Science.gov

Sample records for achieve reproducible thin

  1. Carbon Nanotube Thin Film Biosensors for Sensitive and Reproducible Whole Virus Detection

    PubMed Central

    Mandal, Himadri S.; Su, Zhengding; Ward, Andrew; Tang, Xiaowu (Shirley)

    2012-01-01

    Here, we report the label-free, sensitive, and real-time electrical detection of whole viruses using carbon nanotube thin film (CNT-TF) field effect devices. Selective detection of approximately 550 model viruses, M13-bacteriophage, is demonstrated using a simple two-terminal (no gate electrode) configuration. Chemical gating through specific antibody-virus binding on CNT surface is proposed to be the sensing mechanism. Compared to electrical impedance sensors with identical microelectrode dimensions (no CNT), the CNT-TF sensors exhibit sensitivity 5 orders higher. We believe the reported approach could lead to a reproducible and cost-effective solution for rapid viral identification. PMID:22448194

  2. Prosthetic Breast Reconstruction With Acellular Dermal Matrices: Achieving Predictability and Reproducibility.

    PubMed

    Nahabedian, Maurice Y

    2016-05-01

    The use of acellular dermal matrices in the setting of prosthetic breast reconstruction has captured the attention of many plastic surgeons. The regenerative capacity of these materials has provided additional tissue support to the mastectomy skin flaps with the ultimate result of improving surgical and aesthetic outcomes. Despite the benefits, there remains a significant diversity with regard to outcomes with some surgeons reporting increased morbidity. The reasons for this are varied but ultimately related to differences in patient selection and surgical techniques. The purpose of this article is to provide strategies for using acellular dermal matrix to achieve success in a manner that is usually associated with outcomes that are predictable and reproducible. PMID:27579223

  3. Prosthetic Breast Reconstruction With Acellular Dermal Matrices: Achieving Predictability and Reproducibility

    PubMed Central

    2016-01-01

    Summary: The use of acellular dermal matrices in the setting of prosthetic breast reconstruction has captured the attention of many plastic surgeons. The regenerative capacity of these materials has provided additional tissue support to the mastectomy skin flaps with the ultimate result of improving surgical and aesthetic outcomes. Despite the benefits, there remains a significant diversity with regard to outcomes with some surgeons reporting increased morbidity. The reasons for this are varied but ultimately related to differences in patient selection and surgical techniques. The purpose of this article is to provide strategies for using acellular dermal matrix to achieve success in a manner that is usually associated with outcomes that are predictable and reproducible. PMID:27579223

  4. Manufacturing of glassy thin shell for adaptive optics: results achieved

    NASA Astrophysics Data System (ADS)

    Poutriquet, F.; Rinchet, A.; Carel, J.-L.; Leplan, H.; Ruch, E.; Geyl, R.; Marque, G.

    2012-07-01

    Glassy thin shells are key components for the development of adaptive optics and are part of future & innovative projects such as ELT. However, manufacturing thin shells is a real challenge. Even though optical requirements for the front face - or optical face - are relaxed compared to conventional passive mirrors, requirements concerning thickness uniformity are difficult to achieve. In addition, process has to be completely re-defined as thin mirror generates new manufacturing issues. In particular, scratches and digs requirement is more difficult as this could weaken the shell, handling is also an important issue due to the fragility of the mirror. Sagem, through REOSC program, has recently manufactured different types of thin shells in the frame of European projects: E-ELT M4 prototypes and VLT Deformable Secondary Mirror (VLT DSM).

  5. Macroscopic locality with equal bias reproduces with high fidelity a quantum distribution achieving the Tsirelson's bound

    NASA Astrophysics Data System (ADS)

    Gazi, Md. Rajjak; Banik, Manik; Das, Subhadipa; Rai, Ashutosh; Kunkri, Samir

    2013-11-01

    Two physical principles, macroscopic locality (ML) and information causality (IC), so far have been most successful in distinguishing quantum correlations from post-quantum correlations. However, there are also some post-quantum probability distributions which cannot be distinguished with the help of these principles. Thus, it is interesting to see whether consideration of these two principles, separately, along with some additional physically plausible constraints, can explain some interesting quantum features which are otherwise hard to reproduce. In this paper we show that in a Bell-Clauser-Horne-Shimony-Holt scenario, ML along with the constraint of equal bias for the concerned observables, almost reproduces the quantum joint probability distribution corresponding to a maximal quantum Bell violation, which is unique up to relabeling. From this example and earlier work of Cavalcanti, Salles, and Scarani, we conclude that IC and ML are inequivalent physical principles; satisfying one does not imply that the other is satisfied.

  6. Achieving Reproducible Performance of Electrochemical, Folding Aptamer-Based Sensors on Microelectrodes: Challenges and Prospects

    PubMed Central

    2015-01-01

    Combining specific recognition capabilities with the excellent spatiotemporal resolution of small electrodes represents a promising methodology in bioanalytical and chemical sensing. In this paper, we report the development of reproducible electrochemical, aptamer-based (E-AB) sensors on a gold microelectrode platform. Specifically, we develop microscale sensors (25 μm diameter) for two representative small molecule targets–adenosine triphosphate and tobramycin. Furthermore, we report on the challenges encountered at this size scale including small-magnitude signals and interference from the irreversible reduction of dissolved oxygen and present methods to circumvent these challenges. Through the electrochemical deposition of dendritic gold nanostructures, we demonstrate microscale sensors with improved performance by increasing signal-to-noise and consequently sensitivity. Finally, we report on the use of the nonspecific adsorption of serum proteins as an additional layer of surface passivation for stable sensor performance. The sensor development here represents general guidelines for fabricating electrochemical, folding aptamer-based sensors on small-scale electrodes. PMID:25337781

  7. Achieving Zero Stress in Iridium, Chromium, and Nickle Thin Films

    NASA Technical Reports Server (NTRS)

    Broadway, David M.; Weimer, Jeffrey; Gurgew, Danielle; Lis, Tomasz; Ramsey, Brian D.; O'Dell, Stephen L.; Ames, A.; Bruni, R.

    2015-01-01

    We examine a method for achieving zero intrinsic stress in thin films of iridium, chromium, and nickel deposited by magnetron sputter deposition. The examination of the stress in these materials is motivated by efforts to advance the optical performance of light-weight x-ray space telescopes into the regime of sub-arc second resolution that rely on control of the film stress to values within 10-100 MPa. A characteristic feature of the intrinsic stress behavior in chromium and nickel is their sensitivity to the magnitude and sign of the intrinsic stress with argon gas pressure, including the existence of a critical pressure that results in zero film stress. This critical pressure scales linearly with the film's density. While the effect of stress reversal with argon pressure has been previously reported by Hoffman and others for nickel and chromium, we have discovered a similar behavior for iridium. Additionally, we have identified zero stress in iridium shortly after island coalescence. This feature of film growth is used for achieving a total internal stress of -2.89 MPa for a 15.8 nm thick iridium film. The surface roughness of this low-stress film was examined using scanning probe microscopy (SPM) and x-ray reflectivity (XRR) at CuKa and these results presented and discussed.

  8. High-quality reproducible PLD Y-Ba-Cu-O:Ag thin films up to 4 inch diameter for microwave applications

    NASA Astrophysics Data System (ADS)

    Lorenz, Michael; Hochmuth, Holger; Natusch, Dieter; Grundmann, Marius

    2002-08-01

    Large-area pulsed laser deposition (PLD) has reached a state in terms of film quality and reproducibility which makes possible now real applications of PLD-YBa 2Cu 3O 7- δ (YBCO) thin films on both sides of R-plane sapphire substrates as HTSC devices in mobile communication systems. Bandpass filters optimized from PLD-YBCO thin films presently fulfill the requirements of the main national companies which are active in future communication techniques. A relatively simple PLD arrangement with fixed laser plume and rotating substrate, with an offset between the laser plume and the center of the substrate is employed to deposit laterally homogeneous 4 inch diameter Ag-doped YBCO thin films. With the experience of more than 1000 double-sided 3 inch diameter films a high degree of homogeneity and reproducibility of jc and Rs is reached. The extension up to 8 inch substrate diameter will increase the productivity of the flexible PLD technique considerably.

  9. CT guidance is needed to achieve reproducible positioning of the mouse head for repeat precision cranial irradiation.

    PubMed

    Armour, M; Ford, E; Iordachita, I; Wong, J

    2010-01-01

    To study the effects of cranial irradiation, we have constructed an all-plastic mouse bed equipped with an immobilizing head holder. The bed integrates with our in-house Small Animal Radiation Research Platform (SARRP) for precision focal irradiation experiments and cone-beam CT. We assessed the reproducibility of our head holder to determine the need for CT-based targeting in cranial irradiation studies. To measure the holder's reproducibility, a C57BL/6 mouse was positioned and CT-scanned nine times. Image sets were loaded into the Pinnacle(3) radiation treatment planning system and were registered to one another by one investigator using rigid body alignment of the cranial regions. Rotational and translational offsets were measured. The average vector shift between scans was 0.80 +/- 0.49 mm. Such a shift is too large to selectively treat subregions of the mouse brain. In response, we use onboard imaging to guide cranial irradiation applications that require sub-millimeter precision.

  10. The rationale for patient-reported outcomes surveillance in cancer and a reproducible method for achieving it.

    PubMed

    Smith, Tenbroeck G; Castro, Kathleen M; Troeschel, Alyssa N; Arora, Neeraj K; Lipscomb, Joseph; Jones, Shelton M; Treiman, Katherine A; Hobbs, Connie; McCabe, Ryan M; Clauser, Steven B

    2016-02-01

    Patient-reported outcomes (PROs) measure quality of life, symptoms, patient functioning, and patient perceptions of care; they are essential for gaining a full understanding of cancer care and the impact of cancer on people's lives. Repeatedly captured facility-level and/or population-level PROs (PRO surveillance) could play an important role in quality monitoring and improvement, benchmarking, advocacy, policy making, and research. This article describes the rationale for PRO surveillance and the methods of the Patient Reported Outcomes Symptoms and Side Effects Study (PROSSES), which is the first PRO study to use the American College of Surgeons Commission on Cancer's Rapid Quality Reporting System to identify patients and manage study data flow. The American Cancer Society, the National Cancer Institute, the Commission on Cancer, and RTI International collaborated on PROSSES. PROSSES was conducted at 17 cancer programs that participated in the National Cancer Institute Community Cancer Centers Program among patients diagnosed with locoregional breast or colon cancer. The methods piloted in PROSSES were successful as demonstrated by high eligibility (93%) and response (61%) rates. Differences in clinical and demographic characteristics between respondents and nonrespondents were mostly negligible, with the exception that non-white individuals were somewhat less likely to respond. These methods were consistent across cancer centers and reproducible over time. If repeated and expanded, they could provide PRO surveillance data from patients with cancer on a national scale.

  11. Reproducibility blues.

    PubMed

    Pulverer, Bernd

    2015-11-12

    Research findings advance science only if they are significant, reliable and reproducible. Scientists and journals must publish robust data in a way that renders it optimally reproducible. Reproducibility has to be incentivized and supported by the research infrastructure but without dampening innovation. PMID:26538323

  12. Reproducibility blues.

    PubMed

    Pulverer, Bernd

    2015-11-12

    Research findings advance science only if they are significant, reliable and reproducible. Scientists and journals must publish robust data in a way that renders it optimally reproducible. Reproducibility has to be incentivized and supported by the research infrastructure but without dampening innovation.

  13. Reproducible Science▿

    PubMed Central

    Casadevall, Arturo; Fang, Ferric C.

    2010-01-01

    The reproducibility of an experimental result is a fundamental assumption in science. Yet, results that are merely confirmatory of previous findings are given low priority and can be difficult to publish. Furthermore, the complex and chaotic nature of biological systems imposes limitations on the replicability of scientific experiments. This essay explores the importance and limits of reproducibility in scientific manuscripts. PMID:20876290

  14. Headspace thin-film microextraction coupled with surface-enhanced Raman scattering as a facile method for reproducible and specific detection of sulfur dioxide in wine.

    PubMed

    Deng, Zhuo; Chen, Xuexu; Wang, Yiru; Fang, Enhua; Zhang, Zhigang; Chen, Xi

    2015-01-01

    By coupling thin-film microextraction (TFME) with surface-enhanced Raman scattering (SERS), a facile method was developed for the determination of sulfur dioxide (SO2), the most effective food additive in winemaking technology. The TFME substrate was made by free settling of sea urchin-like ZnO nanomaterials on a glass sheet. The headspace sampling (HS) procedure for SO2 was performed in a simple homemade device, and then the SO2 was determined using SERS after uniformly dropping or spraying a SERS-active substrate (gold nanoparticles, AuNPs) onto the surface of the TFME substrate. A reproducible and strong SERS response of the SO2 absorbed onto the ZnO substrate was obtained. After condition optimization, the SERS signal intensity at a shift of 600 cm(-1) and the SO2 concentration showed a good linearity in the range of 1-200 μg/mL, and the linear correlation coefficient was 0.992. The detection limit for SO2 was found to be 0.1 μg/mL. The HS-TFME-SERS method was applied for the determination of SO2 in wine, and the results obtained agreed very well with those obtained using the traditional distillation and titration method. Analysis of variance and Student t test show that there is no significant difference between the two methods, indicating that the newly developed method is fast, convenient, sensitive and has selective characteristics in the determination of SO2 in wine.

  15. Headspace thin-film microextraction coupled with surface-enhanced Raman scattering as a facile method for reproducible and specific detection of sulfur dioxide in wine.

    PubMed

    Deng, Zhuo; Chen, Xuexu; Wang, Yiru; Fang, Enhua; Zhang, Zhigang; Chen, Xi

    2015-01-01

    By coupling thin-film microextraction (TFME) with surface-enhanced Raman scattering (SERS), a facile method was developed for the determination of sulfur dioxide (SO2), the most effective food additive in winemaking technology. The TFME substrate was made by free settling of sea urchin-like ZnO nanomaterials on a glass sheet. The headspace sampling (HS) procedure for SO2 was performed in a simple homemade device, and then the SO2 was determined using SERS after uniformly dropping or spraying a SERS-active substrate (gold nanoparticles, AuNPs) onto the surface of the TFME substrate. A reproducible and strong SERS response of the SO2 absorbed onto the ZnO substrate was obtained. After condition optimization, the SERS signal intensity at a shift of 600 cm(-1) and the SO2 concentration showed a good linearity in the range of 1-200 μg/mL, and the linear correlation coefficient was 0.992. The detection limit for SO2 was found to be 0.1 μg/mL. The HS-TFME-SERS method was applied for the determination of SO2 in wine, and the results obtained agreed very well with those obtained using the traditional distillation and titration method. Analysis of variance and Student t test show that there is no significant difference between the two methods, indicating that the newly developed method is fast, convenient, sensitive and has selective characteristics in the determination of SO2 in wine. PMID:25415770

  16. Elusive reproducibility.

    PubMed

    Gori, Gio Batta

    2014-08-01

    Reproducibility remains a mirage for many biomedical studies because inherent experimental uncertainties generate idiosyncratic outcomes. The authentication and error rates of primary empirical data are often elusive, while multifactorial confounders beset experimental setups. Substantive methodological remedies are difficult to conceive, signifying that many biomedical studies yield more or less plausible results, depending on the attending uncertainties. Real life applications of those results remain problematic, with important exceptions for counterfactual field validations of strong experimental signals, notably for some vaccines and drugs, and for certain safety and occupational measures. It is argued that industrial, commercial and public policies and regulations could not ethically rely on unreliable biomedical results; rather, they should be rationally grounded on transparent cost-benefit tradeoffs. PMID:24882687

  17. Elusive reproducibility.

    PubMed

    Gori, Gio Batta

    2014-08-01

    Reproducibility remains a mirage for many biomedical studies because inherent experimental uncertainties generate idiosyncratic outcomes. The authentication and error rates of primary empirical data are often elusive, while multifactorial confounders beset experimental setups. Substantive methodological remedies are difficult to conceive, signifying that many biomedical studies yield more or less plausible results, depending on the attending uncertainties. Real life applications of those results remain problematic, with important exceptions for counterfactual field validations of strong experimental signals, notably for some vaccines and drugs, and for certain safety and occupational measures. It is argued that industrial, commercial and public policies and regulations could not ethically rely on unreliable biomedical results; rather, they should be rationally grounded on transparent cost-benefit tradeoffs.

  18. Techniques for Achieving Zero Stress in Thin Films of Iridium, Chromium, and Nickel

    NASA Technical Reports Server (NTRS)

    Broadway, David M.; O'Dell, Stephen L.; Ramsey, Brian D.; Weimer, Jeffrey

    2015-01-01

    We examine techniques for achieving zero intrinsic stress in thin films of iridium, chromium, and nickel deposited by magnetron sputter deposition. The intrinsic stress is further correlated to the microstructural features and physical properties such as surface roughness and optical density at a scale appropriate to soft X-ray wavelengths. The examination of the stress in these materials is motivated by efforts to advance the optical performance of light-weight X-ray space telescopes into the regime of sub-arcsecond resolution through various deposition techniques that rely on control of the film stress to values within 10-100 MPa. A characteristic feature of the intrinsic stress behavior in chromium and nickel is their sensitivity to the magnitude and sign of the intrinsic stress with argon gas pressure and deposition rate, including the existence of a critical argon process pressure that results in zero film stress which scales linearly with the atomic mass of the sputtered species. While the effect of stress reversal with argon pressure has been previously reported by Hoffman and others for nickel and chromium, we report this effect for iridium. In addition to stress reversal, we identify zero stress in the optical functioning iridium layer shortly after island coalescence for low process pressures at a film thickness of approximately 35nm. The measurement of the low values of stress during deposition was achieved with the aid of a sensitive in-situ instrument capable of a minimum detectable level of stress, assuming a 35nm thick film, in the range of 0.40-6.0 MPa for <111> oriented crystalline silicon substrate thicknesses of 70-280 microns, respectively.

