger, Southampton (United Kingdom); Sanderson, Norman [BP Exploration, Sunbury (United Kingdom)

    2009-07-01

    In this paper we present the unique and innovative 'Integriti' pipeline and flow line integrity monitoring system developed by Schlumberger in collaboration with BP. The system uses optical fiber distributed sensors to provide simultaneous distributed measurements of temperature, strain and vibration for the detection, monitoring, and location of events including: Third Party Interference (TPI), including multiple simultaneous disturbances; geo-hazards and landslides; gas and oil leaks; permafrost protection. The Integriti technology also provides a unique means for tracking the progress of cleaning and instrumented pigs using existing optical telecom and data communications cables buried close to pipelines. The Integriti solution provides a unique and proactive approach to pipeline integrity management. It performs analysis of a combination of measurands to provide the pipeline operator with an event recognition and location capability, in effect providing a hazard warning system, and offering the operator the potential to take early action to prevent loss. Through the use of remote, optically powered amplification, an unprecedented detection range of 100 km is possible without the need for any electronics and therefore remote power in the field. A system can thus monitor 200 km of pipeline when configured to monitor 100 km upstream and downstream from a single location. As well as detecting conditions and events leading to leaks, this fully integrated system provides a means of detecting and locating small leaks in gas pipelines below the threshold of present online leak detection systems based on monitoring flow parameters. Other significant benefits include: potential reductions in construction costs; enhancement of the operator's existing integrity management program; potential reductions in surveillance costs and HSE risks. In addition to onshore pipeline systems this combination of functionality and range is available for practicable

  4. INNOVATIVE ELECTROMAGNETIC SENSORS FOR PIPELINE CRAWLERS

    Energy Technology Data Exchange (ETDEWEB)

    J. Bruce Nestleroth; Richard J. Davis

    2005-05-23

    Internal inspection of pipelines is an important tool for ensuring safe and reliable delivery of fossil energy products. Current inspection systems that are propelled through the pipeline by the product flow cannot be used to inspect all pipelines because of the various physical barriers they encounter. Recent development efforts include a new generation of powered inspection platforms that crawl slowly inside a pipeline and are able to maneuver past the physical barriers that can limit inspection. At Battelle, innovative electromagnetic sensors are being designed and tested for these new pipeline crawlers. The various sensor types can be used to assess a wide range of pipeline anomalies including corrosion, mechanical damage, and cracks. The Applied Energy Systems Group at Battelle is in the second year of work on a projected three-year development effort. In the first year, two innovative electromagnetic inspection technologies were designed and tested. Both were based on moving high-strength permanent magnets to generate inspection energy. One system involved translating permanent magnets towards the pipe. A pulse of electric current would be induced in the pipe to oppose the magnetization according to Lenz's Law. The decay of this pulse would indicate the presence of defects in the pipe wall. This inspection method is similar to pulsed eddy current inspection methods, with the fundamental difference being the manner in which the current is generated. Details of this development effort were reported in the first semiannual report on this project. The second inspection methodology is based on rotating permanent magnets. The rotating exciter unit produces strong eddy currents in the pipe wall. At distances of a pipe diameter or more from the rotating exciter, the currents flow circumferentially. These circumferential currents are deflected by pipeline defects such as corrosion and axially aligned cracks. Simple sensors are used to detect the change in current

  5. Study protocol for a transversal study to develop a screening model for excessive gambling behaviours on a representative sample of users of French authorised gambling websites

    Science.gov (United States)

    Hardouin, Jean-Benoit; Grall-Bronnec, Marie; Challet-Bouju, Gaëlle

    2017-01-01

    Introduction Since the legalisation of online gambling in France in 2010, gambling operators must implement responsible gambling measures to prevent excessive gambling practices. However, actually there is no screening procedure for identifying problematic gamblers. Although several studies have already been performed using several data sets from online gambling operators, the authors deplored several methodological and clinical limits that prevent scientifically validating the existence of problematic gambling behaviour. The aim of this study is to develop a model for screening excessive gambling practices based on the gambling behaviours observed on French gambling websites, coupled with a clinical validation. Methods and analysis The research is divided into three successive stages. All analyses will be performed for each major type of authorised online gambling in France. The first stage aims at defining a typology of users of French authorised gambling websites based on their gambling behaviour. This analysis will be based on data from the Authority for Regulating Online Gambling (ARJEL) and the Française Des Jeux (FDJ). For the second stage aiming at determining a score to predict whether a gambler is problematic or not, we will cross answers from the Canadian Problem Gambling Index with real gambling data. The objective of the third stage is to clinically validate the score previously developed. Results from the screening model will be compared (using sensitivity, specificity, area under the curve, and positive and negative predictive values) with the diagnosis obtained with a telephone clinical interview, including diagnostic criteria for gambling addiction. Ethics and dissemination This study was approved by the local Research Ethics Committee (GNEDS) on 25 March 2015. Results will be presented in national and international conferences, submitted to peer-reviewed journals and will be part of a PhD thesis. A final report with the study results will be

  6. HTPheno: an image analysis pipeline for high-throughput plant phenotyping.

    Science.gov (United States)

    Hartmann, Anja; Czauderna, Tobias; Hoffmann, Roberto; Stein, Nils; Schreiber, Falk

    2011-05-12

    In the last few years high-throughput analysis methods have become state-of-the-art in the life sciences. One of the latest developments is automated greenhouse systems for high-throughput plant phenotyping. Such systems allow the non-destructive screening of plants over a period of time by means of image acquisition techniques. During such screening different images of each plant are recorded and must be analysed by applying sophisticated image analysis algorithms. This paper presents an image analysis pipeline (HTPheno) for high-throughput plant phenotyping. HTPheno is implemented as a plugin for ImageJ, an open source image processing software. It provides the possibility to analyse colour images of plants which are taken in two different views (top view and side view) during a screening. Within the analysis different phenotypical parameters for each plant such as height, width and projected shoot area of the plants are calculated for the duration of the screening. HTPheno is applied to analyse two barley cultivars. HTPheno, an open source image analysis pipeline, supplies a flexible and adaptable ImageJ plugin which can be used for automated image analysis in high-throughput plant phenotyping and therefore to derive new biological insights, such as determination of fitness.

  7. HTPheno: An image analysis pipeline for high-throughput plant phenotyping

    Directory of Open Access Journals (Sweden)

    Stein Nils

    2011-05-01

    Full Text Available Abstract Background In the last few years high-throughput analysis methods have become state-of-the-art in the life sciences. One of the latest developments is automated greenhouse systems for high-throughput plant phenotyping. Such systems allow the non-destructive screening of plants over a period of time by means of image acquisition techniques. During such screening different images of each plant are recorded and must be analysed by applying sophisticated image analysis algorithms. Results This paper presents an image analysis pipeline (HTPheno for high-throughput plant phenotyping. HTPheno is implemented as a plugin for ImageJ, an open source image processing software. It provides the possibility to analyse colour images of plants which are taken in two different views (top view and side view during a screening. Within the analysis different phenotypical parameters for each plant such as height, width and projected shoot area of the plants are calculated for the duration of the screening. HTPheno is applied to analyse two barley cultivars. Conclusions HTPheno, an open source image analysis pipeline, supplies a flexible and adaptable ImageJ plugin which can be used for automated image analysis in high-throughput plant phenotyping and therefore to derive new biological insights, such as determination of fitness.

  8. [A review on the bioinformatics pipelines for metagenomic research].

    Science.gov (United States)

    Ye, Dan-Dan; Fan, Meng-Meng; Guan, Qiong; Chen, Hong-Ju; Ma, Zhan-Shan

    2012-12-01

    Metagenome, a term first dubbed by Handelsman in 1998 as "the genomes of the total microbiota found in nature", refers to sequence data directly sampled from the environment (which may be any habitat in which microbes live, such as the guts of humans and animals, milk, soil, lakes, glaciers, and oceans). Metagenomic technologies originated from environmental microbiology studies and their wide application has been greatly facilitated by next-generation high throughput sequencing technologies. Like genomics studies, the bottle neck of metagenomic research is how to effectively and efficiently analyze the gigantic amount of metagenomic sequence data using the bioinformatics pipelines to obtain meaningful biological insights. In this article, we briefly review the state-of-the-art bioinformatics software tools in metagenomic research. Due to the differences between the metagenomic data obtained from whole genome sequencing (i.e., shotgun metagenomics) and amplicon sequencing (i.e., 16S-rRNA and gene-targeted metagenomics) methods, there are significant differences between the corresponding bioinformatics tools for these data; accordingly, we review the computational pipelines separately for these two types of data.

  9. Neural-Fuzzy model Based Steel Pipeline Multiple Cracks Classification

    Science.gov (United States)

    Elwalwal, Hatem Mostafa; Mahzan, Shahruddin Bin Hj.; Abdalla, Ahmed N.

    2017-10-01

    While pipes are cheaper than other means of transportation, this cost saving comes with a major price: pipes are subject to cracks, corrosion etc., which in turn can cause leakage and environmental damage. In this paper, Neural-Fuzzy model for multiple cracks classification based on Lamb Guide Wave. Simulation results for 42 sample were collected using ANSYS software. The current research object to carry on the numerical simulation and experimental study, aiming at finding an effective way to detection and the localization of cracks and holes defects in the main body of pipeline. Considering the damage form of multiple cracks and holes which may exist in pipeline, to determine the respective position in the steel pipe. In addition, the technique used in this research a guided lamb wave based structural health monitoring method whereas piezoelectric transducers will use as exciting and receiving sensors by Pitch-Catch method. Implementation of simple learning mechanism has been developed specially for the ANN for fuzzy the system represented.

  10. Plant cell wall glycosyltransferases: High-throughput recombinant expression screening and general requirements for these challenging enzymes

    DEFF Research Database (Denmark)

    Welner, Ditte Hededam; Shin, David; Tomaleri, Giovani P.

    2017-01-01

    knowledge of the enzyme(s) being studied. We have developed a rational approach to this process. We devise a pipeline comprising in silico selection of targets and construct design, and high-throughput expression screening, target enrichment, and hit identification. We have applied this pipeline to a test...

  11. Sensor Network Architectures for Monitoring Underwater Pipelines

    Science.gov (United States)

    Mohamed, Nader; Jawhar, Imad; Al-Jaroodi, Jameela; Zhang, Liren

    2011-01-01

    This paper develops and compares different sensor network architecture designs that can be used for monitoring underwater pipeline infrastructures. These architectures are underwater wired sensor networks, underwater acoustic wireless sensor networks, RF (Radio Frequency) wireless sensor networks, integrated wired/acoustic wireless sensor networks, and integrated wired/RF wireless sensor networks. The paper also discusses the reliability challenges and enhancement approaches for these network architectures. The reliability evaluation, characteristics, advantages, and disadvantages among these architectures are discussed and compared. Three reliability factors are used for the discussion and comparison: the network connectivity, the continuity of power supply for the network, and the physical network security. In addition, the paper also develops and evaluates a hierarchical sensor network framework for underwater pipeline monitoring. PMID:22346669

  12. Installation Capacity Assessment of Damaged Deepwater Pipelines

    Directory of Open Access Journals (Sweden)

    Ramasamy R.

    2014-07-01

    Full Text Available The worldwide exploration and development of subsea and deepwater reservoirs has laid down some new and old engineering challenges to the offshore pipeline industry. This requires large D/t pipelines to be installed at water depths in the vicinity of up to 2700m. The deepwater collapse and buckle propagation event is almost unavoidable as the pipe wall thickness cannot be always determined from the codes and standards due to the limit state criteria. These codes also do not consider any fabrication imperfections and sustained damages emanating from transportation and handling. The objective of this paper is to present the Finite Element Analysis (FEA of dented pipes with D/t ratio more than 45, which is outside the applicability of current design codes, and to investigate the effects on installation capacity of these various damage sizes in terms of collapse and buckle propagation.

  13. The e-MERLIN Data Reduction Pipeline

    Directory of Open Access Journals (Sweden)

    Megan Kirsty Argo

    2015-01-01

    Full Text Available Written in Python and utilising ParselTongue to interface with the Astronomical Image Processing System (AIPS, the e-MERLIN data reduction pipeline is intended to automate the procedures required in processing and calibrating radio astronomy data from the e-MERLIN correlator. Driven by a plain text file of input parameters, the pipeline is modular and can be run in stages by the user, depending on requirements. The software includes options to load raw data, average in time and/or frequency, flag known sources of interference, flag more comprehensively with SERPent, carry out some or all of the calibration procedures (including self-calibration, and image in either normal or wide-field mode. It also optionally produces a number of useful diagnostic plots at various stages so that the quality of the data can be assessed. The software is available for download from the e-MERLIN website or via Github.

  14. Development of an automatic pipeline scanning system

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Jae H.; Lee, Jae C.; Moon, Soon S.; Eom, Heung S.; Choi, Yu R

    1999-11-01

    Pressure pipe inspection in nuclear power plants is one of the mandatory regulation items. Comparing to manual ultrasonic inspection, automatic inspection has the benefits of more accurate and reliable inspection results and reduction of radiation disposal. final object of this project is to develop an automatic pipeline inspection system of pressure pipe welds in nuclear power plants. We developed a pipeline scanning robot with four magnetic wheels and 2-axis manipulator for controlling ultrasonic transducers, and developed the robot control computer which controls the robot to navigate along inspection path exactly. We expect our system can contribute to reduction of inspection time, performance enhancement, and effective management of inspection results. The system developed by this project can be practically used for inspection works after field tests. (author)

  15. Wave Pipelining Using Self Reset Logic

    Directory of Open Access Journals (Sweden)

    Miguel E. Litvin

    2008-01-01

    Full Text Available This study presents a novel design approach combining wave pipelining and self reset logic, which provides an elegant solution at high-speed data throughput with significant savings in power and area as compared with other dynamic CMOS logic implementations. To overcome some limitations in SRL art, we employ a new SRL family, namely, dual-rail self reset logic with input disable (DRSRL-ID. These gates depict fairly constant timing parameters, specially the width of the output pulse, for varying fan-out and logic depth, helping accommodate process, supply voltage, and temperature variations (PVT. These properties simplify the implementation of wave pipelined circuits. General timing analysis is provided and compared with previous implementations. Results of circuit implementation are presented together with conclusions and future work.

  16. Phage Genome Annotation Using the RAST Pipeline.

    Science.gov (United States)

    McNair, Katelyn; Aziz, Ramy Karam; Pusch, Gordon D; Overbeek, Ross; Dutilh, Bas E; Edwards, Robert

    2018-01-01

    Phages are complex biomolecular machineries that have to survive in a bacterial world. Phage genomes show many adaptations to their lifestyle such as shorter genes, reduced capacity for redundant DNA sequences, and the inclusion of tRNAs in their genomes. In addition, phages are not free-living, they require a host for replication and survival. These unique adaptations provide challenges for the bioinformatics analysis of phage genomes. In particular, ORF calling, genome annotation, noncoding RNA (ncRNA) identification, and the identification of transposons and insertions are all complicated in phage genome analysis. We provide a road map through the phage genome annotation pipeline, and discuss the challenges and solutions for phage genome annotation as we have implemented in the rapid annotation using subsystems (RAST) pipeline.

  17. Acoustic energy transmission in cast iron pipelines

    Science.gov (United States)

    Kiziroglou, Michail E.; Boyle, David E.; Wright, Steven W.; Yeatman, Eric M.

    2015-12-01

    In this paper we propose acoustic power transfer as a method for the remote powering of pipeline sensor nodes. A theoretical framework of acoustic power propagation in the ceramic transducers and the metal structures is drawn, based on the Mason equivalent circuit. The effect of mounting on the electrical response of piezoelectric transducers is studied experimentally. Using two identical transducer structures, power transmission of 0.33 mW through a 1 m long, 118 mm diameter cast iron pipe, with 8 mm wall thickness is demonstrated, at 1 V received voltage amplitude. A near-linear relationship between input and output voltage is observed. These results show that it is possible to deliver significant power to sensor nodes through acoustic waves in solid structures. The proposed method may enable the implementation of acoustic - powered wireless sensor nodes for structural and operation monitoring of pipeline infrastructure.