  19. Glucose-assisted reduction achieved transparent p-type cuprous oxide thin film by a solution method

    NASA Astrophysics Data System (ADS)

    Nie, Sha; Sun, Jian; Gong, Hao; Chen, Zequn; Huang, Yifei; Xu, Jianmei; Zhao, Ling; Zhou, Wei; Wang, Qing

    2016-08-01

    The fabrication of p-type cuprous oxide thin film via a cheap and simple chemical method has been known as challenging. We first find that glucose can assist reduce Cu to a lower valence state in the preparation of cuprous oxide films by the sol-gel method. By first adding glucose in the sol as reducing agent, oxidation from the oxygen in the environment is limited and transparent p-type cuprous oxide films are eventually achieved under optimized experimental conditions. We have developed a p-type cuprous oxide thin film with an optimal Hall mobility of ∼8 cm2/Vs and an optical transmittance of 78%.

  20. High-Performance and Omnidirectional Thin-Film Amorphous Silicon Solar Cell Modules Achieved by 3D Geometry Design.

    PubMed

    Yu, Dongliang; Yin, Min; Lu, Linfeng; Zhang, Hanzhong; Chen, Xiaoyuan; Zhu, Xufei; Che, Jianfei; Li, Dongdong

    2015-11-01

    High-performance thin-film hydrogenated amorphous silicon solar cells are achieved by combining macroscale 3D tubular substrates and nanoscaled 3D cone-like antireflective films. The tubular geometry delivers a series of advantages for large-scale deployment of photovoltaics, such as omnidirectional performance, easier encapsulation, decreased wind resistance, and easy integration with a second device inside the glass tube. PMID:26418573

  1. Reproducible resistive switching in the super-thin Bi2FeCrO6 epitaxial film with SrRuO3 bottom electrode

    NASA Astrophysics Data System (ADS)

    Xu, Wenting; Sun, Jiao; Xu, Xijun; Yuan, Guoliang; Zhang, Yongjun; Liu, Junming; Liu, Zhiguo

    2016-10-01

    The reproducible and reliable resistive switching is observed in the ultrathin Bi2FeCrO6 (BFCO) epitaxial film on (001) SrTiO3 substrate with SrRuO3 as the bottom electrode. The as-grown BFCO film allows its ferroelectric polarization switching under external electric field. With a 100-nm-radius tip contacting film surface, a stable bipolar resistive switching was observed through the conductive atomic force microscope. Furthermore, the resistive switching at negative bias was observed and its high/low current ratio is above 15 among a thousand of current versus voltage curves measured by the scanning tunneling microscope with a non-contacting nm-scale tip. It is argued that this transport mechanism is due to quantum tunneling, and the resistive switching in these junctions is because of ferroelectric switching.

  2. Achieving selective interrogation and sub-wavelength resolution in thin plates with embedded metamaterial acoustic lenses

    SciTech Connect

    Semperlotti, F. Zhu, H.

    2014-08-07

    In this study, we present an approach to ultrasonic beam-forming and high resolution identification of acoustic sources having critical implications for applications such as structural health monitoring. The proposed concept is based on the design of dynamically tailored structural elements via embedded acoustic metamaterial lenses. This approach provides a completely new alternative to conventional phased-array technology enabling the formation of steerable and collimated (or focused) ultrasonic beams by exploiting a single transducer. Numerical results show that the ultrasonic beam can be steered by simply tuning the frequency of the excitation. Also, the embedded lens can be designed to achieve sub-wavelength resolution to clustered acoustic sources, which is a typical scenario encountered in incipient structural damage.

  3. Anion control as a strategy to achieve high-mobility and high-stability oxide thin-film transistors

    PubMed Central

    Kim, Hyun-Suk; Jeon, Sang Ho; Park, Joon Seok; Kim, Tae Sang; Son, Kyoung Seok; Seon, Jong-Baek; Seo, Seok-Jun; Kim, Sun-Jae; Lee, Eunha; Chung, Jae Gwan; Lee, Hyungik; Han, Seungwu; Ryu, Myungkwan; Lee, Sang Yoon; Kim, Kinam

    2013-01-01

    Ultra-definition, large-area displays with three-dimensional visual effects represent megatrend in the current/future display industry. On the hardware level, such a “dream” display requires faster pixel switching and higher driving current, which in turn necessitate thin-film transistors (TFTs) with high mobility. Amorphous oxide semiconductors (AOS) such as In-Ga-Zn-O are poised to enable such TFTs, but the trade-off between device performance and stability under illumination critically limits their usability, which is related to the hampered electron-hole recombination caused by the oxygen vacancies. Here we have improved the illumination stability by substituting oxygen with nitrogen in ZnO, which may deactivate oxygen vacancies by raising valence bands above the defect levels. Indeed, the stability under illumination and electrical bias is superior to that of previous AOS-based TFTs. By achieving both mobility and stability, it is highly expected that the present ZnON TFTs will be extensively deployed in next-generation flat-panel displays. PMID:23492854

  4. In Situ Tuning of Magnetization and Magnetoresistance in Fe3O4 Thin Film Achieved with All-Solid-State Redox Device.

    PubMed

    Tsuchiya, Takashi; Terabe, Kazuya; Ochi, Masanori; Higuchi, Tohru; Osada, Minoru; Yamashita, Yoshiyuki; Ueda, Shigenori; Aono, Masakazu

    2016-01-26

    An all-solid-state redox device composed of Fe3O4 thin film and Li(+) ion conducting solid electrolyte was fabricated for use in tuning magnetization and magnetoresistance (MR), which are key factors in the creation of high-density magnetic storage devices. Electrical conductivity, magnetization, and MR were reversibly tuned by Li(+) insertion and removal. Tuning of the various Fe3O4 thin film properties was achieved by donation of an electron to the Fe(3+) ions. This technique should lead to the development of spintronics devices based on the reversible switching of magnetization and spin polarization (P). It should also improve the performance of conventional magnetic random access memory (MRAM) devices in which the ON/OFF ratio has been limited to a small value due to a decrease in P near the tunnel barrier.

  5. Reproducible research in palaeomagnetism

    NASA Astrophysics Data System (ADS)

    Lurcock, Pontus; Florindo, Fabio

    2015-04-01

    The reproducibility of research findings is attracting increasing attention across all scientific disciplines. In palaeomagnetism as elsewhere, computer-based analysis techniques are becoming more commonplace, complex, and diverse. Analyses can often be difficult to reproduce from scratch, both for the original researchers and for others seeking to build on the work. We present a palaeomagnetic plotting and analysis program designed to make reproducibility easier. Part of the problem is the divide between interactive and scripted (batch) analysis programs. An interactive desktop program with a graphical interface is a powerful tool for exploring data and iteratively refining analyses, but usually cannot operate without human interaction. This makes it impossible to re-run an analysis automatically, or to integrate it into a larger automated scientific workflow - for example, a script to generate figures and tables for a paper. In some cases the parameters of the analysis process itself are not saved explicitly, making it hard to repeat or improve the analysis even with human interaction. Conversely, non-interactive batch tools can be controlled by pre-written scripts and configuration files, allowing an analysis to be 'replayed' automatically from the raw data. However, this advantage comes at the expense of exploratory capability: iteratively improving an analysis entails a time-consuming cycle of editing scripts, running them, and viewing the output. Batch tools also tend to require more computer expertise from their users. PuffinPlot is a palaeomagnetic plotting and analysis program which aims to bridge this gap. First released in 2012, it offers both an interactive, user-friendly desktop interface and a batch scripting interface, both making use of the same core library of palaeomagnetic functions. We present new improvements to the program that help to integrate the interactive and batch approaches, allowing an analysis to be interactively explored and refined

  6. Magnetogastrography (MGG) Reproducibility Assessments

    NASA Astrophysics Data System (ADS)

    de la Roca-Chiapas, J. M.; Córdova, T.; Hernández, E.; Solorio, S.; Solís Ortiz, S.; Sosa, M.

    2006-09-01

    Seven healthy subjects underwent a magnetic pulse of 32 mT for 17 ms, seven times in 90 minutes. The procedure was repeated one and two weeks later. Assessments of the gastric emptying were carried out for each one of the measurements and a statistical analysis of ANOVA was performed for every group of data. The gastric emptying time was 19.22 ± 5 min. Reproducibility estimation was above 85%. Therefore, magnetogastrography seems to be an excellent technique to be implemented in routine clinical trials.

  7. Opening Reproducible Research

    NASA Astrophysics Data System (ADS)

    Nüst, Daniel; Konkol, Markus; Pebesma, Edzer; Kray, Christian; Klötgen, Stephanie; Schutzeichel, Marc; Lorenz, Jörg; Przibytzin, Holger; Kussmann, Dirk

    2016-04-01

    Open access is not only a form of publishing such that research papers become available to the large public free of charge, it also refers to a trend in science that the act of doing research becomes more open and transparent. When science transforms to open access we not only mean access to papers, research data being collected, or data being generated, but also access to the data used and the procedures carried out in the research paper. Increasingly, scientific results are generated by numerical manipulation of data that were already collected, and may involve simulation experiments that are completely carried out computationally. Reproducibility of research findings, the ability to repeat experimental procedures and confirm previously found results, is at the heart of the scientific method (Pebesma, Nüst and Bivand, 2012). As opposed to the collection of experimental data in labs or nature, computational experiments lend themselves very well for reproduction. Some of the reasons why scientists do not publish data and computational procedures that allow reproduction will be hard to change, e.g. privacy concerns in the data, fear for embarrassment or of losing a competitive advantage. Others reasons however involve technical aspects, and include the lack of standard procedures to publish such information and the lack of benefits after publishing them. We aim to resolve these two technical aspects. We propose a system that supports the evolution of scientific publications from static papers into dynamic, executable research documents. The DFG-funded experimental project Opening Reproducible Research (ORR) aims for the main aspects of open access, by improving the exchange of, by facilitating productive access to, and by simplifying reuse of research results that are published over the Internet. Central to the project is a new form for creating and providing research results, the executable research compendium (ERC), which not only enables third parties to

  8. Surface characterization of an energetic material, pentaerythritoltetranitrate (PETN), having a thin coating achieved through a starved addition microencapsulation technique

    SciTech Connect

    Worley, C.M.

    1986-05-07

    The objective of this research was to: (1) determine the nature of a thin coating on an explosive material which was applied using a starved addition microencapsulation technique, (2) understand the coating/crystal bond, and (3) investigate the wettability/adhesion of plastic/solvent combinations using the coating process. The coating used in this work was a Firestone Plastic Company copolymer (FPC-461) of vinylchloride/trifluorochloroethylene in a 1.5/1.0 weight ratio. The energetic explosive examined was pentaerythritoltetranitrate (PETN). The coating process used was starved addition followed by a solvent evaporation technique. Surface analytical studies, completed for characterization of the coating process, show (1) evidence that the polymer coating is present, but not continuous, over the surface of PETN; (2) the average thickness of the polymer coating is between 16-32 A and greater than 44 A, respectively, for 0.5 and 20 wt % coated PETN; (3) no changes in surface chemistry of the polymer or the explosive material following microencapsulation; and (4) the presence of explosive material on the surface of 0.5 wt % FPC-461 coated explosives. 5 refs., 15 figs., 6 tabs.

  9. Reproducing in cities.

    PubMed

    Mace, Ruth

    2008-02-01

    Reproducing in cities has always been costly, leading to lower fertility (that is, lower birth rates) in urban than in rural areas. Historically, although cities provided job opportunities, initially residents incurred the penalty of higher infant mortality, but as mortality rates fell at the end of the 19th century, European birth rates began to plummet. Fertility decline in Africa only started recently and has been dramatic in some cities. Here it is argued that both historical and evolutionary demographers are interpreting fertility declines across the globe in terms of the relative costs of child rearing, which increase to allow children to outcompete their peers. Now largely free from the fear of early death, postindustrial societies may create an environment that generates runaway parental investment, which will continue to drive fertility ever lower.

  10. Thou Shalt Be Reproducible! A Technology Perspective

    PubMed Central

    Mair, Patrick

    2016-01-01

    This article elaborates on reproducibility in psychology from a technological viewpoint. Modern open source computational environments are shown and explained that foster reproducibility throughout the whole research life cycle, and to which emerging psychology researchers should be sensitized, are shown and explained. First, data archiving platforms that make datasets publicly available are presented. Second, R is advocated as the data-analytic lingua franca in psychology for achieving reproducible statistical analysis. Third, dynamic report generation environments for writing reproducible manuscripts that integrate text, data analysis, and statistical outputs such as figures and tables in a single document are described. Supplementary materials are provided in order to get the reader started with these technologies. PMID:27471486

  11. Thou Shalt Be Reproducible! A Technology Perspective.

    PubMed

    Mair, Patrick

    2016-01-01

    This article elaborates on reproducibility in psychology from a technological viewpoint. Modern open source computational environments are shown and explained that foster reproducibility throughout the whole research life cycle, and to which emerging psychology researchers should be sensitized, are shown and explained. First, data archiving platforms that make datasets publicly available are presented. Second, R is advocated as the data-analytic lingua franca in psychology for achieving reproducible statistical analysis. Third, dynamic report generation environments for writing reproducible manuscripts that integrate text, data analysis, and statistical outputs such as figures and tables in a single document are described. Supplementary materials are provided in order to get the reader started with these technologies. PMID:27471486

  12. Reproducible Experiment Platform

    NASA Astrophysics Data System (ADS)

    Likhomanenko, Tatiana; Rogozhnikov, Alex; Baranov, Alexander; Khairullin, Egor; Ustyuzhanin, Andrey

    2015-12-01

    Data analysis in fundamental sciences nowadays is an essential process that pushes frontiers of our knowledge and leads to new discoveries. At the same time we can see that complexity of those analyses increases fast due to a) enormous volumes of datasets being analyzed, b) variety of techniques and algorithms one have to check inside a single analysis, c) distributed nature of research teams that requires special communication media for knowledge and information exchange between individual researchers. There is a lot of resemblance between techniques and problems arising in the areas of industrial information retrieval and particle physics. To address those problems we propose Reproducible Experiment Platform (REP), a software infrastructure to support collaborative ecosystem for computational science. It is a Python based solution for research teams that allows running computational experiments on shared datasets, obtaining repeatable results, and consistent comparisons of the obtained results. We present some key features of REP based on case studies which include trigger optimization and physics analysis studies at the LHCb experiment.

  13. Reproducibility in a multiprocessor system

    DOEpatents

    Bellofatto, Ralph A; Chen, Dong; Coteus, Paul W; Eisley, Noel A; Gara, Alan; Gooding, Thomas M; Haring, Rudolf A; Heidelberger, Philip; Kopcsay, Gerard V; Liebsch, Thomas A; Ohmacht, Martin; Reed, Don D; Senger, Robert M; Steinmacher-Burow, Burkhard; Sugawara, Yutaka

    2013-11-26

    Fixing a problem is usually greatly aided if the problem is reproducible. To ensure reproducibility of a multiprocessor system, the following aspects are proposed; a deterministic system start state, a single system clock, phase alignment of clocks in the system, system-wide synchronization events, reproducible execution of system components, deterministic chip interfaces, zero-impact communication with the system, precise stop of the system and a scan of the system state.

  14. Reproducibility responsibilities in the HPC arena

    SciTech Connect

    Fahey, Mark R; McLay, Robert

    2014-01-01

    Expecting bit-for-bit reproducibility in the HPC arena is not feasible because of the ever changing hardware and software. No user s application is an island; it lives in an HPC eco-system that changes over time. Old hardware stops working and even old software won t run on new hardware. Further, software libraries change over time either by changing the internals or even interfaces. So bit-for-bit reproducibility should not be expected. Rather a reasonable expectation is that results are reproducible within error bounds; or that the answers are close (which is its own debate.) To expect a researcher to reproduce their own results or the results of others within some error bounds, there must be enough information to recreate all the details of the experiment. This requires complete documentation of all phases of the researcher s workflow; from code to versioning to programming and runtime environments to publishing of data. This argument is the core statement of the Yale 2009 Declaration on Reproducible Research [1]. Although the HPC ecosystem is often outside the researchers control, the application code could be built almost identically and there is a chance for very similar results with just only round-off error differences. To achieve complete documentation at every step, the researcher, the computing center, and the funding agencies all have a role. In this thesis, the role of the researcher is expanded upon as compared to the Yale report and the role of the computing centers is described.

  15. Open Science and Research Reproducibility

    PubMed Central

    Munafò, Marcus

    2016-01-01

    Many scientists, journals and funders are concerned about the low reproducibility of many scientific findings. One approach that may serve to improve the reliability and robustness of research is open science. Here I argue that the process of pre-registering study protocols, sharing study materials and data, and posting preprints of manuscripts may serve to improve quality control procedures at every stage of the research pipeline, and in turn improve the reproducibility of published work. PMID:27350794

  16. Towards Reproducibility in Computational Hydrology

    NASA Astrophysics Data System (ADS)

    Hutton, Christopher; Wagener, Thorsten; Freer, Jim; Han, Dawei

    2016-04-01

    The ability to reproduce published scientific findings is a foundational principle of scientific research. Independent observation helps to verify the legitimacy of individual findings; build upon sound observations so that we can evolve hypotheses (and models) of how catchments function; and move them from specific circumstances to more general theory. The rise of computational research has brought increased focus on the issue of reproducibility across the broader scientific literature. This is because publications based on computational research typically do not contain sufficient information to enable the results to be reproduced, and therefore verified. Given the rise of computational analysis in hydrology over the past 30 years, to what extent is reproducibility, or a lack thereof, a problem in hydrology? Whilst much hydrological code is accessible, the actual code and workflow that produced and therefore documents the provenance of published scientific findings, is rarely available. We argue that in order to advance and make more robust the process of hypothesis testing and knowledge creation within the computational hydrological community, we need to build on from existing open data initiatives and adopt common standards and infrastructures to: first make code re-useable and easy to find through consistent use of metadata; second, publish well documented workflows that combine re-useable code together with data to enable published scientific findings to be reproduced; finally, use unique persistent identifiers (e.g. DOIs) to reference re-useable and reproducible code, thereby clearly showing the provenance of published scientific findings. Whilst extra effort is require to make work reproducible, there are benefits to both the individual and the broader community in doing so, which will improve the credibility of the science in the face of the need for societies to adapt to changing hydrological environments.

  17. Latent fingermark pore area reproducibility.

    PubMed

    Gupta, A; Buckley, K; Sutton, R

    2008-08-01

    The study of the reproducibility of friction ridge pore detail in fingermarks is a measure of their usefulness in personal identification. Pore area in latent prints developed using cyanoacrylate and ninhydrin were examined and measured by photomicrography using appropriate software tools. The data were analysed statistically and the results showed that pore area is not reproducible in developed latent prints, using either of the development techniques. The results add further support to the lack of reliability of pore area in personal identification. PMID:18617339

  18. Rotary head type reproducing apparatus

    DOEpatents

    Takayama, Nobutoshi; Edakubo, Hiroo; Kozuki, Susumu; Takei, Masahiro; Nagasawa, Kenichi

    1986-01-01

    In an apparatus of the kind arranged to reproduce, with a plurality of rotary heads, an information signal from a record bearing medium having many recording tracks which are parallel to each other with the information signal recorded therein and with a plurality of different pilot signals of different frequencies also recorded one by one, one in each of the recording tracks, a plurality of different reference signals of different frequencies are simultaneously generated. A tracking error is detected by using the different reference signals together with the pilot signals which are included in signals reproduced from the plurality of rotary heads.

  19. Reproducible Bioinformatics Research for Biologists

    Technology Transfer Automated Retrieval System (TEKTRAN)

    This book chapter describes the current Big Data problem in Bioinformatics and the resulting issues with performing reproducible computational research. The core of the chapter provides guidelines and summaries of current tools/techniques that a noncomputational researcher would need to learn to pe...

  20. Reproducible Research in Computational Science

    PubMed Central

    Peng, Roger D.

    2012-01-01

    Computational science has led to exciting new developments, but the nature of the work has exposed limitations in our ability to evaluate published findings. Reproducibility has the potential to serve as a minimum standard for judging scientific claims when full independent replication of a study is not possible. PMID:22144613

  1. Reproducible research in computational science.

    PubMed

    Peng, Roger D

    2011-12-01

    Computational science has led to exciting new developments, but the nature of the work has exposed limitations in our ability to evaluate published findings. Reproducibility has the potential to serve as a minimum standard for judging scientific claims when full independent replication of a study is not possible.

  2. Performance reproducibility index for classification

    PubMed Central

    Yousefi, Mohammadmahdi R.; Dougherty, Edward R.

    2012-01-01

    Motivation: A common practice in biomarker discovery is to decide whether a large laboratory experiment should be carried out based on the results of a preliminary study on a small set of specimens. Consideration of the efficacy of this approach motivates the introduction of a probabilistic measure, for whether a classifier showing promising results in a small-sample preliminary study will perform similarly on a large independent sample. Given the error estimate from the preliminary study, if the probability of reproducible error is low, then there is really no purpose in substantially allocating more resources to a large follow-on study. Indeed, if the probability of the preliminary study providing likely reproducible results is small, then why even perform the preliminary study? Results: This article introduces a reproducibility index for classification, measuring the probability that a sufficiently small error estimate on a small sample will motivate a large follow-on study. We provide a simulation study based on synthetic distribution models that possess known intrinsic classification difficulties and emulate real-world scenarios. We also set up similar simulations on four real datasets to show the consistency of results. The reproducibility indices for different distributional models, real datasets and classification schemes are empirically calculated. The effects of reporting and multiple-rule biases on the reproducibility index are also analyzed. Availability: We have implemented in C code the synthetic data distribution model, classification rules, feature selection routine and error estimation methods. The source code is available at http://gsp.tamu.edu/Publications/supplementary/yousefi12a/. Supplementary simulation results are also included. Contact: edward@ece.tamu.edu Supplementary Information: Supplementary data are available at Bioinformatics online. PMID:22954625

  3. Reproducibility of NIF hohlraum measurements

    NASA Astrophysics Data System (ADS)

    Moody, J. D.; Ralph, J. E.; Turnbull, D. P.; Casey, D. T.; Albert, F.; Bachmann, B. L.; Doeppner, T.; Divol, L.; Grim, G. P.; Hoover, M.; Landen, O. L.; MacGowan, B. J.; Michel, P. A.; Moore, A. S.; Pino, J. E.; Schneider, M. B.; Tipton, R. E.; Smalyuk, V. A.; Strozzi, D. J.; Widmann, K.; Hohenberger, M.

    2015-11-01

    The strategy of experimentally ``tuning'' the implosion in a NIF hohlraum ignition target towards increasing hot-spot pressure, areal density of compressed fuel, and neutron yield relies on a level of experimental reproducibility. We examine the reproducibility of experimental measurements for a collection of 15 identical NIF hohlraum experiments. The measurements include incident laser power, backscattered optical power, x-ray measurements, hot-electron fraction and energy, and target characteristics. We use exact statistics to set 1-sigma confidence levels on the variations in each of the measurements. Of particular interest is the backscatter and laser-induced hot-spot locations on the hohlraum wall. Hohlraum implosion designs typically include variability specifications [S. W. Haan et al., Phys. Plasmas 18, 051001 (2011)]. We describe our findings and compare with the specifications. This work was performed under the auspices of the U.S. Department of Energy by University of California, Lawrence Livermore National Laboratory under Contract W-7405-Eng-48.

  4. Cloning to reproduce desired genotypes.

    PubMed

    Westhusin, M E; Long, C R; Shin, T; Hill, J R; Looney, C R; Pryor, J H; Piedrahita, J A

    2001-01-01

    Cloned sheep, cattle, goats, pigs and mice have now been produced using somatic cells for nuclear transplantation. Animal cloning is still very inefficient with on average less than 10% of the cloned embryos transferred resulting in a live offspring. However successful cloning of a variety of different species and by a number of different laboratory groups has generated tremendous interest in reproducing desired genotypes. Some of these specific genotypes represent animal cell lines that have been genetically modified. In other cases there is a significant demand for cloning animals characterized by their inherent genetic value, for example prize livestock, household pets and rare or endangered species. A number of different variables may influence the ability to reproduce a specific genotype by cloning. These include species, source of recipient ova, cell type of nuclei donor, treatment of donor cells prior to nuclear transfer, and the techniques employed for nuclear transfer. At present, there is no solid evidence that suggests cloning will be limited to only a few specific animals, and in fact, most data collected to date suggests cloning will be applicable to a wide variety of different animals. The ability to reproduce any desired genotype by cloning will ultimately depend on the amount of time and resources invested in research.

  5. Reproducibility of sterilized rubber impressions.

    PubMed

    Abdelaziz, Khalid M; Hassan, Ahmed M; Hodges, J S

    2004-01-01

    Impressions, dentures and other dental appliances may be contaminated with oral micro-flora or other organisms of varying pathogenicity from patient's saliva and blood. Several approaches have been tried to control the transmission of infectious organisms via dental impressions and because disinfection is less effective and has several drawbacks for impression characterization, several sterilization methods have been suggested. This study evaluated the reproducibility of rubber impressions after sterilization by different methods. Dimensional accuracy and wettability of two rubber impression materials (vinyl polysiloxane and polyether) were evaluated after sterilization by each of three well-known methods (immersion in 2% glutaraldehyde for 10 h, autoclaving and microwave radiation). Non-sterilized impressions served as control. The effect of the tray material on impression accuracy and the effect of topical surfactant on the wettability were also evaluated. One-way ANOVA with Dunnett's method was used for statistical analysis. All sterilizing methods reduced the reproducibility of rubber impressions, although not always significantly. Microwave sterilization had a small effect on both accuracy and wettability. The greater effects of the other methods could usually be overcome by using ceramic trays and by spraying impression surfaces with surfactant before pouring the gypsum mix. There was one exception: glutaraldehyde still degraded dimensional accuracy even with ceramic trays and surfactant. We conclude that a) sterilization of rubber impressions made on acrylic trays was usually associated with a degree of dimensional change; b) microwave energy seems to be a suitable technique for sterilizing rubber impressions; c) topical surfactant application helped restore wettability of sterilized impressions. PMID:15798825

  6. Evaluation of guidewire path reproducibility.

    PubMed

    Schafer, Sebastian; Hoffmann, Kenneth R; Noël, Peter B; Ionita, Ciprian N; Dmochowski, Jacek

    2008-05-01

    The number of minimally invasive vascular interventions is increasing. In these interventions, a variety of devices are directed to and placed at the site of intervention. The device used in almost all of these interventions is the guidewire, acting as a monorail for all devices which are delivered to the intervention site. However, even with the guidewire in place, clinicians still experience difficulties during the interventions. As a first step toward understanding these difficulties and facilitating guidewire and device guidance, we have investigated the reproducibility of the final paths of the guidewire in vessel phantom models on different factors: user, materials and geometry. Three vessel phantoms (vessel diameters approximately 4 mm) were constructed having tortuousity similar to the internal carotid artery from silicon tubing and encased in Sylgard elastomer. Several trained users repeatedly passed two guidewires of different flexibility through the phantoms under pulsatile flow conditions. After the guidewire had been placed, rotational c-arm image sequences were acquired (9 in. II mode, 0.185 mm pixel size), and the phantom and guidewire were reconstructed (512(3), 0.288 mm voxel size). The reconstructed volumes were aligned. The centerlines of the guidewire and the phantom vessel were then determined using region-growing techniques. Guidewire paths appear similar across users but not across materials. The average root mean square difference of the repeated placement was 0.17 +/- 0.02 mm (plastic-coated guidewire), 0.73 +/- 0.55 mm (steel guidewire) and 1.15 +/- 0.65 mm (steel versus plastic-coated). For a given guidewire, these results indicate that the guidewire path is relatively reproducible in shape and position.

  7. Pyrolyzed thin film carbon

    NASA Technical Reports Server (NTRS)

    Tai, Yu-Chong (Inventor); Liger, Matthieu (Inventor); Harder, Theodore (Inventor); Konishi, Satoshi (Inventor); Miserendino, Scott (Inventor)

    2010-01-01

    A method of making carbon thin films comprises depositing a catalyst on a substrate, depositing a hydrocarbon in contact with the catalyst and pyrolyzing the hydrocarbon. A method of controlling a carbon thin film density comprises etching a cavity into a substrate, depositing a hydrocarbon into the cavity, and pyrolyzing the hydrocarbon while in the cavity to form a carbon thin film. Controlling a carbon thin film density is achieved by changing the volume of the cavity. Methods of making carbon containing patterned structures are also provided. Carbon thin films and carbon containing patterned structures can be used in NEMS, MEMS, liquid chromatography, and sensor devices.

  8. The impact of time-varying phosphorus doping on ZnMgO thin films and achievement of dominant acceptor-bound-exciton peak

    NASA Astrophysics Data System (ADS)

    Saha, S.; Nagar, S.; Gupta, S. K.; Chakrabarti, S.

    2014-03-01

    ZnO is a highly efficient and promising semiconductor material because of its large bandgap (3.37 eV) and exciton binding energy (60 meV). MgO also has a very high bandgap (7.8 eV), and the incorporation of Mg into ZnO can result in an alloy with a bandgap of more than 4 eV . We used plasma immersion ion implantation to dope phosphorus into Zn0.85Mg0.15O for achieving p-type ZnMgO. RF sputtering was used to deposit ZnMgO on a Si substrate. Phosphorus doping was conducted from 10 s to 70 s. Rapid thermal annealing of the samples was performed to remove any implantation defects. A highly dominant acceptor-bound-exciton peak was observed at 3.36 eV by photoluminescence measurements, which continued to dominate from low temperature to room temperature. Donor-bound acceptor and free-electron acceptor peaks were also observed at 3.24 eV and 3.28 eV, respectively.

  9. Meteorite Atmospheric Entry Reproduced in Plasmatron

    NASA Astrophysics Data System (ADS)

    Pittarello, L.; McKibbin, S.; Goderis, S.; Soens, B.; Bariselli, F.; Barros Dias, B. R.; Zavalan, F. L.; Magin, T.; Claeys, Ph.

    2016-08-01

    Plasmatron facility allows experimental conditions that reproduce atmospheric entry of meteorites. Tests on basalt, as meteorite analogue, have been performed. Preliminary results have highlighted melting and evaporation effects.

  10. Quantifying reproducibility in computational biology: the case of the tuberculosis drugome.

    PubMed

    Garijo, Daniel; Kinnings, Sarah; Xie, Li; Xie, Lei; Zhang, Yinliang; Bourne, Philip E; Gil, Yolanda

    2013-01-01

    How easy is it to reproduce the results found in a typical computational biology paper? Either through experience or intuition the reader will already know that the answer is with difficulty or not at all. In this paper we attempt to quantify this difficulty by reproducing a previously published paper for different classes of users (ranging from users with little expertise to domain experts) and suggest ways in which the situation might be improved. Quantification is achieved by estimating the time required to reproduce each of the steps in the method described in the original paper and make them part of an explicit workflow that reproduces the original results. Reproducing the method took several months of effort, and required using new versions and new software that posed challenges to reconstructing and validating the results. The quantification leads to "reproducibility maps" that reveal that novice researchers would only be able to reproduce a few of the steps in the method, and that only expert researchers with advance knowledge of the domain would be able to reproduce the method in its entirety. The workflow itself is published as an online resource together with supporting software and data. The paper concludes with a brief discussion of the complexities of requiring reproducibility in terms of cost versus benefit, and a desiderata with our observations and guidelines for improving reproducibility. This has implications not only in reproducing the work of others from published papers, but reproducing work from one's own laboratory.

  11. Explorations in statistics: statistical facets of reproducibility.

    PubMed

    Curran-Everett, Douglas

    2016-06-01

    Learning about statistics is a lot like learning about science: the learning is more meaningful if you can actively explore. This eleventh installment of Explorations in Statistics explores statistical facets of reproducibility. If we obtain an experimental result that is scientifically meaningful and statistically unusual, we would like to know that our result reflects a general biological phenomenon that another researcher could reproduce if (s)he repeated our experiment. But more often than not, we may learn this researcher cannot replicate our result. The National Institutes of Health and the Federation of American Societies for Experimental Biology have created training modules and outlined strategies to help improve the reproducibility of research. These particular approaches are necessary, but they are not sufficient. The principles of hypothesis testing and estimation are inherent to the notion of reproducibility in science. If we want to improve the reproducibility of our research, then we need to rethink how we apply fundamental concepts of statistics to our science.

  12. Language-Agnostic Reproducible Data Analysis Using Literate Programming

    PubMed Central

    Vassilev, Boris; Louhimo, Riku; Ikonen, Elina; Hautaniemi, Sampsa

    2016-01-01

    A modern biomedical research project can easily contain hundreds of analysis steps and lack of reproducibility of the analyses has been recognized as a severe issue. While thorough documentation enables reproducibility, the number of analysis programs used can be so large that in reality reproducibility cannot be easily achieved. Literate programming is an approach to present computer programs to human readers. The code is rearranged to follow the logic of the program, and to explain that logic in a natural language. The code executed by the computer is extracted from the literate source code. As such, literate programming is an ideal formalism for systematizing analysis steps in biomedical research. We have developed the reproducible computing tool Lir (literate, reproducible computing) that allows a tool-agnostic approach to biomedical data analysis. We demonstrate the utility of Lir by applying it to a case study. Our aim was to investigate the role of endosomal trafficking regulators to the progression of breast cancer. In this analysis, a variety of tools were combined to interpret the available data: a relational database, standard command-line tools, and a statistical computing environment. The analysis revealed that the lipid transport related genes LAPTM4B and NDRG1 are coamplified in breast cancer patients, and identified genes potentially cooperating with LAPTM4B in breast cancer progression. Our case study demonstrates that with Lir, an array of tools can be combined in the same data analysis to improve efficiency, reproducibility, and ease of understanding. Lir is an open-source software available at github.com/borisvassilev/lir. PMID:27711123

  13. In Spite of Indeterminacy Many Common Factor Score Estimates Yield an Identical Reproduced Covariance Matrix

    ERIC Educational Resources Information Center

    Beauducel, Andre

    2007-01-01

    It was investigated whether commonly used factor score estimates lead to the same reproduced covariance matrix of observed variables. This was achieved by means of Schonemann and Steiger's (1976) regression component analysis, since it is possible to compute the reproduced covariance matrices of the regression components corresponding to different…

  14. Reproducible research in vadose zone sciences

    Technology Transfer Automated Retrieval System (TEKTRAN)

    A significant portion of present-day soil and Earth science research is computational, involving complex data analysis pipelines, advanced mathematical and statistical models, and sophisticated computer codes. Opportunities for scientific progress are greatly diminished if reproducing and building o...