  18. Automatic pipeline operation using Petri Nets

    Energy Technology Data Exchange (ETDEWEB)

    Moreira, Guilherme O. [PETROBRAS TRANSPORTE S.A., Rio de Janeiro, RJ (Brazil)

    2009-07-01

    A pipeline operation requires several actions, attention and time from the control room operator in each of its operating phases. This article proposition is to use automation as something more than a remote control, drastically reducing the number of repetitive and routine actions needed from the operator to start and stop the system, granting more time for system supervision, decision making during critical conditions and avoiding errors caused due to the need of several actions being executed in a short period of time. To achieve these objectives the pipeline operation will be modeled as a Petri Net consisting of states, event and actions. A methodology for converting this Petri Net into a Ladder controller code will also be proposed. (author)

  19. Homology Groups of a Pipeline Petri Net

    Directory of Open Access Journals (Sweden)

    A. A. Husainov

    2013-01-01

    Full Text Available Petri net is said to be elementary if every place can contain no more than one token. In this paper, it is studied topological properties of the elementary Petri net for a pipeline consisting of n functional devices. If the work of the functional devices is considered continuous, we can come to some topological space of “intermediate” states. In the paper, it is calculated the homology groups of this topological space. By induction on n, using the Addition Sequence for homology groups of semicubical sets, it is proved that in dimension 0 and 1 the integer homology groups of these nets are equal to the group of integers, and in the remaining dimensions are zero. Directed homology groups are studied. A connection of these groups with deadlocks and newsletters is found. This helps to prove that all directed homology groups of the pipeline elementary Petri nets are zeroth.

  20. Feasibility Studies on Pipeline Disposal of Concentrated Copper Tailings Slurry for Waste Minimization

    Science.gov (United States)

    Senapati, Pradipta Kumar; Mishra, Barada Kanta

    2017-06-01

    The conventional lean phase copper tailings slurry disposal systems create pollution all around the disposal area through seepage and flooding of waste slurry water. In order to reduce water consumption and minimize pollution, the pipeline disposal of these waste slurries at high solids concentrations may be considered as a viable option. The paper presents the rheological and pipeline flow characteristics of copper tailings samples in the solids concentration range of 65-72 % by weight. The tailings slurry indicated non-Newtonian behaviour at these solids concentrations and the rheological data were best fitted by Bingham plastic model. The influence of solids concentration on yield stress and plastic viscosity for the copper tailings samples were discussed. Using a high concentration test loop, pipeline experiments were conducted in a 50 mm nominal bore (NB) pipe by varying the pipe flow velocity from 1.5 to 3.5 m/s. A non-Newtonian Bingham plastic pressure drop model predicted the experimental data reasonably well for the concentrated tailings slurry. The pressure drop model was used for higher size pipes and the operating conditions for pipeline disposal of concentrated copper tailings slurry in a 200 mm NB pipe with respect to specific power consumption were discussed.

  1. Security Support in Continuous Deployment Pipeline

    DEFF Research Database (Denmark)

    Ullah, Faheem; Raft, Adam Johannes; Shahin, Mojtaba

    2017-01-01

    Continuous Deployment (CD) has emerged as a new practice in the software industry to continuously and automatically deploy software changes into production. Continuous Deployment Pipeline (CDP) supports CD practice by transferring the changes from the repository to production. Since most of the C...... penetration tools. Our findings indicate that the applied tactics improve the security of the major components (i.e., repository, continuous integration server, main server) of a CDP by controlling access to the components and establishing secure connections....

  2. Optimizing the TESS Planet Finding Pipeline

    Science.gov (United States)

    Chitamitara, Aerbwong; Smith, Jeffrey C.; Tenenbaum, Peter; TESS Science Processing Operations Center

    2017-10-01

    The Transiting Exoplanet Survey Satellite (TESS) is a new NASA planet finding all-sky survey that will observe stars within 200 light years and 10-100 times brighter than that of the highly successful Kepler mission. TESS is expected to detect ~1000 planets smaller than Neptune and dozens of Earth size planets. As in the Kepler mission, the Science Processing Operations Center (SPOC) processing pipeline at NASA Ames Research center is tasked with calibrating the raw pixel data, generating systematic error corrected light curves and then detecting and validating transit signals. The Transiting Planet Search (TPS) component of the pipeline must be modified and tuned for the new data characteristics in TESS. For example, due to each sector being viewed for as little as 28 days, the pipeline will be identifying transiting planets based on a minimum of two transit signals rather than three, as in the Kepler mission. This may result in a significantly higher false positive rate. The study presented here is to measure the detection efficiency of the TESS pipeline using simulated data. Transiting planets identified by TPS are compared to transiting planets from the simulated transit model using the measured epochs, periods, transit durations and the expected detection statistic of injected transit signals (expected MES). From the comparisons, the recovery and false positive rates of TPS is measured. Measurements of recovery in TPS are then used to adjust TPS configuration parameters to maximize the planet recovery rate and minimize false detections. The improvements in recovery rate between initial TPS conditions and after various adjustments will be presented and discussed.

  3. Natural gas pipeline leaks across Washington, DC.

    Science.gov (United States)

    Jackson, Robert B; Down, Adrian; Phillips, Nathan G; Ackley, Robert C; Cook, Charles W; Plata, Desiree L; Zhao, Kaiguang

    2014-01-01

    Pipeline safety in the United States has increased in recent decades, but incidents involving natural gas pipelines still cause an average of 17 fatalities and $133 M in property damage annually. Natural gas leaks are also the largest anthropogenic source of the greenhouse gas methane (CH4) in the U.S. To reduce pipeline leakage and increase consumer safety, we deployed a Picarro G2301 Cavity Ring-Down Spectrometer in a car, mapping 5893 natural gas leaks (2.5 to 88.6 ppm CH4) across 1500 road miles of Washington, DC. The δ(13)C-isotopic signatures of the methane (-38.2‰ ± 3.9‰ s.d.) and ethane (-36.5 ± 1.1 s.d.) and the CH4:C2H6 ratios (25.5 ± 8.9 s.d.) closely matched the pipeline gas (-39.0‰ and -36.2‰ for methane and ethane; 19.0 for CH4/C2H6). Emissions from four street leaks ranged from 9200 to 38,200 L CH4 day(-1) each, comparable to natural gas used by 1.7 to 7.0 homes, respectively. At 19 tested locations, 12 potentially explosive (Grade 1) methane concentrations of 50,000 to 500,000 ppm were detected in manholes. Financial incentives and targeted programs among companies, public utility commissions, and scientists to reduce leaks and replace old cast-iron pipes will improve consumer safety and air quality, save money, and lower greenhouse gas emissions.

  4. Improving bioinformatic pipelines for exome variant calling

    OpenAIRE

    Ji, Hanlee P.

    2012-01-01

    Exome sequencing analysis is a cost-effective approach for identifying variants in coding regions. However, recognizing the relevant single nucleotide variants, small insertions and deletions remains a challenge for many researchers and diagnostic laboratories typically do not have access to the bioinformatic analysis pipelines necessary for clinical application. The Atlas2 suite, recently released by Baylor Genome Center, is designed to be widely accessible, runs on desktop computers but is ...

  5. Energy consumption in the pipeline industry

    Energy Technology Data Exchange (ETDEWEB)

    Banks, W. F.

    1977-12-31

    Estimates are developed of the energy consumption and energy intensity (EI) of five categories of U.S. pipeline industries: natural gas, crude oil, petroleum products, coal slurry, and water. For comparability with other transportation modes, it is desirable to calculate EI in Btu/Ton-Mile, and this is done, although the necessary unit conversions introduce additional uncertainties. Since water and sewer lines operate by lift and gravity, a comparable EI is not definable.

  6. Pipeline corridors through wetlands - impacts on plant communities: Deep Creek and Brandy Branch crossings, Nassau County, Florida

    Energy Technology Data Exchange (ETDEWEB)

    Shem, L.M.; Van Dyke, G.D.; Zimmerman, R.E.