  15. Reproducibility and uncertainty of wastewater turbidity measurements.

    PubMed

    Joannis, C; Ruban, G; Gromaire, M-C; Chebbo, G; Bertrand-Krajewski, J-L; Joannis, C; Ruban, G

    2008-01-01

    Turbidity monitoring is a valuable tool for operating sewer systems, but it is often considered as a somewhat tricky parameter for assessing water quality, because measured values depend on the model of sensor, and even on the operator. This paper details the main components of the uncertainty in turbidity measurements with a special focus on reproducibility, and provides guidelines for improving the reproducibility of measurements in wastewater relying on proper calibration procedures. Calibration appears to be the main source of uncertainties, and proper procedures must account for uncertainties in standard solutions as well as non linearity of the calibration curve. With such procedures, uncertainty and reproducibility of field measurement can be kept lower than 5% or 25 FAU. On the other hand, reproducibility has no meaning if different measuring principles (attenuation vs. nephelometry) or very different wavelengths are used.

  16. Planar heterojunction perovskite solar cells with superior reproducibility.

    PubMed

    Jeon, Ye-Jin; Lee, Sehyun; Kang, Rira; Kim, Jueng-Eun; Yeo, Jun-Seok; Lee, Seung-Hoon; Kim, Seok-Soon; Yun, Jin-Mun; Kim, Dong-Yu

    2014-01-01

    Perovskite solar cells (PeSCs) have been considered one of the competitive next generation power sources. To date, light-to-electric conversion efficiencies have rapidly increased to over 10%, and further improvements are expected. However, the poor device reproducibility of PeSCs ascribed to their inhomogeneously covered film morphology has hindered their practical application. Here, we demonstrate high-performance PeSCs with superior reproducibility by introducing small amounts of N-cyclohexyl-2-pyrrolidone (CHP) as a morphology controller into N,N-dimethylformamide (DMF). As a result, highly homogeneous film morphology, similar to that achieved by vacuum-deposition methods, as well as a high PCE of 10% and an extremely small performance deviation within 0.14% were achieved. This study represents a method for realizing efficient and reproducible planar heterojunction (PHJ) PeSCs through morphology control, taking a major step forward in the low-cost and rapid production of PeSCs by solving one of the biggest problems of PHJ perovskite photovoltaic technology through a facile method. PMID:25377945

  17. Planar heterojunction perovskite solar cells with superior reproducibility

    PubMed Central

    Jeon, Ye-Jin; Lee, Sehyun; Kang, Rira; Kim, Jueng-Eun; Yeo, Jun-Seok; Lee, Seung-Hoon; Kim, Seok-Soon; Yun, Jin-Mun; Kim, Dong-Yu

    2014-01-01

    Perovskite solar cells (PeSCs) have been considered one of the competitive next generation power sources. To date, light-to-electric conversion efficiencies have rapidly increased to over 10%, and further improvements are expected. However, the poor device reproducibility of PeSCs ascribed to their inhomogeneously covered film morphology has hindered their practical application. Here, we demonstrate high-performance PeSCs with superior reproducibility by introducing small amounts of N-cyclohexyl-2-pyrrolidone (CHP) as a morphology controller into N,N-dimethylformamide (DMF). As a result, highly homogeneous film morphology, similar to that achieved by vacuum-deposition methods, as well as a high PCE of 10% and an extremely small performance deviation within 0.14% were achieved. This study represents a method for realizing efficient and reproducible planar heterojunction (PHJ) PeSCs through morphology control, taking a major step forward in the low-cost and rapid production of PeSCs by solving one of the biggest problems of PHJ perovskite photovoltaic technology through a facile method. PMID:25377945

  18. Assessing the reproducibility of discriminant function analyses.

    PubMed

    Andrew, Rose L; Albert, Arianne Y K; Renaut, Sebastien; Rennison, Diana J; Bock, Dan G; Vines, Tim

    2015-01-01

    Data are the foundation of empirical research, yet all too often the datasets underlying published papers are unavailable, incorrect, or poorly curated. This is a serious issue, because future researchers are then unable to validate published results or reuse data to explore new ideas and hypotheses. Even if data files are securely stored and accessible, they must also be accompanied by accurate labels and identifiers. To assess how often problems with metadata or data curation affect the reproducibility of published results, we attempted to reproduce Discriminant Function Analyses (DFAs) from the field of organismal biology. DFA is a commonly used statistical analysis that has changed little since its inception almost eight decades ago, and therefore provides an opportunity to test reproducibility among datasets of varying ages. Out of 100 papers we initially surveyed, fourteen were excluded because they did not present the common types of quantitative result from their DFA or gave insufficient details of their DFA. Of the remaining 86 datasets, there were 15 cases for which we were unable to confidently relate the dataset we received to the one used in the published analysis. The reasons ranged from incomprehensible or absent variable labels, the DFA being performed on an unspecified subset of the data, or the dataset we received being incomplete. We focused on reproducing three common summary statistics from DFAs: the percent variance explained, the percentage correctly assigned and the largest discriminant function coefficient. The reproducibility of the first two was fairly high (20 of 26, and 44 of 60 datasets, respectively), whereas our success rate with the discriminant function coefficients was lower (15 of 26 datasets). When considering all three summary statistics, we were able to completely reproduce 46 (65%) of 71 datasets. While our results show that a majority of studies are reproducible, they highlight the fact that many studies still are not the

  19. Assessing the reproducibility of discriminant function analyses

    PubMed Central

    Andrew, Rose L.; Albert, Arianne Y.K.; Renaut, Sebastien; Rennison, Diana J.; Bock, Dan G.

    2015-01-01

    Data are the foundation of empirical research, yet all too often the datasets underlying published papers are unavailable, incorrect, or poorly curated. This is a serious issue, because future researchers are then unable to validate published results or reuse data to explore new ideas and hypotheses. Even if data files are securely stored and accessible, they must also be accompanied by accurate labels and identifiers. To assess how often problems with metadata or data curation affect the reproducibility of published results, we attempted to reproduce Discriminant Function Analyses (DFAs) from the field of organismal biology. DFA is a commonly used statistical analysis that has changed little since its inception almost eight decades ago, and therefore provides an opportunity to test reproducibility among datasets of varying ages. Out of 100 papers we initially surveyed, fourteen were excluded because they did not present the common types of quantitative result from their DFA or gave insufficient details of their DFA. Of the remaining 86 datasets, there were 15 cases for which we were unable to confidently relate the dataset we received to the one used in the published analysis. The reasons ranged from incomprehensible or absent variable labels, the DFA being performed on an unspecified subset of the data, or the dataset we received being incomplete. We focused on reproducing three common summary statistics from DFAs: the percent variance explained, the percentage correctly assigned and the largest discriminant function coefficient. The reproducibility of the first two was fairly high (20 of 26, and 44 of 60 datasets, respectively), whereas our success rate with the discriminant function coefficients was lower (15 of 26 datasets). When considering all three summary statistics, we were able to completely reproduce 46 (65%) of 71 datasets. While our results show that a majority of studies are reproducible, they highlight the fact that many studies still are not the

  20. Pressure Stabilizer for Reproducible Picoinjection in Droplet Microfluidic Systems

    PubMed Central

    Rhee, Minsoung; Light, Yooli K.; Yilmaz, Suzan; Adams, Paul D.; Saxena, Deepak

    2014-01-01

    Picoinjection is a promising technique to add reagents into pre-formed emulsion droplets on chip; however, it is sensitive to pressure fluctuation, making stable operation of the picoinjector challenging. We present a chip architecture using a simple pressure stabilizer for consistent and highly reproducible picoinjection in multi-step biochemical assays with droplets. Incorporation of the stabilizer immediately upstream of a picoinjector or a combination of injectors greatly reduces pressure fluctuations enabling reproducible and effective picoinjection in systems where the pressure varies actively during operation. We demonstrate the effectiveness of the pressure stabilizer for an integrated platform for on-demand encapsulation of bacterial cells followed by picoinjection of reagents for lysing the encapsulated cells. The pressure stabilizer was also used for picoinjection of multiple displacement amplification (MDA) reagents to achieve genomic DNA amplification of lysed bacterial cells. PMID:25270338

  1. Relevance relations for the concept of reproducibility

    PubMed Central

    Atmanspacher, H.; Bezzola Lambert, L.; Folkers, G.; Schubiger, P. A.

    2014-01-01

    The concept of reproducibility is widely considered a cornerstone of scientific methodology. However, recent problems with the reproducibility of empirical results in large-scale systems and in biomedical research have cast doubts on its universal and rigid applicability beyond the so-called basic sciences. Reproducibility is a particularly difficult issue in interdisciplinary work where the results to be reproduced typically refer to different levels of description of the system considered. In such cases, it is mandatory to distinguish between more and less relevant features, attributes or observables of the system, depending on the level at which they are described. For this reason, we propose a scheme for a general ‘relation of relevance’ between the level of complexity at which a system is considered and the granularity of its description. This relation implies relevance criteria for particular selected aspects of a system and its description, which can be operationally implemented by an interlevel relation called ‘contextual emergence’. It yields a formally sound and empirically applicable procedure to translate between descriptive levels and thus construct level-specific criteria for reproducibility in an overall consistent fashion. Relevance relations merged with contextual emergence challenge the old idea of one fundamental ontology from which everything else derives. At the same time, our proposal is specific enough to resist the backlash into a relativist patchwork of unconnected model fragments. PMID:24554574

  2. Reproducible measurements of MPI performance characteristics.

    SciTech Connect

    Gropp, W.; Lusk, E.

    1999-06-25

    In this paper we describe the difficulties inherent in making accurate, reproducible measurements of message-passing performance. We describe some of the mistakes often made in attempting such measurements and the consequences of such mistakes. We describe mpptest, a suite of performance measurement programs developed at Argonne National Laboratory, that attempts to avoid such mistakes and obtain reproducible measures of MPI performance that can be useful to both MPI implementers and MPI application writers. We include a number of illustrative examples of its use.

  3. The Economics of Reproducibility in Preclinical Research

    PubMed Central

    Freedman, Leonard P.; Cockburn, Iain M.; Simcoe, Timothy S.

    2015-01-01

    Low reproducibility rates within life science research undermine cumulative knowledge production and contribute to both delays and costs of therapeutic drug development. An analysis of past studies indicates that the cumulative (total) prevalence of irreproducible preclinical research exceeds 50%, resulting in approximately US$28,000,000,000 (US$28B)/year spent on preclinical research that is not reproducible—in the United States alone. We outline a framework for solutions and a plan for long-term improvements in reproducibility rates that will help to accelerate the discovery of life-saving therapies and cures. PMID:26057340

  4. Reproducibility, Controllability, and Optimization of Lenr Experiments

    NASA Astrophysics Data System (ADS)

    Nagel, David J.

    2006-02-01

    Low-energy nuclear reaction (LENR) measurements are significantly and increasingly reproducible. Practical control of the production of energy or materials by LENR has yet to be demonstrated. Minimization of costly inputs and maximization of desired outputs of LENR remain for future developments.

  5. Natural Disasters: Earth Science Readings. Reproducibles.

    ERIC Educational Resources Information Center

    Lobb, Nancy

    Natural Disasters is a reproducible teacher book that explains what scientists believe to be the causes of a variety of natural disasters and suggests steps that teachers and students can take to be better prepared in the event of a natural disaster. It contains both student and teacher sections. Teacher sections include vocabulary, an answer key,…

  6. Making Early Modern Medicine: Reproducing Swedish Bitters.

    PubMed

    Ahnfelt, Nils-Otto; Fors, Hjalmar

    2016-05-01

    Historians of science and medicine have rarely applied themselves to reproducing the experiments and practices of medicine and pharmacy. This paper delineates our efforts to reproduce "Swedish Bitters," an early modern composite medicine in wide European use from the 1730s to the present. In its original formulation, it was made from seven medicinal simples: aloe, rhubarb, saffron, myrrh, gentian, zedoary and agarikon. These were mixed in alcohol together with some theriac, a composite medicine of classical origin. The paper delineates the compositional history of Swedish Bitters and the medical rationale underlying its composition. It also describes how we go about to reproduce the medicine in a laboratory using early modern pharmaceutical methods, and analyse it using contemporary methods of pharmaceutical chemistry. Our aim is twofold: first, to show how reproducing medicines may provide a path towards a deeper understanding of the role of sensual and practical knowledge in the wider context of early modern medical culture; and second, how it may yield interesting results from the point of view of contemporary pharmaceutical science.

  7. Ultra-Thin, Flexible Electronics

    NASA Technical Reports Server (NTRS)

    Holland, Brian; McPherson, Ryan; Zhang, Tan; Hou, Zhenwei; Dean, Robert; Johnson, R. Wayne; DelCastillo, Linda; Moussessian, Alina

    2008-01-01

    Thinned die can be used to realize ultra-thin flexible electronics for applications such as conformal and wearable electronics. Three techniques have been developed to achieve this goal using thinned die: die flip chip bonded onto flexible substrates, die laminated onto LCP films, and die embedded in polyimide. A key to achieving each of these techniques is the thinning of die to a thickness of 50 microns or thinner. Conventional CMP processing can be used to thin to 50 microns. At 50 microns, the active die become flexible and must be handled by temporarily bonding them to a holder die, for further processing. Once bonded face down to the holder die, the active die can be further thinned by DRIE etching the exposed backside. The thinned die can then been packaged in or on the flexible substrate.

  8. ITK: enabling reproducible research and open science

    PubMed Central

    McCormick, Matthew; Liu, Xiaoxiao; Jomier, Julien; Marion, Charles; Ibanez, Luis

    2014-01-01

    Reproducibility verification is essential to the practice of the scientific method. Researchers report their findings, which are strengthened as other independent groups in the scientific community share similar outcomes. In the many scientific fields where software has become a fundamental tool for capturing and analyzing data, this requirement of reproducibility implies that reliable and comprehensive software platforms and tools should be made available to the scientific community. The tools will empower them and the public to verify, through practice, the reproducibility of observations that are reported in the scientific literature. Medical image analysis is one of the fields in which the use of computational resources, both software and hardware, are an essential platform for performing experimental work. In this arena, the introduction of the Insight Toolkit (ITK) in 1999 has transformed the field and facilitates its progress by accelerating the rate at which algorithmic implementations are developed, tested, disseminated and improved. By building on the efficiency and quality of open source methodologies, ITK has provided the medical image community with an effective platform on which to build a daily workflow that incorporates the true scientific practices of reproducibility verification. This article describes the multiple tools, methodologies, and practices that the ITK community has adopted, refined, and followed during the past decade, in order to become one of the research communities with the most modern reproducibility verification infrastructure. For example, 207 contributors have created over 2400 unit tests that provide over 84% code line test coverage. The Insight Journal, an open publication journal associated with the toolkit, has seen over 360,000 publication downloads. The median normalized closeness centrality, a measure of knowledge flow, resulting from the distributed peer code review system was high, 0.46. PMID:24600387

  9. ITK: enabling reproducible research and open science.

    PubMed

    McCormick, Matthew; Liu, Xiaoxiao; Jomier, Julien; Marion, Charles; Ibanez, Luis

    2014-01-01

    Reproducibility verification is essential to the practice of the scientific method. Researchers report their findings, which are strengthened as other independent groups in the scientific community share similar outcomes. In the many scientific fields where software has become a fundamental tool for capturing and analyzing data, this requirement of reproducibility implies that reliable and comprehensive software platforms and tools should be made available to the scientific community. The tools will empower them and the public to verify, through practice, the reproducibility of observations that are reported in the scientific literature. Medical image analysis is one of the fields in which the use of computational resources, both software and hardware, are an essential platform for performing experimental work. In this arena, the introduction of the Insight Toolkit (ITK) in 1999 has transformed the field and facilitates its progress by accelerating the rate at which algorithmic implementations are developed, tested, disseminated and improved. By building on the efficiency and quality of open source methodologies, ITK has provided the medical image community with an effective platform on which to build a daily workflow that incorporates the true scientific practices of reproducibility verification. This article describes the multiple tools, methodologies, and practices that the ITK community has adopted, refined, and followed during the past decade, in order to become one of the research communities with the most modern reproducibility verification infrastructure. For example, 207 contributors have created over 2400 unit tests that provide over 84% code line test coverage. The Insight Journal, an open publication journal associated with the toolkit, has seen over 360,000 publication downloads. The median normalized closeness centrality, a measure of knowledge flow, resulting from the distributed peer code review system was high, 0.46.

  10. Thin silicon solar cells

    NASA Astrophysics Data System (ADS)

    Hall, R. B.; Bacon, C.; Direda, V.; Ford, D. H.; Ingram, A. E.; Cotter, J.; Hughes-Lampros, T.; Rand, J. A.; Ruffins, T. R.; Barnett, A. M.

    1992-12-01

    The silicon-film design achieves high performance by using a dun silicon layer and incorporating light trapping. Optimally designed thin crystalline solar cells (less than 50 microns thick) have performance advantages over conventional thick devices. The high-performance silicon-film design employs a metallurgical barrier between the low-cost substrate and the thin silicon layer. Light trapping properties of silicon-film on ceramic solar cells are presented and analyzed. Recent advances in process development are described here.

  11. Thin silicon solar cells

    SciTech Connect

    Hall, R.B.; Bacon, C.; DiReda, V.; Ford, D.H.; Ingram, A.E.; Cotter, J.; Hughes-Lampros, T.; Rand, J.A.; Ruffins, T.R.; Barnett, A.M.

    1992-12-01

    The silicon-film design achieves high performance by using a dun silicon layer and incorporating light trapping. Optimally designed thin crystalline solar cells (<50 microns thick) have performance advantages over conventional thick devices. The high-performance silicon-film design employs a metallurgical barrier between the low-cost substrate and the thin silicon layer. Light trapping properties of silicon-film on ceramic solar cells are presented and analyzed. Recent advances in process development are described here.

  12. A Physical Activity Questionnaire: Reproducibility and Validity

    PubMed Central

    Barbosa, Nicolas; Sanchez, Carlos E.; Vera, Jose A.; Perez, Wilson; Thalabard, Jean-Christophe; Rieu, Michel

    2007-01-01

    This study evaluates the Quantification de L’Activite Physique en Altitude chez les Enfants (QAPACE) supervised self-administered questionnaire reproducibility and validity on the estimation of the mean daily energy expenditure (DEE) on Bogotá’s schoolchildren. The comprehension was assessed on 324 students, whereas the reproducibility was studied on a different random sample of 162 who were exposed twice to it. Reproducibility was assessed using both the Bland-Altman plot and the intra-class correlation coefficient (ICC). The validity was studied in a sample of 18 girls and 18 boys randomly selected, which completed the test - re-test study. The DEE derived from the questionnaire was compared with the laboratory measurement results of the peak oxygen uptake (Peak VO2) from ergo-spirometry and Leger Test. The reproducibility ICC was 0.96 (95% C.I. 0.95-0.97); by age categories 8-10, 0.94 (0.89-0. 97); 11-13, 0.98 (0.96- 0.99); 14-16, 0.95 (0.91-0.98). The ICC between mean TEE as estimated by the questionnaire and the direct and indirect Peak VO2 was 0.76 (0.66) (p<0.01); by age categories, 8-10, 11-13, and 14-16 were 0.89 (0.87), 0.76 (0.78) and 0.88 (0.80) respectively. The QAPACE questionnaire is reproducible and valid for estimating PA and showed a high correlation with the Peak VO2 uptake. Key pointsThe presence of a supervisor, the limited size of the group with the possibility of answering to their questions could explain the high reproducibility for this questionnaire.No study in the literature had directly addressed the issue of estimating a yearly average PA including school and vacation period.A two step procedure, in the population of schoolchildren of Bogotá, gives confidence in the use of the QAPACE questionnaire in a large epidemiological survey in related populations. PMID:24149485

  13. Reproducibility of electroretinograms recorded with DTL electrodes.

    PubMed

    Hébert, M; Lachapelle, P; Dumont, M

    The purpose of this study was to examine whether the use of the DTL fiber electrode yields stable and reproducible electroretinographic recordings. To do so, luminance response function, derived from dark-adapted electroretinograms, was obtained from both eyes of 10 normal subjects at two recording sessions spaced by 7-14 days. The data thus generated was used to calculate Naka-Rushton Vmax and k parameters and values obtained at the two recording sessions were compared. Our results showed that there was no significant difference in the values of Vmax and k calculated from the data generated at the two recording sessions. The above clearly demonstrate that the use of the DTL fiber electrode does not jeopardize, in any way, the stability and reproducibility of ERG responses.

  14. Multi-Parametric Neuroimaging Reproducibility: A 3T Resource Study

    PubMed Central

    Landman, Bennett A.; Huang, Alan J.; Gifford, Aliya; Vikram, Deepti S.; Lim, Issel Anne L.; Farrell, Jonathan A.D.; Bogovic, John A.; Hua, Jun; Chen, Min; Jarso, Samson; Smith, Seth A.; Joel, Suresh; Mori, Susumu; Pekar, James J.; Barker, Peter B.; Prince, Jerry L.; van Zijl, Peter C.M.

    2010-01-01

    Modern MRI image processing methods have yielded quantitative, morphometric, functional, and structural assessments of the human brain. These analyses typically exploit carefully optimized protocols for specific imaging targets. Algorithm investigators have several excellent public data resources to use to test, develop, and optimize their methods. Recently, there has been an increasing focus on combining MRI protocols in multi-parametric studies. Notably, these have included innovative approaches for fusing connectivity inferences with functional and/or anatomical characterizations. Yet, validation of the reproducibility of these interesting and novel methods has been severely hampered by the limited availability of appropriate multi-parametric data. We present an imaging protocol optimized to include state-of-the-art assessment of brain function, structure, micro-architecture, and quantitative parameters within a clinically feasible 60 minute protocol on a 3T MRI scanner. We present scan-rescan reproducibility of these imaging contrasts based on 21 healthy volunteers (11 M/10 F, 22–61 y/o). The cortical gray matter, cortical white matter, ventricular cerebrospinal fluid, thalamus, putamen, caudate, cerebellar gray matter, cerebellar white matter, and brainstem were identified with mean volume-wise reproducibility of 3.5%. We tabulate the mean intensity, variability and reproducibility of each contrast in a region of interest approach, which is essential for prospective study planning and retrospective power analysis considerations. Anatomy was highly consistent on structural acquisition (~1–5% variability), while variation on diffusion and several other quantitative scans was higher (~<10%). Some sequences are particularly variable in specific structures (ASL exhibited variation of 28% in the cerebral white matter) or in thin structures (quantitative T2 varied by up to 73% in the caudate) due, in large part, to variability in automated ROI placement. The

  15. Robust tissue classification for reproducible wound assessment in telemedicine environments

    NASA Astrophysics Data System (ADS)

    Wannous, Hazem; Treuillet, Sylvie; Lucas, Yves

    2010-04-01

    In telemedicine environments, a standardized and reproducible assessment of wounds, using a simple free-handled digital camera, is an essential requirement. However, to ensure robust tissue classification, particular attention must be paid to the complete design of the color processing chain. We introduce the key steps including color correction, merging of expert labeling, and segmentation-driven classification based on support vector machines. The tool thus developed ensures stability under lighting condition, viewpoint, and camera changes, to achieve accurate and robust classification of skin tissues. Clinical tests demonstrate that such an advanced tool, which forms part of a complete 3-D and color wound assessment system, significantly improves the monitoring of the healing process. It achieves an overlap score of 79.3 against 69.1% for a single expert, after mapping on the medical reference developed from the image labeling by a college of experts.

  16. Transparency and Reproducibility of Observational Cohort Studies Using Large Healthcare Databases.

    PubMed

    Wang, S V; Verpillat, P; Rassen, J A; Patrick, A; Garry, E M; Bartels, D B

    2016-03-01

    The scientific community and decision-makers are increasingly concerned about transparency and reproducibility of epidemiologic studies using longitudinal healthcare databases. We explored the extent to which published pharmacoepidemiologic studies using commercially available databases could be reproduced by other investigators. We identified a nonsystematic sample of 38 descriptive or comparative safety/effectiveness cohort studies. Seven studies were excluded from reproduction, five because of violation of fundamental design principles, and two because of grossly inadequate reporting. In the remaining studies, >1,000 patient characteristics and measures of association were reproduced with a high degree of accuracy (median differences between original and reproduction <2% and <0.1). An essential component of transparent and reproducible research with healthcare databases is more complete reporting of study implementation. Once reproducibility is achieved, the conversation can be elevated to assess whether suboptimal design choices led to avoidable bias and whether findings are replicable in other data sources. PMID:26690726

  17. Transparency and Reproducibility of Observational Cohort Studies Using Large Healthcare Databases.

    PubMed

    Wang, S V; Verpillat, P; Rassen, J A; Patrick, A; Garry, E M; Bartels, D B

    2016-03-01

    The scientific community and decision-makers are increasingly concerned about transparency and reproducibility of epidemiologic studies using longitudinal healthcare databases. We explored the extent to which published pharmacoepidemiologic studies using commercially available databases could be reproduced by other investigators. We identified a nonsystematic sample of 38 descriptive or comparative safety/effectiveness cohort studies. Seven studies were excluded from reproduction, five because of violation of fundamental design principles, and two because of grossly inadequate reporting. In the remaining studies, >1,000 patient characteristics and measures of association were reproduced with a high degree of accuracy (median differences between original and reproduction <2% and <0.1). An essential component of transparent and reproducible research with healthcare databases is more complete reporting of study implementation. Once reproducibility is achieved, the conversation can be elevated to assess whether suboptimal design choices led to avoidable bias and whether findings are replicable in other data sources.

  18. Reproducing Actual Morphology of Planetary Lava Flows

    NASA Astrophysics Data System (ADS)

    Miyamoto, H.; Sasaki, S.

    1996-03-01

    Assuming that lava flows behave as non-isothermal laminar Bingham fluids, we developed a numerical code of lava flows. We take the self gravity effects and cooling mechanisms into account. The calculation method is a kind of cellular automata using a reduced random space method, which can eliminate the mesh shape dependence. We can calculate large scale lava flows precisely without numerical instability and reproduce morphology of actual lava flows.

  19. Reproducibility of liquid oxygen impact test results

    NASA Technical Reports Server (NTRS)

    Gayle, J. B.

    1975-01-01

    Results for 12,000 impacts on a wide range of materials were studied to determine the reproducibility of the liquid oxygen impact test method. Standard deviations representing the overall variability of results were in close agreement with the expected values for a binomial process. This indicates that the major source of variability is due to the go - no go nature of the test method and that variations due to sampling and testing operations were not significant.

  20. Data Identifiers and Citations Enable Reproducible Science

    NASA Astrophysics Data System (ADS)

    Tilmes, C.

    2011-12-01

    Modern science often involves data processing with tremendous volumes of data. Keeping track of that data has been a growing challenge for data center. Researchers who access and use that data don't always reference and cite their data sources adequately for consumers of their research to follow their methodology or reproduce their analyses or experiments. Recent research has led to recommendations for good identifiers and citations that can help address this problem. This paper will describe some of the best practices in data identifiers, reference and citation. Using a simplified example scenario based on a long term remote sensing satellite mission, it will explore issues in identifying dynamic data sets and the importance of good data citations for reproducibility. It will describe the difference between granule and collection level identifiers, using UUIDs and DOIs to illustrate some recommendations for developing identifiers and assigning them during data processing. As data processors create data products, the provenance of the input products and precise steps that led to their creation are recorded and published for users of the data to see. As researchers access the data from an archive, they can use the provenance to help understand the genesis of the data, which could have effects on their usage of the data. By citing the data on publishing their research, others can retrieve the precise data used in their research and reproduce the analyses and experiments to confirm the results. Describing the experiment to a sufficient extent to reproduce the research enforces a formal approach that lends credibility to the results, and ultimately, to the policies of decision makers depending on that research.

  1. A Framework for Reproducible Latent Fingerprint Enhancements

    PubMed Central

    Carasso, Alfred S.

    2014-01-01

    Photoshop processing1 of latent fingerprints is the preferred methodology among law enforcement forensic experts, but that appproach is not fully reproducible and may lead to questionable enhancements. Alternative, independent, fully reproducible enhancements, using IDL Histogram Equalization and IDL Adaptive Histogram Equalization, can produce better-defined ridge structures, along with considerable background information. Applying a systematic slow motion smoothing procedure to such IDL enhancements, based on the rapid FFT solution of a Lévy stable fractional diffusion equation, can attenuate background detail while preserving ridge information. The resulting smoothed latent print enhancements are comparable to, but distinct from, forensic Photoshop images suitable for input into automated fingerprint identification systems, (AFIS). In addition, this progressive smoothing procedure can be reexamined by displaying the suite of progressively smoother IDL images. That suite can be stored, providing an audit trail that allows monitoring for possible loss of useful information, in transit to the user-selected optimal image. Such independent and fully reproducible enhancements provide a valuable frame of reference that may be helpful in informing, complementing, and possibly validating the forensic Photoshop methodology. PMID:26601028

  2. A Framework for Reproducible Latent Fingerprint Enhancements.

    PubMed

    Carasso, Alfred S

    2014-01-01

    Photoshop processing of latent fingerprints is the preferred methodology among law enforcement forensic experts, but that appproach is not fully reproducible and may lead to questionable enhancements. Alternative, independent, fully reproducible enhancements, using IDL Histogram Equalization and IDL Adaptive Histogram Equalization, can produce better-defined ridge structures, along with considerable background information. Applying a systematic slow motion smoothing procedure to such IDL enhancements, based on the rapid FFT solution of a Lévy stable fractional diffusion equation, can attenuate background detail while preserving ridge information. The resulting smoothed latent print enhancements are comparable to, but distinct from, forensic Photoshop images suitable for input into automated fingerprint identification systems, (AFIS). In addition, this progressive smoothing procedure can be reexamined by displaying the suite of progressively smoother IDL images. That suite can be stored, providing an audit trail that allows monitoring for possible loss of useful information, in transit to the user-selected optimal image. Such independent and fully reproducible enhancements provide a valuable frame of reference that may be helpful in informing, complementing, and possibly validating the forensic Photoshop methodology.

  3. Tools and techniques for computational reproducibility.

    PubMed

    Piccolo, Stephen R; Frampton, Michael B

    2016-01-01

    When reporting research findings, scientists document the steps they followed so that others can verify and build upon the research. When those steps have been described in sufficient detail that others can retrace the steps and obtain similar results, the research is said to be reproducible. Computers play a vital role in many research disciplines and present both opportunities and challenges for reproducibility. Computers can be programmed to execute analysis tasks, and those programs can be repeated and shared with others. The deterministic nature of most computer programs means that the same analysis tasks, applied to the same data, will often produce the same outputs. However, in practice, computational findings often cannot be reproduced because of complexities in how software is packaged, installed, and executed-and because of limitations associated with how scientists document analysis steps. Many tools and techniques are available to help overcome these challenges; here we describe seven such strategies. With a broad scientific audience in mind, we describe the strengths and limitations of each approach, as well as the circumstances under which each might be applied. No single strategy is sufficient for every scenario; thus we emphasize that it is often useful to combine approaches. PMID:27401684

  4. Tools and techniques for computational reproducibility.

    PubMed

    Piccolo, Stephen R; Frampton, Michael B

    2016-07-11

    When reporting research findings, scientists document the steps they followed so that others can verify and build upon the research. When those steps have been described in sufficient detail that others can retrace the steps and obtain similar results, the research is said to be reproducible. Computers play a vital role in many research disciplines and present both opportunities and challenges for reproducibility. Computers can be programmed to execute analysis tasks, and those programs can be repeated and shared with others. The deterministic nature of most computer programs means that the same analysis tasks, applied to the same data, will often produce the same outputs. However, in practice, computational findings often cannot be reproduced because of complexities in how software is packaged, installed, and executed-and because of limitations associated with how scientists document analysis steps. Many tools and techniques are available to help overcome these challenges; here we describe seven such strategies. With a broad scientific audience in mind, we describe the strengths and limitations of each approach, as well as the circumstances under which each might be applied. No single strategy is sufficient for every scenario; thus we emphasize that it is often useful to combine approaches.

  5. A Framework for Reproducible Latent Fingerprint Enhancements.

    PubMed

    Carasso, Alfred S

    2014-01-01

    Photoshop processing of latent fingerprints is the preferred methodology among law enforcement forensic experts, but that appproach is not fully reproducible and may lead to questionable enhancements. Alternative, independent, fully reproducible enhancements, using IDL Histogram Equalization and IDL Adaptive Histogram Equalization, can produce better-defined ridge structures, along with considerable background information. Applying a systematic slow motion smoothing procedure to such IDL enhancements, based on the rapid FFT solution of a Lévy stable fractional diffusion equation, can attenuate background detail while preserving ridge information. The resulting smoothed latent print enhancements are comparable to, but distinct from, forensic Photoshop images suitable for input into automated fingerprint identification systems, (AFIS). In addition, this progressive smoothing procedure can be reexamined by displaying the suite of progressively smoother IDL images. That suite can be stored, providing an audit trail that allows monitoring for possible loss of useful information, in transit to the user-selected optimal image. Such independent and fully reproducible enhancements provide a valuable frame of reference that may be helpful in informing, complementing, and possibly validating the forensic Photoshop methodology. PMID:26601028

  6. Thin Clouds

    Atmospheric Science Data Center

    2013-04-18

    ... their delicate appearance, thin, feathery clouds of ice crystals called cirrus may contribute to global warming. Some scientists ... July 9, 2002 - Thin, feathery clouds of ice crystals over the Caribbean Sea. project:  MISR ...

  7. Towards reproducible, scalable lateral molecular electronic devices

    SciTech Connect

    Durkan, Colm Zhang, Qian

    2014-08-25

    An approach to reproducibly fabricate molecular electronic devices is presented. Lateral nanometer-scale gaps with high yield are formed in Au/Pd nanowires by a combination of electromigration and Joule-heating-induced thermomechanical stress. The resulting nanogap devices are used to measure the electrical properties of small numbers of two different molecular species with different end-groups, namely 1,4-butane dithiol and 1,5-diamino-2-methylpentane. Fluctuations in the current reveal that in the case of the dithiol molecule devices, individual molecules conduct intermittently, with the fluctuations becoming more pronounced at larger biases.