    1994-12-01

    The goal of the Gas Research Institute Wetland Corridors Program is to document impacts of existing pipelines on the wetlands they traverse. To accomplish this goal, 12 existing wetland crossings were surveyed. These sites varied in elapsed time since pipeline construction, wetland type, pipeline installation techniques, and right-of-way (ROW) management practices. This report presents the results of surveys conducted July 14-18, 1992, at the Deep Creek and the Brandy Branch crossings of a pipeline installed during May 1991 in Nassau County, Florida. Both floodplains supported bottomland hardwood forests. The pipeline at the Deep Creek crossing was installed by means of horizontal directional drilling after the ROW had been clear-cut, while the pipeline at the Brandy Branch crossing was installed by means of conventional open trenching. Neither site was seeded or fertilized. At the time of sampling, a dense vegetative community, made up primarily of native perennial herbaceous species, occupied the ROW within the Deep Creek floodplain. The Brandy Branch ROW was vegetated by a less dense stand of primarily native perennial herbaceous plants. Plant diversity was also lower at the Brandy Branch crossing than at the Deep Creek crossing. The results suggest that some of the differences in plant communities are related to the more hydric conditions at the Brandy Branch floodplain.

  7. Study protocol for a transversal study to develop a screening model for excessive gambling behaviours on a representative sample of users of French authorised gambling websites.

    Science.gov (United States)

    Perrot, Bastien; Hardouin, Jean-Benoit; Costes, Jean-Michel; Caillon, Julie; Grall-Bronnec, Marie; Challet-Bouju, Gaëlle

    2017-05-17

    Since the legalisation of online gambling in France in 2010, gambling operators must implement responsible gambling measures to prevent excessive gambling practices. However, actually there is no screening procedure for identifying problematic gamblers. Although several studies have already been performed using several data sets from online gambling operators, the authors deplored several methodological and clinical limits that prevent scientifically validating the existence of problematic gambling behaviour. The aim of this study is to develop a model for screening excessive gambling practices based on the gambling behaviours observed on French gambling websites, coupled with a clinical validation. The research is divided into three successive stages. All analyses will be performed for each major type of authorised online gambling in France. The first stage aims at defining a typology of users of French authorised gambling websites based on their gambling behaviour. This analysis will be based on data from the Authority for Regulating Online Gambling (ARJEL) and the Française Des Jeux (FDJ). For the second stage aiming at determining a score to predict whether a gambler is problematic or not, we will cross answers from the Canadian Problem Gambling Index with real gambling data. The objective of the third stage is to clinically validate the score previously developed. Results from the screening model will be compared (using sensitivity, specificity, area under the curve, and positive and negative predictive values) with the diagnosis obtained with a telephone clinical interview, including diagnostic criteria for gambling addiction. This study was approved by the local Research Ethics Committee (GNEDS) on 25 March 2015. Results will be presented in national and international conferences, submitted to peer-reviewed journals and will be part of a PhD thesis. A final report with the study results will be presented to the ARJEL, especially the final screening model

  8. Facile mutant identification via a single parental backcross method and application of whole genome sequencing based mapping pipelines

    Directory of Open Access Journals (Sweden)

    Robert Silas Allen

    2013-09-01

    Full Text Available Forward genetic screens have identified numerous genes involved in development and metabolism, and remain a cornerstone of biological research. However to locate a causal mutation, the practice of crossing to a polymorphic background to generate a mapping population can be problematic if the mutant phenotype is difficult to recognise in the hybrid F2 progeny, or dependent on parental specific traits. Here in a screen for leaf hyponasty mutants, we have performed a single backcross of an Ethane Methyl Sulphonate (EMS generated hyponastic mutant to its parent. Whole genome deep sequencing of a bulked homozygous F2 population and analysis via the Next Generation EMS mutation mapping pipeline (NGM unambiguously determined the causal mutation to be a single nucleotide polymorphisim (SNP residing in HASTY, a previously characterised gene involved in microRNA biogenesis. We have evaluated the feasibility of this backcross approach using three additional SNP mapping pipelines; SHOREmap, the GATK pipeline, and the samtools pipeline. Although there was variance in the identification of EMS SNPs, all returned the same outcome in clearly identifying the causal mutation in HASTY. The simplicity of performing a single parental backcross and genome sequencing a small pool of segregating mutants has great promise for identifying mutations that may be difficult to map using conventional approaches.

  9. NABUCCO pipeline route selection through Turkey

    Energy Technology Data Exchange (ETDEWEB)

    Yildirim, Volkan [Karadeniz Technical Univ., Trabzon (Turkey). Dept. of Geomatics Engineering; Yomralioglu, Tahsin [Istanbul Technical Univ. (Turkey). Dept. of Geomatics Engineering

    2011-03-15

    Pipelines are one of the most effective methods of transferring energy sources like petroleum and gas. In pipeline projects, decreasing the cost, reducing environmental issues and shortening the construction time are related to determining the right route at the beginning of the project. Route determination is usually carried out manually with the help of traditional methods. However, this technique is not effective in many situations because it does not evaluate the factors that affect the route as a whole. In fact, technique, economy, environmental and sociological issues should be examined as a whole in the route determination process. Evaluation of the factors affecting the route is possible with the analysis of many spatial datasets from the same system. Geographical Information Systems (GIS) have been shown to be an effective way for analyzing these types of intensive datasets. In this study, a suggestion related to the NABUCCO Natural Gas Transmission Pipeline project has been made using the Analytic Hierarchy Process (AHP), which is a technique using GIS and multi-criteria decision making. The effectiveness of this method was proven by comparing part of the determined Optimal Route with a length of 557 km with the Proposed Route, which has currently been planned. (orig.)

  10. Fibre optics improving deepwater rov pipeline inspection

    Energy Technology Data Exchange (ETDEWEB)

    McGregor, D.

    1983-09-01

    Pipeline inspection is a complex test requiring a variety of sensors. The trend in recent times has been to fit, simultaneously, all of the above sensors to a vehicle in order to maximise data collection from the pipeline in a single pass. This data is then processed in real time as the ROV travels the pipeline. Thus, a chart representing all the available data can be made available shortly after completion of a dive. The current generation of ROVs uses umbilicals containing various combinations of power conductors, co-axia and twisted pairs to carry the sensor data. These umbilicals, however, have inherent disadvantages which become apparent as sensor data increase in quantity and complexity. This disadvantage is the incompatibility of required high quality-data being transmitted to the surface and the large amounts of electrical energy demanded by the vehicle. Another disadvantage is the incompatibility between sensor signals in terms of frequency and power. However, to eliminate these problems, and to provide for future developments in ROV technology, the new generation of ROVs utilise fibre-optic conductors, the advantages being that they are immune from electro-magnetic interference, they offer wider band-widths with lower power losses (typically 5 dB or less per km) than conventional copper conductors, and are easier to handle as umbilicals lengthen due to demand for vehicles to reach greater depths. Typically, these new umbilicals will be 1.5 km in length.

  11. KENYA’S OIL PIPELINE AND TERRORISM

    Directory of Open Access Journals (Sweden)

    E.O.S.ODHIAMBO

    2014-04-01

    Full Text Available The threat of Al-Shabaab and Al-Qaeda terrorist attacks on the critical infrastructure (oil pipeline in Kenya has brought to the attention the strategic issue of the energy sector security, highlighting the potential vulnerabilities of this sector. Critical Infrastructure Protection (CIP should be a key component of the national security especially after the Kenya Defence Forces’ (KDF incursion into Somalia. The merger of Al-Shabaab and Al-Qaeda terrorist groups and the accelerated grenades attack against Kenya in retaliation has become the centre of the debate on terrorism and internal security of the Kenya. The energy resources are strategic assets from the security, political and economic point of view. Kenya as an oil transit country is considered of primary strategic importance at international level. International terrorism has always looked with interest at the oil resource in order to meet its political and economic targets. We argue that Kenya’s oil pipelines are vulnerable to Al-Shabaab and Al-Qaeda terrorist attack. In summary, the article looks at the concept of terrorism within the framework of critical infrastructure protection, the dangers of attacks on oil pipelines, Kenya’s government preparedness and recommendations.

  12. Instruction issue logic in pipelined supercomputers

    Energy Technology Data Exchange (ETDEWEB)

    Weiss, S.; Smith, J.E.

    1984-11-01

    Basic principles and design tradeoffs for control of pipelined processors are first discussed. We concentrate on register-register architectures like the CRAY-1 where pipeline control logic is localized to one or two pipeline stages and is referred to as ''instruction issue logic.'' Design tradeoffs are explored by giving designs for a variety of instruction issue methods that represent a range of complexity and sophistication. These vary from the CRAY-1 issue logic to a version of Tomasulo's algorithm, first used in the IBM 360/91 floating point unit. Also studied are Thornton's ''scoreboard'' algorithm used on the CDC 6600 and an algorithm we have devised. To provide a standard for comparison, all the issue methods are used to implement the CRAY-1 scalar architecture. Then, using a simulation model and the Lawrence Livermore Loops compiled with the CRAY Fortran compiler, performance results for the various issue methods are given and discussed.

  13. Outcome of laterally directed sextant biopsies of the prostate in screened males aged 50--66 years. Implications for sampling order.

    Science.gov (United States)

    Aus, G; Bergdahl, S; Hugosson, J; Lodding, P; Pihl, C G; Pileblad, E

    2001-06-01

    Prostate cancer has its most frequent location in the posterior-lateral part of the gland. The aim of this study was to evaluate the cancer detection rate of six systemic prostate biopsies with mid lobar biopsies taken far laterally in the prostate. A total of 692 patients (aged 50--66 years) enrolled in a screening study underwent prostate biopsies because of an elevated serum prostate-specific antigen (PSA; > or =3 ng/ml) level. The outcome of the biopsies was related to findings at digital rectal examination (DRE) and transrectal ultrasound (TRUS) and to the location within the prostate. Prostate cancer was detected in 164 patients. DRE and TRUS were suspicious of malignancy in 66 cases (40%) and 84 cases (51%), respectively. The two biopsies taken far laterally midlobar in the prostate detected as many as 83% of the cancers and when combined with two apical biopsies, 96% of all cancers were detected. At PSA screening in this age-group, only 57% of the prostate cancers detectable by sextant biopsies were palpable or visible at TRUS. Most of the cancers (96%) were detectable by only four systematic, carefully directed biopsies. In men with normal DRE, the two lateral midlobar biopsies should be taken first during the biopsy procedure.

  14. Normal Levels of Plasma Free Carnitine and Acylcarnitines in Follow-Up Samples From a Presymptomatic Case of Carnitine Palmitoyl Transferase 1 (CPT1) Deficiency Detected Through Newborn Screening in Denmark

    DEFF Research Database (Denmark)

    Borch, Luise; Lund, Allan; Wibrand, Flemming

    2011-01-01

    Carnitine palmitoyl transferase (CPT) 1 A deficiency is a rare disorder of hepatic long-chain fatty acid oxidation. CPT1 deficiency is included in newborn screening programs in a number of countries to allow presymptomatic detection and early treatment of affected patients. We present a case...... of presymptomatic CPT1A deficiency detected through newborn screening in Denmark with diagnostic levels of carnitine and acylcarnitines in the initial dried blood spot. Levels of plasma-free carnitine and acylcarnitines in follow-up samples were normal, but reverted to diagnostic levels when the patient developed...... clinical symptoms at the age of 8 months. At that time, a diagnosis of CPT1A deficiency was confirmed by sequence analysis of the CPT1A gene revealing homozygosity for a novel c.167C>T variation in exon 3. Enzyme activity measurements showed a relatively mild enzyme defect with a decreased residual enzyme...

  15. Evaluation of an O antigen enzyme-linked immunosorbent assay for screening of milk samples for Salmonella dublin infection in dairy herds

    DEFF Research Database (Denmark)

    Hoorfar, Jeffrey; Lind, Peter; Bitsch, V.

    1995-01-01

    samples from 9 animals were collected in each of 20 salmonellosis-free herds located on the island of Bornholm, where cattle salmonellosis has not been reported. Similar samples were collected from all stalled animals in 10 herds with recent (0.5, resulting in herd sensitivity of 1.0 and herd specificity...

  16. New immunochemical fecal occult blood test with two-consecutive stool sample testing is a cost-effective approach for colon cancer screening: results of a prospective multicenter study in Chinese patients.

    Science.gov (United States)

    Li, Shirong; Wang, Huahong; Hu, Jichun; Li, Nan; Liu, Yulan; Wu, Zitao; Zheng, Yue; Wang, Honghua; Wu, Kai; Ye, Hui; Rao, Jianyu

    2006-06-15

    The purpose of the study is to evaluate a new immunochemical fecal occult blood test method (Hemosure IFOBT), and compare it to the Guaiac-based chemical method (CFOBT) for colorectal cancer detection. A hypothetical sequential method (SFOBT), in which IFOBT was used only as a confirmatory test for CFOBT, was also evaluated. A total of 324 patients were recruited from 5 major hospitals in Beijing, China. For each patient, 3 consecutive stool samples were collected for simultaneous CFOBT and IFOBT tests, followed by colonoscopic examination. We compared the sensitivity and specificity of the 3 methods (CFOBT, IFOBT and SFOBT) in two settings, with the first 2 consecutive samples versus all 3 samples. Although the sensitivity for the detection of cancer and large (>20 mm) or multiple adenoma was similar for all 3 methods in the three-sample setting, in the two-sample setting IFOBT had higher sensitivity than SFOBT for detecting cancer (87.8% vs. 75.5%, respectively, p 20 mm) or multiple adenomas (65.4% vs. 42.3%, respectively, p < 0.05). The IFOBT also had a higher specificity than the CFOBT (89.2% vs. 75.5%, respectively, p < 0.01) in "normal" individuals defined by colonoscopy in the three-sample setting. Comparing two-sample setting to the three-sample setting, both CFOBT and SFOBT showed significant loss of sensitivity for the detection of cancer as well as adenoma, whereas the sensitivity for IFOBT did not change significantly. Overall, IFOBT with two-sample testing showed compatible sensitivity and specificity to the three-sample testing, and had a lower relative cost per cancer detected than the three-sample testing. In conclusion, the new Hemosure IFOBT with two consecutive stool samples appears to be the most cost-effective approach for colon cancer screening. Copyright 2006 Wiley-Liss, Inc.

  17. [Near-infrared spectra combining with CARS and SPA algorithms to screen the variables and samples for quantitatively determining the soluble solids content in strawberry].

    Science.gov (United States)

    Li, Jiang-bo; Guo, Zhi-ming; Huang, Wen-qian; Zhang, Bao-hua; Zhao, Chun-jiang

    2015-02-01

    In using spectroscopy to quantitatively or qualitatively analyze the quality of fruit, how to obtain a simple and effective correction model is very critical for the application and maintenance of the developed model. Strawberry as the research object, this research mainly focused on selecting the key variables and characteristic samples for quantitatively determining the soluble solids content. Competitive adaptive reweighted sampling (CARS) algorithm was firstly proposed to select the spectra variables. Then, Samples of correction set were selected by successive projections algorithm (SPA), and 98 characteristic samples were obtained. Next, based on the selected variables and characteristic samples, the second variable selection was performed by using SPA method. 25 key variables were obtained. In order to verify the performance of the proposed CARS algorithm, variable selection algorithms including Monte Carlo-uninformative variable elimination (MC-UVE) and SPA were used as the comparison algorithms. Results showed that CARS algorithm could eliminate uninformative variables and remove the collinearity information at the same time. Similarly, in order to assess the performance of the proposed SPA algorithm for selecting the characteristic samples, SPA algorithm was compared with classical Kennard-Stone algorithm Results showed that SPA algorithm could be used for selection of the characteristic samples in the calibration set. Finally, PLS and MLR model for quantitatively predicting the SSC (soluble solids content) in the strawberry were proposed based on the variables/samples subset (25/98), respectively. Results show that models built by using the 0.59% and 65.33% information of original variables and samples could obtain better performance than using the ones obtained by using all information of the original variables and samples. MLR model was the best with R(pre)2 = 0.9097, RMSEP=0.3484 and RPD = 3.3278.

  18. Remaining Sites Verification Package for the 100-F-44:2, Discovery Pipeline Near 108-F Building, Waste Site Reclassification Form 2007-006

    Energy Technology Data Exchange (ETDEWEB)

    J. M. Capron

    2008-05-30

    The 100-F-44:2 waste site is a steel pipeline that was discovered in a junction box during confirmatory sampling of the 100-F-26:4 pipeline from December 2004 through January 2005. The 100-F-44:2 pipeline feeds into the 100-F-26:4 subsite vitrified clay pipe (VCP) process sewer pipeline from the 108-F Biology Laboratory at the junction box. In accordance with this evaluation, the confirmatory sampling results support a reclassification of this site to No Action. The current site conditions achieve the remedial action objectives and the corresponding remedial action goals established in the Remaining Sites ROD. The results of confirmatory sampling show that residual contaminant concentrations do not preclude any future uses and allow for unrestricted use of shallow zone soils. The results also demonstrate that residual contaminant concentrations are protective of groundwater and the Columbia River.