  8. Nonlinear sequential laminates reproducing hollow sphere assemblages

    NASA Astrophysics Data System (ADS)

    Idiart, Martín I.

    2007-07-01

    A special class of nonlinear porous materials with isotropic 'sequentially laminated' microstructures is found to reproduce exactly the hydrostatic behavior of 'hollow sphere assemblages'. It is then argued that this result supports the conjecture that Gurson's approximate criterion for plastic porous materials, and its viscoplastic extension of Leblond et al. (1994), may actually yield rigorous upper bounds for the hydrostatic flow stress of porous materials containing an isotropic, but otherwise arbitrary, distribution of porosity. To cite this article: M.I. Idiart, C. R. Mecanique 335 (2007).

  9. Open and reproducible global land use classification

    NASA Astrophysics Data System (ADS)

    Nüst, Daniel; Václavík, Tomáš; Pross, Benjamin

    2015-04-01

    Researchers led by the Helmholtz Centre for Environmental research (UFZ) developed a new world map of land use systems based on over 30 diverse indicators (http://geoportal.glues.geo.tu-dresden.de/stories/landsystemarchetypes.html) of land use intensity, climate and environmental and socioeconomic factors. They identified twelve land system archetypes (LSA) using a data-driven classification algorithm (self-organizing maps) to assess global impacts of land use on the environment, and found unexpected similarities across global regions. We present how the algorithm behind this analysis can be published as an executable web process using 52°North WPS4R (https://wiki.52north.org/bin/view/Geostatistics/WPS4R) within the GLUES project (http://modul-a.nachhaltiges-landmanagement.de/en/scientific-coordination-glues/). WPS4R is an open source collaboration platform for researchers, analysts and software developers to publish R scripts (http://www.r-project.org/) as a geo-enabled OGC Web Processing Service (WPS) process. The interoperable interface to call the geoprocess allows both reproducibility of the analysis and integration of user data without knowledge about web services or classification algorithms. The open platform allows everybody to replicate the analysis in their own environments. The LSA WPS process has several input parameters, which can be changed via a simple web interface. The input parameters are used to configure both the WPS environment and the LSA algorithm itself. The encapsulation as a web process allows integration of non-public datasets, while at the same time the publication requires a well-defined documentation of the analysis. We demonstrate this platform specifically to domain scientists and show how reproducibility and open source publication of analyses can be enhanced. We also discuss future extensions of the reproducible land use classification, such as the possibility for users to enter their own areas of interest to the system and

  10. Queer nuclear families? Reproducing and transgressing heteronormativity.

    PubMed

    Folgerø, Tor

    2008-01-01

    During the past decade the public debate on gay and lesbian adoptive rights has been extensive in the Norwegian media. The debate illustrates how women and men planning to raise children in homosexual family constellations challenge prevailing cultural norms and existing concepts of kinship and family. The article discusses how lesbian mothers and gay fathers understand and redefine their own family practices. An essential point in this article is the fundamental ambiguity in these families' accounts of themselves-how they simultaneously transgress and reproduce heteronormative assumptions about childhood, fatherhood, motherhood, family and kinship.

  11. Cosputtered composition-spread reproducibility established by high-throughput x-ray fluorescence

    SciTech Connect

    Gregoire, John M.; Dale, Darren; Kazimirov, Alexander; DiSalvo, Francis J.; Dover, R. Bruce van

    2010-09-15

    We describe the characterization of sputtered yttria-zirconia composition spread thin films by x-ray fluorescence (XRF). We also discuss our automated analysis of the XRF data, which was collected in a high throughput experiment at the Cornell High Energy Synchrotron Source. The results indicate that both the composition reproducibility of the library deposition and the composition measurements have a precision of better than 1 atomic percent.

  12. Response to Comment on "Estimating the reproducibility of psychological science".

    PubMed

    Anderson, Christopher J; Bahník, Štěpán; Barnett-Cowan, Michael; Bosco, Frank A; Chandler, Jesse; Chartier, Christopher R; Cheung, Felix; Christopherson, Cody D; Cordes, Andreas; Cremata, Edward J; Della Penna, Nicolas; Estel, Vivien; Fedor, Anna; Fitneva, Stanka A; Frank, Michael C; Grange, James A; Hartshorne, Joshua K; Hasselman, Fred; Henninger, Felix; van der Hulst, Marije; Jonas, Kai J; Lai, Calvin K; Levitan, Carmel A; Miller, Jeremy K; Moore, Katherine S; Meixner, Johannes M; Munafò, Marcus R; Neijenhuijs, Koen I; Nilsonne, Gustav; Nosek, Brian A; Plessow, Franziska; Prenoveau, Jason M; Ricker, Ashley A; Schmidt, Kathleen; Spies, Jeffrey R; Stieger, Stefan; Strohminger, Nina; Sullivan, Gavin B; van Aert, Robbie C M; van Assen, Marcel A L M; Vanpaemel, Wolf; Vianello, Michelangelo; Voracek, Martin; Zuni, Kellylynn

    2016-03-01

    Gilbert et al. conclude that evidence from the Open Science Collaboration's Reproducibility Project: Psychology indicates high reproducibility, given the study methodology. Their very optimistic assessment is limited by statistical misconceptions and by causal inferences from selectively interpreted, correlational data. Using the Reproducibility Project: Psychology data, both optimistic and pessimistic conclusions about reproducibility are possible, and neither are yet warranted.

  13. Response to Comment on "Estimating the reproducibility of psychological science".

    PubMed

    Anderson, Christopher J; Bahník, Štěpán; Barnett-Cowan, Michael; Bosco, Frank A; Chandler, Jesse; Chartier, Christopher R; Cheung, Felix; Christopherson, Cody D; Cordes, Andreas; Cremata, Edward J; Della Penna, Nicolas; Estel, Vivien; Fedor, Anna; Fitneva, Stanka A; Frank, Michael C; Grange, James A; Hartshorne, Joshua K; Hasselman, Fred; Henninger, Felix; van der Hulst, Marije; Jonas, Kai J; Lai, Calvin K; Levitan, Carmel A; Miller, Jeremy K; Moore, Katherine S; Meixner, Johannes M; Munafò, Marcus R; Neijenhuijs, Koen I; Nilsonne, Gustav; Nosek, Brian A; Plessow, Franziska; Prenoveau, Jason M; Ricker, Ashley A; Schmidt, Kathleen; Spies, Jeffrey R; Stieger, Stefan; Strohminger, Nina; Sullivan, Gavin B; van Aert, Robbie C M; van Assen, Marcel A L M; Vanpaemel, Wolf; Vianello, Michelangelo; Voracek, Martin; Zuni, Kellylynn

    2016-03-01

    Gilbert et al. conclude that evidence from the Open Science Collaboration's Reproducibility Project: Psychology indicates high reproducibility, given the study methodology. Their very optimistic assessment is limited by statistical misconceptions and by causal inferences from selectively interpreted, correlational data. Using the Reproducibility Project: Psychology data, both optimistic and pessimistic conclusions about reproducibility are possible, and neither are yet warranted. PMID:26941312

  14. Reproducibility Data on SUMMiT

    SciTech Connect

    Irwin, Lloyd; Jakubczak, Jay; Limary, Siv; McBrayer, John; Montague, Stephen; Smith, James; Sniegowski, Jeffry; Stewart, Harold; de Boer, Maarten

    1999-07-16

    SUMMiT (Sandia Ultra-planar Multi-level MEMS Technology) at the Sandia National Laboratories' MDL (Microelectronics Development Laboratory) is a standardized MEMS (Microelectromechanical Systems) technology that allows designers to fabricate concept prototypes. This technology provides four polysilicon layers plus three sacrificial oxide layers (with the third oxide layer being planarized) to enable fabrication of complex mechanical systems-on-a-chip. Quantified reproducibility of the SUMMiT process is important for process engineers as well as designers. Summary statistics for critical MEMS technology parameters such as film thickness, line width, and sheet resistance will be reported for the SUMMiT process. Additionally, data from Van der Pauw test structures will be presented. Data on film thickness, film uniformity and critical dimensions of etched line widths are collected from both process and monitor wafers during manufacturing using film thickness metrology tools and SEM tools. A standardized diagnostic module is included in each SWiT run to obtain post-processing parametric data to monitor run-to-run reproducibility such as Van der Pauw structures for measuring sheet resistance. This characterization of the SUMMiT process enables design for manufacturability in the SUMMiT technology.

  15. Reproducibility of airway wall thickness measurements

    NASA Astrophysics Data System (ADS)

    Schmidt, Michael; Kuhnigk, Jan-Martin; Krass, Stefan; Owsijewitsch, Michael; de Hoop, Bartjan; Peitgen, Heinz-Otto

    2010-03-01

    Airway remodeling and accompanying changes in wall thickness are known to be a major symptom of chronic obstructive pulmonary disease (COPD), associated with reduced lung function in diseased individuals. Further investigation of this disease as well as monitoring of disease progression and treatment effect demand for accurate and reproducible assessment of airway wall thickness in CT datasets. With wall thicknesses in the sub-millimeter range, this task remains challenging even with today's high resolution CT datasets. To provide accurate measurements, taking partial volume effects into account is mandatory. The Full-Width-at-Half-Maximum (FWHM) method has been shown to be inappropriate for small airways1,2 and several improved algorithms for objective quantification of airway wall thickness have been proposed.1-8 In this paper, we describe an algorithm based on a closed form solution proposed by Weinheimer et al.7 We locally estimate the lung density parameter required for the closed form solution to account for possible variations of parenchyma density between different lung regions, inspiration states and contrast agent concentrations. The general accuracy of the algorithm is evaluated using basic tubular software and hardware phantoms. Furthermore, we present results on the reproducibility of the algorithm with respect to clinical CT scans, varying reconstruction kernels, and repeated acquisitions, which is crucial for longitudinal observations.

  16. Reproducibility and Transparency in Ocean-Climate Modeling

    NASA Astrophysics Data System (ADS)

    Hannah, N.; Adcroft, A.; Hallberg, R.; Griffies, S. M.

    2015-12-01

    Reproducibility is a cornerstone of the scientific method. Within geophysical modeling and simulation achieving reproducibility can be difficult, especially given the complexity of numerical codes, enormous and disparate data sets, and variety of supercomputing technology. We have made progress on this problem in the context of a large project - the development of new ocean and sea ice models, MOM6 and SIS2. Here we present useful techniques and experience.We use version control not only for code but the entire experiment working directory, including configuration (run-time parameters, component versions), input data and checksums on experiment output. This allows us to document when the solutions to experiments change, whether due to code updates or changes in input data. To avoid distributing large input datasets we provide the tools for generating these from the sources, rather than provide raw input data.Bugs can be a source of non-determinism and hence irreproducibility, e.g. reading from or branching on uninitialized memory. To expose these we routinely run system tests, using a memory debugger, multiple compilers and different machines. Additional confidence in the code comes from specialised tests, for example automated dimensional analysis and domain transformations. This has entailed adopting a code style where we deliberately restrict what a compiler can do when re-arranging mathematical expressions.In the spirit of open science, all development is in the public domain. This leads to a positive feedback, where increased transparency and reproducibility makes using the model easier for external collaborators, who in turn provide valuable contributions. To facilitate users installing and running the model we provide (version controlled) digital notebooks that illustrate and record analysis of output. This has the dual role of providing a gross, platform-independent, testing capability and a means to documents model output and analysis.

  17. Paleomagnetic analysis of curved thrust belts reproduced by physical models

    NASA Astrophysics Data System (ADS)

    Costa, Elisabetta; Speranza, Fabio

    2003-12-01

    This paper presents a new methodology for studying the evolution of curved mountain belts by means of paleomagnetic analyses performed on analogue models. Eleven models were designed aimed at reproducing various tectonic settings in thin-skinned tectonics. Our models analyze in particular those features reported in the literature as possible causes for peculiar rotational patterns in the outermost as well as in the more internal fronts. In all the models the sedimentary cover was reproduced by frictional low-cohesion materials (sand and glass micro-beads), which detached either on frictional or on viscous layers. These latter were reproduced in the models by silicone. The sand forming the models has been previously mixed with magnetite-dominated powder. Before deformation, the models were magnetized by means of two permanent magnets generating within each model a quasi-linear magnetic field of intensity variable between 20 and 100 mT. After deformation, the models were cut into closely spaced vertical sections and sampled by means of 1×1-cm Plexiglas cylinders at several locations along curved fronts. Care was taken to collect paleomagnetic samples only within virtually undeformed thrust sheets, avoiding zones affected by pervasive shear. Afterwards, the natural remanent magnetization of these samples was measured, and alternating field demagnetization was used to isolate the principal components. The characteristic components of magnetization isolated were used to estimate the vertical-axis rotations occurring during model deformation. We find that indenters pushing into deforming belts from behind form non-rotational curved outer fronts. The more internal fronts show oroclinal-type rotations of a smaller magnitude than that expected for a perfect orocline. Lateral symmetrical obstacles in the foreland colliding with forward propagating belts produce non-rotational outer curved fronts as well, whereas in between and inside the obstacles a perfect orocline forms

  18. PSYCHOLOGY. Estimating the reproducibility of psychological science.

    PubMed

    2015-08-28

    Reproducibility is a defining feature of science, but the extent to which it characterizes current research is unknown. We conducted replications of 100 experimental and correlational studies published in three psychology journals using high-powered designs and original materials when available. Replication effects were half the magnitude of original effects, representing a substantial decline. Ninety-seven percent of original studies had statistically significant results. Thirty-six percent of replications had statistically significant results; 47% of original effect sizes were in the 95% confidence interval of the replication effect size; 39% of effects were subjectively rated to have replicated the original result; and if no bias in original results is assumed, combining original and replication results left 68% with statistically significant effects. Correlational tests suggest that replication success was better predicted by the strength of original evidence than by characteristics of the original and replication teams. PMID:26315443

  19. PSYCHOLOGY. Estimating the reproducibility of psychological science.

    PubMed

    2015-08-28

    Reproducibility is a defining feature of science, but the extent to which it characterizes current research is unknown. We conducted replications of 100 experimental and correlational studies published in three psychology journals using high-powered designs and original materials when available. Replication effects were half the magnitude of original effects, representing a substantial decline. Ninety-seven percent of original studies had statistically significant results. Thirty-six percent of replications had statistically significant results; 47% of original effect sizes were in the 95% confidence interval of the replication effect size; 39% of effects were subjectively rated to have replicated the original result; and if no bias in original results is assumed, combining original and replication results left 68% with statistically significant effects. Correlational tests suggest that replication success was better predicted by the strength of original evidence than by characteristics of the original and replication teams.

  20. Is Grannum grading of the placenta reproducible?

    NASA Astrophysics Data System (ADS)

    Moran, Mary; Ryan, John; Brennan, Patrick C.; Higgins, Mary; McAuliffe, Fionnuala M.

    2009-02-01

    Current ultrasound assessment of placental calcification relies on Grannum grading. The aim of this study was to assess if this method is reproducible by measuring inter- and intra-observer variation in grading placental images, under strictly controlled viewing conditions. Thirty placental images were acquired and digitally saved. Five experienced sonographers independently graded the images on two separate occasions. In order to eliminate any technological factors which could affect data reliability and consistency all observers reviewed images at the same time. To optimise viewing conditions ambient lighting was maintained between 25-40 lux, with monitors calibrated to the GSDF standard to ensure consistent brightness and contrast. Kappa (κ) analysis of the grades assigned was used to measure inter- and intra-observer reliability. Intra-observer agreement had a moderate mean κ-value of 0.55, with individual comparisons ranging from 0.30 to 0.86. Two images saved from the same patient, during the same scan, were each graded as I, II and III by the same observer. A mean κ-value of 0.30 (range from 0.13 to 0.55) indicated fair inter-observer agreement over the two occasions and only one image was graded consistently the same by all five observers. The study findings confirmed the lack of reproducibility associated with Grannum grading of the placenta despite optimal viewing conditions and highlight the need for new methods of assessing placental health in order to improve neonatal outcomes. Alternative methods for quantifying placental calcification such as a software based technique and 3D ultrasound assessment need to be explored.