  19. Early generation pipeline girth welding practices and their implications for integrity management of North American pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Amend, Bill [DNV Columbus, Inc., Yorba Linda, CA (United States)

    2010-07-01

    In response to the interest in ensuring the continued safe operation of vintage pipelines and the integrity management challenges related to those pipelines, PRCI sponsored in 2009 a project called {sup V}intage Girth Weld Defect Assessment - Comprehensive Study{sup .} Its objectives focused on girth welds made with the shielded metal arc welding (SMAW) process, particularly with regard to: review of approaches for evaluating the integrity of these welds; description of the typical characteristics and properties of SMAW vintage welds; determination of gaps in available information and technology that hinder effective integrity assessment and management of vintage girth welds. A very extensive literature review was performed as part of this project. Key findings include the following. The failure rate of early generation girth welds is low, especially when considering the rate of catastrophic failures. Pipeline girth welds are unlikely to fail unless subjected to axial strains that far exceed the strains related to internal pressure alone.

  20. Psychopathic traits and conduct problems in community and clinic-referred samples of children: further development of the psychopathy screening device.

    Science.gov (United States)

    Frick, P J; Bodin, S D; Barry, C T

    2000-12-01

    This study examined the structure of psychopathic traits in 2 samples of children. The nonreferred community sample included 1,136 children recruited from elementary schools in 2 school districts in the southeastern United States. The clinic sample included 160 children referred to an outpatient mental health clinic serving the same geographic region. In both samples, parent and teacher ratings of psychopathic traits were subjected to a principal-axis factor analysis, and the congruence of the factor structure across samples was examined using confirmatory factor analysis. In both samples, 1 dimension that consisted of the callous and unemotional traits that have been hallmarks of most clinical descriptions of psychopathy was isolated. Two other dimensions consisting of narcissistic traits and impulsivity emerged in the community sample. Both the narcissism and impulsivity dimensions were highly related to symptoms of oppositional defiant disorder, conduct disorder, and attention deficit hyperactivity disorder. However, the callous and unemotional traits were only weakly associated with these symptoms after controlling for the other dimensions of psychopathy.

  1. Virtual Pipeline System Testbed to Optimize the U.S. Natural Gas Transmission Pipeline System

    Energy Technology Data Exchange (ETDEWEB)

    Kirby S. Chapman; Prakash Krishniswami; Virg Wallentine; Mohammed Abbaspour; Revathi Ranganathan; Ravi Addanki; Jeet Sengupta; Liubo Chen

    2005-06-01

    The goal of this project is to develop a Virtual Pipeline System Testbed (VPST) for natural gas transmission. This study uses a fully implicit finite difference method to analyze transient, nonisothermal compressible gas flow through a gas pipeline system. The inertia term of the momentum equation is included in the analysis. The testbed simulate compressor stations, the pipe that connects these compressor stations, the supply sources, and the end-user demand markets. The compressor station is described by identifying the make, model, and number of engines, gas turbines, and compressors. System operators and engineers can analyze the impact of system changes on the dynamic deliverability of gas and on the environment.

  2. Environmental impact assessment in the pipeline industry. Experiences with the UK north western ethylene pipeline

    Energy Technology Data Exchange (ETDEWEB)

    Ryde, A.

    1997-12-31

    The north western ethylene pipeline is the final link between Shell`s oil and gas fields in the North Sea and its petrochemical complexes in Cheshire. The natural gas from which ethylene is obtained comes from the Brent and central fields in the North Sea. Environmental impacts are discussed in this paper covering topics as follow: Regulatory and legal aspects; environmental assessment during planning and design; environmental control during construction; environmental management during operation; environmental controls at sensitive sites on the north western ethylene pipeline: some examples. 11 refs., 2 figs.

  3. Quartz-Containing Ceramic Dusts: In vitro screening of the cytotoxic, genotoxic and pro-inflammatory potential of 5 factory samples

    Science.gov (United States)

    Ziemann, C.; Jackson, P.; Brown, R.; Attik, G.; Rihn, B. H.; Creutzenberg, O.

    2009-02-01

    Inhalation of some respirable crystalline silica (MMAD RF>TG>Ti>BR>TC>Al2O3. DNA-damage was maximal for BR and TI followed by DQ12>TG>TC>RF>Al2O3. All dusts induced PGE2-liberation (DQ12>BR>TC>TG>Ti>RF>Al2O3) at 50μg/cm2 (4h), but TNF-a mRNA (10μg/cm2, 24h) was only increased by DQ12, TG (quartz-dependently), and TC. In conclusion, these in vitro tests were an adequate approach to screen the toxic potential of quartz-containing ceramic dusts, but the quartz-content was too low to differentiate the various quartz-varieties.

  4. Phylometrics: a pipeline for inferring phylogenetic trees from a sequence relationship network perspective.

    Science.gov (United States)

    Smits, Samuel A; Ouverney, Cleber C

    2010-10-07

    Comparative sequence analysis of the 16S rRNA gene is frequently used to characterize the microbial diversity of environmental samples. However, sequence similarities do not always imply functional or evolutionary relatedness due to many factors, including unequal rates of change and convergence. Thus, relying on top BLASTN hits for phylogenetic studies may misrepresent the diversity of these constituents. Furthermore, attempts to circumvent this issue by including a large number of BLASTN hits per sequence in one tree to explore their relatedness presents other problems. For instance, the multiple sequence alignment will be poor and computationally costly if not relying on manual alignment, and it may be difficult to derive meaningful relationships from the resulting tree. Analyzing sequence relationship networks within collective BLASTN results, however, reveal sequences that are closely related despite low rank. We have developed a web application, Phylometrics, that relies on networks of collective BLASTN results (rather than single BLASTN hits) to facilitate the process of building phylogenetic trees in an automated, high-throughput fashion while offering novel tools to find sequences that are of significant phylogenetic interest with minimal human involvement. The application, which can be installed locally in a laboratory or hosted remotely, utilizes a simple wizard-style format to guide the user through the pipeline without necessitating a background in programming. Furthermore, Phylometrics implements an independent job queuing system that enables users to continue to use the system while jobs are run with little or no degradation in performance. Phylometrics provides a novel data mining method to screen supplied DNA sequences and to identify sequences that are of significant phylogenetic interest using powerful analytical tools. Sequences that are identified as being similar to a number of supplied sequences may provide key insights into their functional

  5. Optimal waist-to-height ratio values for cardiometabolic risk screening in an ethnically diverse sample of South African urban and rural school boys and girls.

    Directory of Open Access Journals (Sweden)

    Tandi E Matsha

    Full Text Available BACKGROUND: The proposed waist-to-height ratio (WHtR cut-off of 0.5 is less optimal for cardiometabolic risk screening in children in many settings. The purpose of this study was to determine the optimal WHtR for children from South Africa, and investigate variations by gender, ethnicity and residence in the achieved value. METHODS: Metabolic syndrome (MetS components were measured in 1272 randomly selected learners, aged 10-16 years, comprising of 446 black Africans, 696 mixed-ancestry and 130 Caucasians. The Youden's index and the closest-top-left (CTL point approaches were used to derive WHtR cut-offs for diagnosing any two MetS components, excluding the waist circumference. RESULTS: The two approaches yielded similar cut-off in girls, 0.465 (sensitivity 50.0, specificity 69.5, but two different values in boys, 0.455 (42.9, 88.4 and 0.425 (60.3, 67.7 based on the Youden's index and the CTL point, respectively. Furthermore, WHtR cut-off values derived differed substantially amongst the regions and ethnic groups investigated, whereby the highest cut-off was observed in semi-rural and white children, respectively, Youden's index0.505 (31.6, 87.1 and CTL point 0.475 (44.4, 75.9. CONCLUSION: The WHtR cut-off of 0.5 is less accurate for screening cardiovascular risk in South African children. The optimal value in this setting is likely gender and ethnicity-specific and sensitive to urbanization.

  6. Pipeline corridors through wetlands - impact on plant communities: Mill Creek Tributary Crossing, Jefferson County, New York, 1991 survey. Topical report, June 1991--April 1993

    Energy Technology Data Exchange (ETDEWEB)

    Van Dyke, G.D. [Argonne National Lab., IL (United States)]|[Trinity Christian College, Palos Heights, IL (United States); Shem, L.M.; Zimmerman, R.E. [Argonne National Lab., IL (United States)

    1994-12-01

    The goal of the Gas Research Institute Wetland Corridors Program is to document impacts of existing pipelines on the wetlands they traverse. To accomplish this goal, 12 existing wetland crossings were surveyed. These sites varied in elapsed time since pipeline construction, wetland type, pipeline installation techniques, and right-of-way (ROW) management practices. This report presents the results of a survey conducted in June 1991 at the Mill Creek tributary crossing, Jefferson County, New York. One pipeline had been installed through the wetland in 1966, and another was scheduled to be installed later in 1991. Data were collected along the existing pipeline ROW and also along the planned ROW for use as baseline data in future studies. Four separate communities were surveyed. A scrub-shrub wetland and a forested wetland were sampled along the existing ROW where the planned pipeline was to be installed. A mixed vegetation community was sampled along the existing ROW, west of where the planned pipeline would joint the ROW. A marsh community was sampled along the route of the planned pipeline. All plant species found on the ROW of the scrub-shrub community were also present in the adjacent natural areas. The vegetation on the ROW of the forested wetland community also consisted mostly of species found in the adjacent natural areas. In the mixed vegetation community, a small drainage channel present on the ROW, possibly resulting from the pipeline construction, provided habitat for a number of obligate species not found in other areas of this community. Differences noted among different areas of this community were also attributed to slight variations in elevation.

  7. Working group 3: upstream pipelines: inspection, corrosion and integrity management

    Energy Technology Data Exchange (ETDEWEB)

    Paez, Jorge; Stephenson, Mark [Talisman Energy, (Canada)

    2011-07-01

    The third topic investigated the latest challenges to upstream pipeline operation and the areas for improvement in upstream integrity in the pipeline industry. The first session of talks reported on the pipeline incident analysis conducted by the CAPP on several companies from 2006 to 2010 in order to identify best management practises and to drive improvement in pipeline integrity management. Reviews of primary failure statistics and failure frequency were conducted with respect to the various materials of pipes. A summary of changes to the CSA standard related to non-metallic pipes was also presented to complete this background overview of the upstream industry. The second session provided more information about these non-metallic pipes, focusing on construction and quality issues with large diameter HDPE pipelines. The third session discussed the ERW pipeline in relation to upstream industry. An integrity management panel discussion was carried out to close this third working group.

  8. Leadership Pipeline på rejse i den offentlige sektor

    DEFF Research Database (Denmark)

    Nielsen, Jeppe; Dahl, Kristian Aagaard

    2015-01-01

    udbredelse af Leadership Pipeline modellen. Forskningslitteraturen om Leadership Pipeline er imidlertid beskeden. Med teoretisk ammunition fra ”idé på rejse” perspektivet og et multi-level case studie i den danske offentlige sektor belyser artiklen udbredelse og implementering af Leadership Pipeline. Ved...... at anvende skiftende teoretiske begreber og henholdsvis zoome-ind (organisationsniveau) og zoome-ud (feltniveau) viser artiklen, hvordan en række gensidigt forbundne teoretiserings- og translationsaktiviteter sikrede Leadership Pipeline legitimitet og fremskyndede dens udbredelse samtidig med, at forskellige...... praksisvarianter af Leadership Pipeline udkrystalliserede sig i offentlige organisationer med hver deres kendetegn og problemdefinitioner. Med afsæt i denne empiri argumenterer vi for, at implementering af Leadership Pipeline udspillede sig i overlappende teoretiserings- og translationsaktiviteter, der forstærkede...

  9. Crack detection in pipelines using multiple electromechanical impedance sensors

    Science.gov (United States)

    Zuo, Chunyuan; Feng, Xin; Zhang, Yu; Lu, Lu; Zhou, Jing

    2017-10-01

    An extensive network of pipeline systems is used to transport and distribute national energy resources that heavily influence a nation’s economy. Therefore, the structural integrity of these pipeline systems must be monitored and maintained. However, structural damage detection remains a challenge in pipeline engineering. To this end, this study developed a modified electromechanical impedance (EMI) technique for crack detection that involves fusing information from multiple sensors. We derived a new damage-sensitive feature factor based on a pipeline EMI model that considers the influence of the bonding layer between the EMI sensors and pipeline. We experimentally validated the effectiveness of the proposed method. Finally, we used a damage index—root mean square deviation—to examine the degree and position of crack damage in a pipeline.

  10. Managing changes of location classes of gas pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Cunha, Sergio B.; Sousa, Antonio Geraldo de [PETROBRAS Transporte S.A. (TRANSPETRO), Rio de Janeiro, RJ (Brazil)

    2009-12-19

    Most of the gas pipeline design codes utilize a class location system, where the design safety factor and the hydrostatic test factor are determined according to the population density in the vicinities of the pipeline route. Consequently, if an operator is requested or desires to maintain an existing gas pipeline in compliance with its design code, it will reduce the operational pressure or replace pipe sections to increase the wall thickness whenever a change in location class takes place. This article introduces an alternative methodology to deal with changes in location classes of gas pipelines. Initially, selected codes that utilize location class systems are reviewed. Afterwards, a model for the area affected by an ignition following a natural gas pipeline leak is described. Finally, a methodology to determine the MAOP and third part damage mitigation measures for gas transport pipelines that underwent changes in location class is presented. (author)

  11. Investigation of CPD and HMDS Sample Preparation Techniques for Cervical Cells in Developing Computer-Aided Screening System Based on FE-SEM/EDX

    OpenAIRE

    Yessi Jusman; Siew Cheok Ng; Noor Azuan Abu Osman

    2014-01-01

    This paper investigated the effects of critical-point drying (CPD) and hexamethyldisilazane (HMDS) sample preparation techniques for cervical cells on field emission scanning electron microscopy and energy dispersive X-ray (FE-SEM/EDX). We investigated the visualization of cervical cell image and elemental distribution on the cervical cell for two techniques of sample preparation. Using FE-SEM/EDX, the cervical cell images are captured and the cell element compositions are extracted for both ...

  12. Comparison study on qualitative and quantitative risk assessment methods for urban natural gas pipeline network.

    Science.gov (United States)

    Han, Z Y; Weng, W G

    2011-05-15

    In this paper, a qualitative and a quantitative risk assessment methods for urban natural gas pipeline network are proposed. The qualitative method is comprised of an index system, which includes a causation index, an inherent risk index, a consequence index and their corresponding weights. The quantitative method consists of a probability assessment, a consequences analysis and a risk evaluation. The outcome of the qualitative method is a qualitative risk value, and for quantitative method the outcomes are individual risk and social risk. In comparison with previous research, the qualitative method proposed in this paper is particularly suitable for urban natural gas pipeline network, and the quantitative method takes different consequences of accidents into consideration, such as toxic gas diffusion, jet flame, fire ball combustion and UVCE. Two sample urban natural gas pipeline networks are used to demonstrate these two methods. It is indicated that both of the two methods can be applied to practical application, and the choice of the methods depends on the actual basic data of the gas pipelines and the precision requirements of risk assessment. Crown Copyright © 2011. Published by Elsevier B.V. All rights reserved.

  13. Quantitative risk analysis in two pipelines operated by TRANSPETRO

    Energy Technology Data Exchange (ETDEWEB)

    Garcia, Claudio B. [PETROBRAS Transporte S/A (TRANSPETRO), Rio de Janeiro, RJ (Brazil); Pinho, Edson [Universidade Federal Rural do Rio de Janeiro (UFRRJ), Seropedica, RJ (Brazil); Bittencourt, Euclides [Centro Universitario FIB, Salvador , BA (Brazil)

    2009-07-01

    Transportation risk analysis techniques were used to study two pipelines operated by TRANSPETRO. The Pipeline A is for the simultaneous transportation of diesel, gasoline and LPG and comprises three parts, all of them crossing rural areas. The Pipeline B is for oil transportation and one of its ends is located in an area of a high density population. Both pipelines had their risk studied using the PHAST RISK{sup R} software and the individual risk measures, the only considered measures for license purposes for this type of studies, presented level far below the maximum tolerable levels considered. (author)

  14. Computer models of pipeline systems based on electro hydraulic analogy

    Science.gov (United States)

    Kolesnikov, S. V.; Kudinov, V. A.; Trubitsyn, K. V.; Tkachev, V. K.; Stefanyuk, E. V.