  1. Datathons and Software to Promote Reproducible Research

    PubMed Central

    2016-01-01

    Background Datathons facilitate collaboration between clinicians, statisticians, and data scientists in order to answer important clinical questions. Previous datathons have resulted in numerous publications of interest to the critical care community and serve as a viable model for interdisciplinary collaboration. Objective We report on an open-source software called Chatto that was created by members of our group, in the context of the second international Critical Care Datathon, held in September 2015. Methods Datathon participants formed teams to discuss potential research questions and the methods required to address them. They were provided with the Chatto suite of tools to facilitate their teamwork. Each multidisciplinary team spent the next 2 days with clinicians working alongside data scientists to write code, extract and analyze data, and reformulate their queries in real time as needed. All projects were then presented on the last day of the datathon to a panel of judges that consisted of clinicians and scientists. Results Use of Chatto was particularly effective in the datathon setting, enabling teams to reduce the time spent configuring their research environments to just a few minutes—a process that would normally take hours to days. Chatto continued to serve as a useful research tool after the conclusion of the datathon. Conclusions This suite of tools fulfills two purposes: (1) facilitation of interdisciplinary teamwork through archiving and version control of datasets, analytical code, and team discussions, and (2) advancement of research reproducibility by functioning postpublication as an online environment in which independent investigators can rerun or modify analyses with relative ease. With the introduction of Chatto, we hope to solve a variety of challenges presented by collaborative data mining projects while improving research reproducibility. PMID:27558834

  2. REPRODUCIBLE AND SHAREABLE QUANTIFICATIONS OF PATHOGENICITY

    PubMed Central

    Manrai, Arjun K; Wang, Brice L; Patel, Chirag J; Kohane, Isaac S

    2016-01-01

    There are now hundreds of thousands of pathogenicity assertions that relate genetic variation to disease, but most of this clinically utilized variation has no accepted quantitative disease risk estimate. Recent disease-specific studies have used control sequence data to reclassify large amounts of prior pathogenic variation, but there is a critical need to scale up both the pace and feasibility of such pathogenicity reassessments across human disease. In this manuscript we develop a shareable computational framework to quantify pathogenicity assertions. We release a reproducible “digital notebook” that integrates executable code, text annotations, and mathematical expressions in a freely accessible statistical environment. We extend previous disease-specific pathogenicity assessments to over 6,000 diseases and 160,000 assertions in the ClinVar database. Investigators can use this platform to prioritize variants for reassessment and tailor genetic model parameters (such as prevalence and heterogeneity) to expose the uncertainty underlying pathogenicity-based risk assessments. Finally, we release a website that links users to pathogenic variation for a queried disease, supporting literature, and implied disease risk calculations subject to user-defined and disease-specific genetic risk models in order to facilitate variant reassessments. PMID:26776189

  3. Laboratory 20-km cycle time trial reproducibility.

    PubMed

    Zavorsky, G S; Murias, J M; Gow, J; Kim, D J; Poulin-Harnois, C; Kubow, S; Lands, L C

    2007-09-01

    This study evaluated the reproducibility of laboratory based 20-km time trials in well trained versus recreational cyclists. Eighteen cyclists (age = 34 +/- 8 yrs; body mass index = 23.1 +/- 2.2 kg/m (2); VO(2max) = 4.19 +/- 0.65 L/min) completed three 20-km time trials over a month on a Velotron cycle ergometer. Average power output (PO) (W), speed, and heart rate (HR) were significantly lower in the first time trial compared to the second and third time trial. The coefficients of variation (CV) between the second and third trial of the top eight performers for average PO, time to completion, and speed were 1.2 %, 0.6 %, 0.5 %, respectively, compared to 4.8 %, 2.0 %, and 2.3 % for the bottom ten. In addition, the average HR, VO(2), and percentage of VO(2max) were similar between trials. This study demonstrated that (1) a familiarization session improves the reliability of the measurements (i.e., average PO, time to completion and speed), and (2) the CV was much smaller for the best performers.

  4. The reproducible radio outbursts of SS Cygni

    NASA Astrophysics Data System (ADS)

    Russell, T. D.; Miller-Jones, J. C. A.; Sivakoff, G. R.; Altamirano, D.; O'Brien, T. J.; Page, K. L.; Templeton, M. R.; Körding, E. G.; Knigge, C.; Rupen, M. P.; Fender, R. P.; Heinz, S.; Maitra, D.; Markoff, S.; Migliari, S.; Remillard, R. A.; Russell, D. M.; Sarazin, C. L.; Waagen, E. O.

    2016-08-01

    We present the results of our intensive radio observing campaign of the dwarf nova SS Cyg during its 2010 April outburst. We argue that the observed radio emission was produced by synchrotron emission from a transient radio jet. Comparing the radio light curves from previous and subsequent outbursts of this system (including high-resolution observations from outbursts in 2011 and 2012) shows that the typical long and short outbursts of this system exhibit reproducible radio outbursts that do not vary significantly between outbursts, which is consistent with the similarity of the observed optical, ultraviolet and X-ray light curves. Contemporaneous optical and X-ray observations show that the radio emission appears to have been triggered at the same time as the initial X-ray flare, which occurs as disc material first reaches the boundary layer. This raises the possibility that the boundary region may be involved in jet production in accreting white dwarf systems. Our high spatial resolution monitoring shows that the compact jet remained active throughout the outburst with no radio quenching.

  5. Reproducibility of neuroimaging analyses across operating systems

    PubMed Central

    Glatard, Tristan; Lewis, Lindsay B.; Ferreira da Silva, Rafael; Adalat, Reza; Beck, Natacha; Lepage, Claude; Rioux, Pierre; Rousseau, Marc-Etienne; Sherif, Tarek; Deelman, Ewa; Khalili-Mahani, Najmeh; Evans, Alan C.

    2015-01-01

    Neuroimaging pipelines are known to generate different results depending on the computing platform where they are compiled and executed. We quantify these differences for brain tissue classification, fMRI analysis, and cortical thickness (CT) extraction, using three of the main neuroimaging packages (FSL, Freesurfer and CIVET) and different versions of GNU/Linux. We also identify some causes of these differences using library and system call interception. We find that these packages use mathematical functions based on single-precision floating-point arithmetic whose implementations in operating systems continue to evolve. While these differences have little or no impact on simple analysis pipelines such as brain extraction and cortical tissue classification, their accumulation creates important differences in longer pipelines such as subcortical tissue classification, fMRI analysis, and cortical thickness extraction. With FSL, most Dice coefficients between subcortical classifications obtained on different operating systems remain above 0.9, but values as low as 0.59 are observed. Independent component analyses (ICA) of fMRI data differ between operating systems in one third of the tested subjects, due to differences in motion correction. With Freesurfer and CIVET, in some brain regions we find an effect of build or operating system on cortical thickness. A first step to correct these reproducibility issues would be to use more precise representations of floating-point numbers in the critical sections of the pipelines. The numerical stability of pipelines should also be reviewed. PMID:25964757

  6. Electrical-transport properties and microwave device performance of sputtered TlCaBaCuO superconducting thin films

    NASA Technical Reports Server (NTRS)

    Subramanyam, G.; Kapoor, V. J.; Chorey, C. M.; Bhasin, K. B.

    1992-01-01

    The paper describes the processing and electrical transport measurements for achieving reproducible high-Tc and high-Jc sputtered TlCaBaCuO thin films on LaAlO3 substrates, for microelectronic applications. The microwave properties of TlCaBaCuO thin films were investigated by designing, fabricating, and characterizing microstrip ring resonators with a fundamental resonance frequency of 12 GHz on 10-mil-thick LaAlO3 substrates. Typical unloaded quality factors for a ring resonator with a superconducting ground plane of 0.3 micron-thickness and a gold ground plane of 1-micron-thickness were above 1500 at 65 K. Typical values of penetration depth at 0 K in the TlCaBaCuO thin films were between 7000 and 8000 A.

  7. Experimental challenges to reproduce seismic fault motion

    NASA Astrophysics Data System (ADS)

    Shimamoto, T.

    2011-12-01

    This presentation briefly reviews scientific and technical development in the studies of intermediate to high-velocity frictional properties of faults and summarizes remaining technical challenges to reproduce nucleation to growth processes of large earthquakes in laboratory. Nearly 10 high-velocity or low to high-velocity friction apparatuses have been built in the last several years in the world and it has become possible now to produce sub-plate velocity to seismic slip rate in a single machine. Despite spreading of high-velocity friction studies, reproducing seismic fault motion at high P and T conditions to cover the entire seismogenic zone is still a big challenge. Previous studies focused on (1) frictional melting, (2) thermal pressurization, and (3) high-velocity gouge behavior without frictional melting. Frictional melting process was solved as a Stefan problem with very good agreement with experimental results. Thermal pressurization has been solved theoretically based on measured transport properties and has been included successfully in the modeling of earthquake generation. High-velocity gouge experiments in the last several years have revealed that a wide variety of gouges exhibit dramatic weakening at high velocities (e.g., Di Toro et al., 2011, Nature). Most gouge experiments were done under dry conditions partly to separate gouge friction from the involvement of thermal pressurization. However, recent studies demonstrated that dehydration or degassing due to mineral decomposition can occur during seismic fault motion. Those results not only provided a new view of looking at natural fault zones in search of geological evidence of seismic fault motion, but also indicated that thermal pressurization and gouge weakening can occur simultaneously even in initially dry gouge. Thus experiments with controlled pore pressure are needed. I have struggled to make a pressure vessel for wet high-velocity experiments in the last several years. A technical

  8. Reproducibility and utility of dune luminescence chronologies

    NASA Astrophysics Data System (ADS)

    Leighton, Carly L.; Thomas, David S. G.; Bailey, Richard M.

    2014-02-01

    Optically stimulated luminescence (OSL) dating of dune deposits has increasingly been used as a tool to investigate the response of aeolian systems to environmental change. Amalgamation of individual dune accumulation chronologies has been employed in order to distinguish regional from local geomorphic responses to change. However, advances in dating have produced chronologies of increasing complexity. In particular, questions regarding the interpretation of dune ages have been raised, including over the most appropriate method to evaluate the significance of suites of OSL ages when local 'noisy' and discontinuous records are combined. In this paper, these issues are reviewed and the reproducibility of dune chronologies is assessed. OSL ages from two cores sampled from the same dune in the northeast Rub' al Khali, United Arab Emirates, are presented and compared, alongside an analysis of previously published dune ages dated to within the last 30 ka. Distinct periods of aeolian activity and preservation are identified, which can be tied to regional climatic and environmental changes. This case study is used to address fundamental questions that are persistently asked of dune dating studies, including the appropriate spatial scale over which to infer environmental and climatic change based on dune chronologies, whether chronological hiatuses can be interpreted, how to most appropriately combine and display datasets, and the relationship between geomorphic and palaeoclimatic signals. Chronological profiles reflect localised responses to environmental variability and climatic forcing, and amalgamation of datasets, with consideration of sampling resolution, is required; otherwise local factors are always likely to dominate. Using net accumulation rates to display ages may provide an informative approach of analysing and presenting dune OSL chronologies less susceptible to biases resulting from insufficient sampling resolution.

  9. Evaluation of Statistical Downscaling Skill at Reproducing Extreme Events

    NASA Astrophysics Data System (ADS)

    McGinnis, S. A.; Tye, M. R.; Nychka, D. W.; Mearns, L. O.

    2015-12-01

    Climate model outputs usually have much coarser spatial resolution than is needed by impacts models. Although higher resolution can be achieved using regional climate models for dynamical downscaling, further downscaling is often required. The final resolution gap is often closed with a combination of spatial interpolation and bias correction, which constitutes a form of statistical downscaling. We use this technique to downscale regional climate model data and evaluate its skill in reproducing extreme events. We downscale output from the North American Regional Climate Change Assessment Program (NARCCAP) dataset from its native 50-km spatial resolution to the 4-km resolution of University of Idaho's METDATA gridded surface meterological dataset, which derives from the PRISM and NLDAS-2 observational datasets. We operate on the major variables used in impacts analysis at a daily timescale: daily minimum and maximum temperature, precipitation, humidity, pressure, solar radiation, and winds. To interpolate the data, we use the patch recovery method from the Earth System Modeling Framework (ESMF) regridding package. We then bias correct the data using Kernel Density Distribution Mapping (KDDM), which has been shown to exhibit superior overall performance across multiple metrics. Finally, we evaluate the skill of this technique in reproducing extreme events by comparing raw and downscaled output with meterological station data in different bioclimatic regions according to the the skill scores defined by Perkins et al in 2013 for evaluation of AR4 climate models. We also investigate techniques for improving bias correction of values in the tails of the distributions. These techniques include binned kernel density estimation, logspline kernel density estimation, and transfer functions constructed by fitting the tails with a generalized pareto distribution.

  10. Research Reproducibility in Geosciences: Current Landscape, Practices and Perspectives

    NASA Astrophysics Data System (ADS)

    Yan, An

    2016-04-01

    Reproducibility of research can gauge the validity of its findings. Yet currently we lack understanding of how much of a problem research reproducibility is in geosciences. We developed an online survey on faculty and graduate students in geosciences, and received 136 responses from research institutions and universities in Americas, Asia, Europe and other parts of the world. This survey examined (1) the current state of research reproducibility in geosciences by asking researchers' experiences with unsuccessful replication work, and what obstacles that lead to their replication failures; (2) the current reproducibility practices in community by asking what efforts researchers made to try to reproduce other's work and make their own work reproducible, and what the underlying factors that contribute to irreproducibility are; (3) the perspectives on reproducibility by collecting researcher's thoughts and opinions on this issue. The survey result indicated that nearly 80% of respondents who had ever reproduced a published study had failed at least one time in reproducing. Only one third of the respondents received helpful feedbacks when they contacted the authors of a published study for data, code, or other information. The primary factors that lead to unsuccessful replication attempts are insufficient details of instructions in published literature, and inaccessibility of data, code and tools needed in the study. Our findings suggest a remarkable lack of research reproducibility in geoscience. Changing the incentive mechanism in academia, as well as developing policies and tools that facilitate open data and code sharing are the promising ways for geosciences community to alleviate this reproducibility problem.

  11. Semiautomated, Reproducible Batch Processing of Soy

    NASA Technical Reports Server (NTRS)

    Thoerne, Mary; Byford, Ivan W.; Chastain, Jack W.; Swango, Beverly E.

    2005-01-01

    A computer-controlled apparatus processes batches of soybeans into one or more of a variety of food products, under conditions that can be chosen by the user and reproduced from batch to batch. Examples of products include soy milk, tofu, okara (an insoluble protein and fiber byproduct of soy milk), and whey. Most processing steps take place without intervention by the user. This apparatus was developed for use in research on processing of soy. It is also a prototype of other soy-processing apparatuses for research, industrial, and home use. Prior soy-processing equipment includes household devices that automatically produce soy milk but do not automatically produce tofu. The designs of prior soy-processing equipment require users to manually transfer intermediate solid soy products and to press them manually and, hence, under conditions that are not consistent from batch to batch. Prior designs do not afford choices of processing conditions: Users cannot use previously developed soy-processing equipment to investigate the effects of variations of techniques used to produce soy milk (e.g., cold grinding, hot grinding, and pre-cook blanching) and of such process parameters as cooking times and temperatures, grinding times, soaking times and temperatures, rinsing conditions, and sizes of particles generated by grinding. In contrast, the present apparatus is amenable to such investigations. The apparatus (see figure) includes a processing tank and a jacketed holding or coagulation tank. The processing tank can be capped by either of two different heads and can contain either of two different insertable mesh baskets. The first head includes a grinding blade and heating elements. The second head includes an automated press piston. One mesh basket, designated the okara basket, has oblong holes with a size equivalent to about 40 mesh [40 openings per inch (.16 openings per centimeter)]. The second mesh basket, designated the tofu basket, has holes of 70 mesh [70 openings

  12. Thin gold layer in Ni electroforming process: optical surface characterization

    NASA Astrophysics Data System (ADS)

    Sironi, G.; Spiga, D.; Pareschi, G.; Missaglia, N.; Paganini, L.

    2009-08-01

    Mandrel replication by Nickel electroforming is a well-suited process to manufacture X-ray mirrors, making use of Gold layer playing the twofold role of release agent and reflective coating. To increase the optical performances of mirrors it is crucial to minimize the impact of X-ray scattering effects related to surface microroughness, especially when the mirror is intended to operate in hard X-rays. In this case, the Gold layer simply acts as release agent because the reflection is demanded to interferential over-coatings. Even though the replicated optical surface is usually believed to reproduce the smooth topography of the master, a surface degradation is commonly observed. Such a worsening can also suffer from a contribution from the spontaneous roughness growth of the Gold layer itself: if this is the case, the mirror's optical quality could potentially benefit from the utilization of a thin Gold layer (< 100 nm) instead of the traditional thick gold layer (> 100 nm). To prove the effectiveness of the Gold thickness reduction, a microroughness characterization of replicated thin gold layers has been achieved. We report here a preliminary roughness study of 3 electroformed Ni samples replicated from a super-polished Zerodur flat master with various Gold layer thicknesses, in the spectral range 0.02-1000 μm. The study is organized as follows: (a) characterization of the 3 replicated samples; (b) comparison of the Gold roughness for thin vs. thick layers; (c) comparison of the two sides of Gold layers.

  13. A simple and reproducible capacitive electrode.

    PubMed

    Spinelli, Enrique; Guerrero, Federico; García, Pablo; Haberman, Marcelo

    2016-03-01

    Capacitive Electrodes (CE) allow the acquisition of biopotentials through a dielectric layer, without the use of electrolytes, just by placing them on skin or clothing, but demands front-ends with ultra-high input impedances. This must be achieved while providing a path for bias currents, calling for ultra-high value resistors and special components and construction techniques. A simple CE that uses bootstrap techniques to avoid ultra-high value components and special materials is proposed. When electrodes are placed on the skin; that is, with coupling capacitances C(S) of around 100 pF, they present a noise level of 3.3 µV(RMS) in a 0.5-100 Hz bandwidth, which is appropriate for electrocardiography (ECG) measurements. Construction details of the CE and the complete circuit, including a fast recovery feature, are presented.

  14. Relationships between Lead Halide Perovskite Thin-Film Fabrication, Morphology, and Performance in Solar Cells.

    PubMed

    Sharenko, Alexander; Toney, Michael F

    2016-01-20

    Solution-processed lead halide perovskite thin-film solar cells have achieved power conversion efficiencies comparable to those obtained with several commercial photovoltaic technologies in a remarkably short period of time. This rapid rise in device efficiency is largely the result of the development of fabrication protocols capable of producing continuous, smooth perovskite films with micrometer-sized grains. Further developments in film fabrication and morphological control are necessary, however, in order for perovskite solar cells to reliably and reproducibly approach their thermodynamic efficiency limit. This Perspective discusses the fabrication of lead halide perovskite thin films, while highlighting the processing-property-performance relationships that have emerged from the literature, and from this knowledge, suggests future research directions.