    2017-10-01

    This paper describes the results of the development of mathematical and computer models of complex multi-loop branched pipeline networks for various purposes (water-oil-gas pipelines, heating networks, etc.) based on the electro hydraulic analogy of current spread in conductors and fluids in pipelines described by the same equations. Kirchhoff’s laws used in the calculation of electrical networks are applied in the calculations for pipeline systems. To maximize the approximation of the computer model to the real network concerning its resistance to the process of transferring the medium, the method of automatic identification of the model is applied.

  15. Quartz-Containing Ceramic Dusts: In vitro screening of the cytotoxic, genotoxic and pro-inflammatory potential of 5 factory samples

    Energy Technology Data Exchange (ETDEWEB)

    Ziemann, C; Creutzenberg, O [Fraunhofer Institute of Toxicology and Experimental Medicine, Hannover (Germany); Jackson, P [CERAM Research Ltd., Stoke-on-Trent (United Kingdom); Brown, R [TOXSERVICES, Stretton (United Kingdom); Attik, G; Rihn, B H, E-mail: christina.ziemann@item.fraunhofer.d [Nancy-University, Faculte de Pharmacie, Nancy (France)

    2009-02-01

    Inhalation of some respirable crystalline silica (MMAD < approx. 4 mum) leads to inflammatory and malignant diseases. Comprehensive physicochemical/biological data and suitable in vitro/in vivo methods may distinguish between more or less harmful quartz-varieties. Within the European Collective Research Project SILICERAM an in vitro screening battery was established to evaluate cytotoxicity (LDH-release, MTT-assay), genotoxicity (Comet-assay) and pro-inflammatory potential (PGE{sub 2}-liberation, TNF-a mRNA expression) of 5 respirable quartz-containing dusts from ceramic plants: brickwork (BR: 7.8% quartz), tableware granulate/cast (TG/TC: 5.8%/3.1%), tiles (TI: 8.1%), refractory (RF: 3.7%). DQ12 (87% a-quartz) and Al{sub 2}O{sub 3} were used as particulate positive and negative controls, respectively. Primary rat alveolar macrophages and the macrophage cell line NR8383 served as model systems. Aluminium lactate was used as inhibitor of biologically active silica, enabling differentiation of silica- and non-specific toxicity. At 200mug/cm{sup 2} (2h) the dusts did not alter significantly LDH-release (except TC), whereas the MTT-assay demonstrated the mainly quartz-independent rank order: DQ12>RF>TG>Ti>BR>TC>Al{sub 2}O{sub 3}. DNA-damage was maximal for BR and TI followed by DQ12>TG>TC>RF>Al{sub 2}O{sub 3}. All dusts induced PGE{sub 2}-liberation (DQ12>BR>TC>TG>Ti>RF>Al{sub 2}O{sub 3}) at 50mug/cm{sup 2} (4h), but TNF-a mRNA (10mug/cm{sup 2}, 24h) was only increased by DQ12, TG (quartz-dependently), and TC. In conclusion, these in vitro tests were an adequate approach to screen the toxic potential of quartz-containing ceramic dusts, but the quartz-content was too low to differentiate the various quartz-varieties.

  16. Pipeline bottoming cycle study. Final report

    Energy Technology Data Exchange (ETDEWEB)

    1980-06-01

    The technical and economic feasibility of applying bottoming cycles to the prime movers that drive the compressors of natural gas pipelines was studied. These bottoming cycles convert some of the waste heat from the exhaust gas of the prime movers into shaft power and conserve gas. Three typical compressor station sites were selected, each on a different pipeline. Although the prime movers were different, they were similar enough in exhaust gas flow rate and temperature that a single bottoming cycle system could be designed, with some modifications, for all three sites. Preliminary design included selection of the bottoming cycle working fluid, optimization of the cycle, and design of the components, such as turbine, vapor generator and condensers. Installation drawings were made and hardware and installation costs were estimated. The results of the economic assessment of retrofitting bottoming cycle systems on the three selected sites indicated that profitability was strongly dependent upon the site-specific installation costs, how the energy was used and the yearly utilization of the apparatus. The study indicated that the bottoming cycles are a competitive investment alternative for certain applications for the pipeline industry. Bottoming cycles are technically feasible. It was concluded that proper design and operating practices would reduce the environmental and safety hazards to acceptable levels. The amount of gas that could be saved through the year 2000 by the adoption of bottoming cycles for two different supply projections was estimated as from 0.296 trillion ft/sup 3/ for a low supply projection to 0.734 trillion ft/sup 3/ for a high supply projection. The potential market for bottoming cycle equipment for the two supply projections varied from 170 to 500 units of varying size. Finally, a demonstration program plan was developed.

  17. Materials Solutions for Hydrogen Delivery in Pipelines

    Energy Technology Data Exchange (ETDEWEB)

    Ningileri, Shridas T.; Boggess, Todd A; Stalheim, Douglas

    2013-01-02

    The main objective of the study is as follows: Identify steel compositions/microstructures suitable for construction of new pipeline infrastructure and evaluate the potential use of the existing steel pipeline infrastructure in high pressure gaseous hydrogen applications. The microstructures of four pipeline steels were characterized and tensile testing was conducted in gaseous hydrogen and helium at pressures of 5.5 MPa (800 psi), 11 MPa (1600 psi) and 20.7 MPa (3000 psi). Based on reduction of area, two of the four steels that performed the best across the pressure range were selected for evaluation of fracture and fatigue performance in gaseous hydrogen at 5.5 MPa (800 psi) and 20.7 MPa (3000 psi). The basic format for this phase of the study is as follows: Microstructural characterization of volume fraction of phases in each alloy; Tensile testing of all four alloys in He and H{sub 2} at 5.5 MPa (800 psi), 11 MPa (1600 psi), and 20.7 MPa (3000 psi). RA performance was used to choose the two best performers for further mechanical property evaluation; Fracture testing (ASTM E1820) of two best tensile test performers in H{sub 2} at 5.5 MPa (800 psi) and 20.7 MPa (3000 psi); Fatigue testing (ASTM E647) of two best tensile test performers in H2 at 5.5 MPa (800 psi) and 20.7 MPa (3000 psi) with frequency =1.0 Hz and R-ratio=0.5 and 0.1.

  18. 75 FR 63774 - Pipeline Safety: Safety of On-Shore Hazardous Liquid Pipelines

    Science.gov (United States)

    2010-10-18

    ...-operated on the outer continental shelf (OCS); breakout tanks that receive and store hazardous liquid, but... the pipeline safety regulations have been inspected with an in-line inspection tool (i.e., a ``smart...? ] E.6 Should PHMSA adopt standards for conducting in-line inspections using ``smart pigs,'' the...

  19. 77 FR 36606 - Pipeline Safety: Government/Industry Pipeline Research and Development Forum, Public Meeting

    Science.gov (United States)

    2012-06-19

    ... pipeline safety and with protecting the environment. The forum allows public, government and industry... sessions to provide introductory, panel, and summary presentations, and concurrent working group sessions...--Advancing Technology into the Market (General Session) Working Group Overview (General Session) Working...

  20. Forties field pipeline major technical project

    Energy Technology Data Exchange (ETDEWEB)

    1973-05-01

    Laying of the submarine North Sea line to connect the westerly platform in the Forties field to a landfall at Cruden Bay is a critical area in British Petroleum Co. Ltd.'s development program. The length of the route is approx. 106 miles. The pipeline of 32-in. 3/4-in. wall X65 grade will be laid for most of its length in water depths between 300 and 400 ft. The problems center on control of buoyancy and tension in the line while laying, to avoid overstressing and possible buckling. Both contracted lay barges were in position during April and work has begun.