  15. Solution-processed In2S3 buffer layer for chalcopyrite thin film solar cells

    NASA Astrophysics Data System (ADS)

    Wang, Lan; Lin, Xianzhong; Ennaoui, Ahmed; Wolf, Christian; Lux-Steiner, Martha Ch.; Klenk, Reiner

    2016-02-01

    We report a route to deposit In2S3 thin films from air-stable, low-cost molecular precursor inks for Cd-free buffer layers in chalcopyrite-based thin film solar cells. Different precursor compositions and processing conditions were studied to define a reproducible and robust process. By adjusting the ink properties, this method can be applied in different printing and coating techniques. Here we report on two techniques, namely spin-coating and inkjet printing. Active area efficiencies of 12.8% and 12.2% have been achieved for In2S3-buffered solar cells respectively, matching the performance of CdS-buffered cells prepared with the same batch of absorbers.

  16. Fly wing vein patterns have spatial reproducibility of a single cell

    PubMed Central

    Abouchar, Laurent; Petkova, Mariela D.; Steinhardt, Cynthia R.; Gregor, Thomas

    2014-01-01

    Developmental processes in multicellular organisms occur in fluctuating environments and are prone to noise, yet they produce complex patterns with astonishing reproducibility. We measure the left–right and inter-individual precision of bilaterally symmetric fly wings across the natural range of genetic and environmental conditions and find that wing vein patterns are specified with identical spatial precision and are reproducible to within a single-cell width. The early fly embryo operates at a similar degree of reproducibility, suggesting that the overall spatial precision of morphogenesis in Drosophila performs at the single-cell level. Could development be operating at the physical limit of what a biological system can achieve? PMID:24942847

  17. How to Obtain Reproducible Results for Lithium Sulfur Batteries

    SciTech Connect

    Zheng, Jianming; Lu, Dongping; Gu, Meng; Wang, Chong M.; Zhang, Jiguang; Liu, Jun; Xiao, Jie

    2013-01-01

    The basic requirements for getting reliable Li-S battery data have been discussed in this work. Unlike Li-ion batteries, electrolyte-rich environment significantly affects the cycling stability of Li-S batteries prepared and tested under the same conditions. The reason has been assigned to the different concentrations of polysulfide-containing electrolytes in the cells, which have profound influences on both sulfur cathode and lithium anode. At optimized S/E ratio of 50 g L-1, a good balance among electrolyte viscosity, wetting ability, diffusion rate dissolved polysulfide and nucleation/growth of short-chain Li2S/Li2S2 has been built along with largely reduced contamination on the lithium anode side. Accordingly, good cyclability, high reversible capacity and Coulombic efficiency are achieved in Li-S cell with controlled S/E ratio without any additive. Other factors such as sulfur content in the composite and sulfur loading on the electrode also need careful concern in Li-S system in order to generate reproducible results and gauge the various methods used to improve Li-S battery technology.

  18. Magnetofection: A Reproducible Method for Gene Delivery to Melanoma Cells

    PubMed Central

    Prosen, Lara; Prijic, Sara; Music, Branka; Lavrencak, Jaka; Cemazar, Maja; Sersa, Gregor

    2013-01-01

    Magnetofection is a nanoparticle-mediated approach for transfection of cells, tissues, and tumors. Specific interest is in using superparamagnetic iron oxide nanoparticles (SPIONs) as delivery system of therapeutic genes. Magnetofection has already been described in some proof-of-principle studies; however, fine tuning of the synthesis of SPIONs is necessary for its broader application. Physicochemical properties of SPIONs, synthesized by the co-precipitation in an alkaline aqueous medium, were tested after varying different parameters of the synthesis procedure. The storage time of iron(II) sulfate salt, the type of purified water, and the synthesis temperature did not affect physicochemical properties of SPIONs. Also, varying the parameters of the synthesis procedure did not influence magnetofection efficacy. However, for the pronounced gene expression encoded by plasmid DNA it was crucial to functionalize poly(acrylic) acid-stabilized SPIONs (SPIONs-PAA) with polyethyleneimine (PEI) without the adjustment of its elementary alkaline pH water solution to the physiological pH. In conclusion, the co-precipitation of iron(II) and iron(III) sulfate salts with subsequent PAA stabilization, PEI functionalization, and plasmid DNA binding is a robust method resulting in a reproducible and efficient magnetofection. To achieve high gene expression is important, however, the pH of PEI water solution for SPIONs-PAA functionalization, which should be in the alkaline range. PMID:23862136

  19. Method of producing thin cellulose nitrate film

    DOEpatents

    Lupica, S.B.

    1975-12-23

    An improved method for forming a thin nitrocellulose film of reproducible thickness is described. The film is a cellulose nitrate film, 10 to 20 microns in thickness, cast from a solution of cellulose nitrate in tetrahydrofuran, said solution containing from 7 to 15 percent, by weight, of dioctyl phthalate, said cellulose nitrate having a nitrogen content of from 10 to 13 percent.

  20. Surface enhanced Raman scattering activity of TiN thin film prepared via nitridation of sol-gel derived TiO2 film

    NASA Astrophysics Data System (ADS)

    Dong, Zhanliang; Wei, Hengyong; Chen, Ying; Wang, Ruisheng; Zhao, Junhong; Lin, Jian; Bu, Jinglong; Wei, Yingna; Cui, Yi; Yu, Yun

    2015-10-01

    Surface-enhanced Raman scattering (SERS) is a powerful and non-destructive analytical technique tool for chemical and biological sensing applications. Metal-free SERS substrates have recently been developed by using semiconductor nanostructures. The optical property of TiN film is similar to that of gold. Besides that, its good chemical inertness and thermodynamic stability make TiN thin film an excellent candidate for SERS. In order to investigate its SERS activity, the TiN thin film was successfully prepared via direct nitridation of the sol-gel derived TiO2 thin film on the quartz substrate using ammonia gas as reducing agent. The crystallite structures and morphology of TiN thin film were determined by XRD, RAMAN and FE-SEM. The results show that the thin film obtained is cubic titanium nitride with a lattice parameter of 4.2349 Å. The surface of TiN thin film is rough and with the particles of 50 nm in average sizes. The thickness of TiN thin film is about 130 nm. The TiN thin film displays a surface Plasmon resonance absorption peak at around 476 nm, which can lead to a strong enhancement of the EM field on the interface. The Raman signal of the probe molecule R6G was greatly enhanced through TiN thin film substrates. The enhancement factor is about 4.1×103 and the detection limit achieves 10-6 M for R6G. The TiN thin film substrate also shows a good reproducibility of SERS performance. The results indicate that TiN thin film is an attractive material with potential application in SERS substrates.

  1. High-frequency applications of high-temperature superconductor thin films

    NASA Astrophysics Data System (ADS)

    Klein, N.

    2002-10-01

    High-temperature superconducting thin films offer unique properties which can be utilized for a variety of high-frequency device applications in many areas related to the strongly progressing market of information technology. One important property is an exceptionally low level of microwave absorption at temperatures attainable with low power cryocoolers. This unique property has initiated the development of various novel type of microwave devices and commercialized subsystems with special emphasis on application in advanced microwave communication systems. The second important achievement related to efforts in oxide thin and multilayer technology was the reproducible fabrication of low-noise Josephson junctions in high-temperature superconducting thin films. As a consequence of this achievement, several novel nonlinear high-frequency devices, most of them exploiting the unique features of the ac Josephson effect, have been developed and found to exhibit challenging properties to be utilized in basic metrology and Terahertz technology. On the longer timescale, the achievements in integrated high-temperature superconductor circuit technology may offer a strong potential for the development of digital devices with possible clock frequencies in the range of 100 GHz.

  2. Reproducibility of a 3-dimensional gyroscope in measuring shoulder anteflexion and abduction

    PubMed Central

    2012-01-01

    Background Few studies have investigated the use of a 3-dimensional gyroscope for measuring the range of motion (ROM) in the impaired shoulder. Reproducibility of digital inclinometer and visual estimation is poor. This study aims to investigate the reproducibility of a tri axial gyroscope in measurement of anteflexion, abduction and related rotations in the impaired shoulder. Methods Fifty-eight patients with either subacromial impingement (27) or osteoarthritis of the shoulder (31) participated. Active anteflexion, abduction and related rotations were measured with a tri axial gyroscope according to a test retest protocol. Severity of shoulder impairment and patient perceived pain were assessed by the Disability of Arm Shoulder and Hand score (DASH) and the Visual Analogue Scale (VAS). VAS scores were recorded before and after testing. Results In two out of three hospitals patients with osteoarthritis (n = 31) were measured, in the third hospital patients with subacromial impingement (n = 27). There were significant differences among hospitals for the VAS and DASH scores measured before and after testing. The mean differences between the test and retest means for anteflexion were −6 degrees (affected side), 9 (contralateral side) and for abduction 15 degrees (affected side) and 10 degrees (contralateral side). Bland & Altman plots showed that the confidence intervals for the mean differences fall within −6 up to 15 degrees, individual test - retest differences could exceed these limits. A simulation according to ‘Generalizability Theory’ produces very good coefficients for anteflexion and related rotation as a comprehensive measure of reproducibility. Optimal reproducibility is achieved with 2 repetitions for anteflexion. Conclusions Measurements were influenced by patient perceived pain. Differences in VAS and DASH might be explained by different underlying pathology. These differences in shoulder pathology however did not alter the

  3. Integrating Epitaxial-Like Pb(Zr,Ti)O3 Thin-Film into Silicon for Next-Generation Ferroelectric Field-Effect Transistor.

    PubMed

    Park, Jae Hyo; Kim, Hyung Yoon; Jang, Gil Su; Seok, Ki Hwan; Chae, Hee Jae; Lee, Sol Kyu; Kiaee, Zohreh; Joo, Seung Ki

    2016-03-23

    The development of ferroelectric random-access memory (FeRAM) technology with control of grain boundaries would result in a breakthrough for new nonvolatile memory devices. The excellent piezoelectric and electrical properties of bulk ferroelectrics are degraded when the ferroelectric is processed into thin films because the grain boundaries then form randomly. Controlling the nature of nucleation and growth are the keys to achieving a good crystalline thin-film. However, the sought after high-quality ferroelectric thin-film has so far been thought to be impossible to make, and research has been restricted to atomic-layer deposition which is extremely expensive and has poor reproducibility. Here we demonstrate a novel epitaxial-like growth technique to achieve extremely uniform and large rectangular-shaped grains in thin-film ferroelectrics by dividing the nucleation and growth phases. With this technique, it is possible to achieve 100-μm large uniform grains, even made available on Si, which is large enough to fabricate a field-effect transistor in each grain. The electrical and reliability test results, including endurance and retention test results, were superior to other FeRAMs reported so far and thus the results presented here constitute the first step toward the development of FeRAM using epitaxial-like ferroelectric thin-films.

  4. Integrating Epitaxial-Like Pb(Zr,Ti)O3 Thin-Film into Silicon for Next-Generation Ferroelectric Field-Effect Transistor

    PubMed Central

    Park, Jae Hyo; Kim, Hyung Yoon; Jang, Gil Su; Seok, Ki Hwan; Chae, Hee Jae; Lee, Sol Kyu; Kiaee, Zohreh; Joo, Seung Ki

    2016-01-01

    The development of ferroelectric random-access memory (FeRAM) technology with control of grain boundaries would result in a breakthrough for new nonvolatile memory devices. The excellent piezoelectric and electrical properties of bulk ferroelectrics are degraded when the ferroelectric is processed into thin films because the grain boundaries then form randomly. Controlling the nature of nucleation and growth are the keys to achieving a good crystalline thin-film. However, the sought after high-quality ferroelectric thin-film has so far been thought to be impossible to make, and research has been restricted to atomic-layer deposition which is extremely expensive and has poor reproducibility. Here we demonstrate a novel epitaxial-like growth technique to achieve extremely uniform and large rectangular-shaped grains in thin-film ferroelectrics by dividing the nucleation and growth phases. With this technique, it is possible to achieve 100-μm large uniform grains, even made available on Si, which is large enough to fabricate a field-effect transistor in each grain. The electrical and reliability test results, including endurance and retention test results, were superior to other FeRAMs reported so far and thus the results presented here constitute the first step toward the development of FeRAM using epitaxial-like ferroelectric thin-films. PMID:27005886

  5. Analysis of The Sensitivity and Reproducibility Of The Basso, Beattie, Bresnahan (BBB) Scale in Wistar Rats

    PubMed Central

    de Barros Filho, Tarcisio Eloy Pessoa; Molina, Alessandra Eira Iague Sleiman

    2008-01-01

    OBJECTIVE To evaluate the sensitivity and reproducibility of the Basso, Beattie, Bresnahan functional scale in the assessment of the locomotor capacity of rats after spinal cord injury. METHODS Thirty male Wistar rats underwent laminectomy and mild, moderate or severe spinal cord contusions using the New York University Weight Drop Impactor. The mice were followed for 28 days, after which time each rat was placed in an 80x80x30 cm3 clear box lined with a blue non-slippery material and stimulated to move. Their movement was video-recorded by three digital cameras operating simultaneously. Identical copies of the edited videos were given to six independent evaluators who were blinded with regards to the degree of injury severity. Each evaluator made a determination of the locomotor capacity of the rats using the Basso, Beattie, Bresnahan functional scale. RESULTS We determined the sensitivity of the method to differences among the evaluators as well as between the results achieved on the left and right hind paws of rats subjected to either mild, moderate or severe injuries by comparing the functional outcomes and reproducibility using non-parametric correlation tests. CONCLUSIONS The Basso, Beattie, Bresnahan scale showed high reproducibility and satisfactory sensitivity for identifying mild injuries; satisfactory reproducibility and non-satisfactory sensitivity for moderate injuries; and reduced reproducibility and non-satisfactory sensitivity for severe injuries. PMID:18305873

  6. Shear Thinning of Noncolloidal Suspensions.

    PubMed

    Vázquez-Quesada, Adolfo; Tanner, Roger I; Ellero, Marco

    2016-09-01

    Shear thinning-a reduction in suspension viscosity with increasing shear rates-is understood to arise in colloidal systems from a decrease in the relative contribution of entropic forces. The shear-thinning phenomenon has also been often reported in experiments with noncolloidal systems at high volume fractions. However its origin is an open theoretical question and the behavior is difficult to reproduce in numerical simulations where shear thickening is typically observed instead. In this letter we propose a non-Newtonian model of interparticle lubrication forces to explain shear thinning in noncolloidal suspensions. We show that hidden shear-thinning effects of the suspending medium, which occur at shear rates orders of magnitude larger than the range investigated experimentally, lead to significant shear thinning of the overall suspension at much smaller shear rates. At high particle volume fractions the local shear rates experienced by the fluid situated in the narrow gaps between particles are much larger than the averaged shear rate of the whole suspension. This allows the suspending medium to probe its high-shear non-Newtonian regime and it means that the matrix fluid rheology must be considered over a wide range of shear rates. PMID:27636496

  7. An Open Science and Reproducible Research Primer for Landscape Ecologists

    EPA Science Inventory

    In recent years many funding agencies, some publishers, and even the United States government have enacted policies that encourage open science and strive for reproducibility; however, the knowledge and skills to implement open science and enable reproducible research are not yet...

  8. 46 CFR 56.30-3 - Piping joints (reproduces 110).

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 46 Shipping 2 2012-10-01 2012-10-01 false Piping joints (reproduces 110). 56.30-3 Section 56.30-3... APPURTENANCES Selection and Limitations of Piping Joints § 56.30-3 Piping joints (reproduces 110). The type of piping joint used shall be suitable for the design conditions and shall be selected with consideration...

  9. 46 CFR 56.30-3 - Piping joints (reproduces 110).

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 46 Shipping 2 2011-10-01 2011-10-01 false Piping joints (reproduces 110). 56.30-3 Section 56.30-3... APPURTENANCES Selection and Limitations of Piping Joints § 56.30-3 Piping joints (reproduces 110). The type of piping joint used shall be suitable for the design conditions and shall be selected with consideration...

  10. 46 CFR 56.30-3 - Piping joints (reproduces 110).

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 46 Shipping 2 2014-10-01 2014-10-01 false Piping joints (reproduces 110). 56.30-3 Section 56.30-3... APPURTENANCES Selection and Limitations of Piping Joints § 56.30-3 Piping joints (reproduces 110). The type of piping joint used shall be suitable for the design conditions and shall be selected with consideration...

  11. 46 CFR 56.30-3 - Piping joints (reproduces 110).

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 46 Shipping 2 2013-10-01 2013-10-01 false Piping joints (reproduces 110). 56.30-3 Section 56.30-3... APPURTENANCES Selection and Limitations of Piping Joints § 56.30-3 Piping joints (reproduces 110). The type of piping joint used shall be suitable for the design conditions and shall be selected with consideration...

  12. 10 CFR 95.43 - Authority to reproduce.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 10 Energy 2 2010-01-01 2010-01-01 false Authority to reproduce. 95.43 Section 95.43 Energy NUCLEAR REGULATORY COMMISSION (CONTINUED) FACILITY SECURITY CLEARANCE AND SAFEGUARDING OF NATIONAL SECURITY INFORMATION AND RESTRICTED DATA Control of Information § 95.43 Authority to reproduce. (a) Each...

  13. An open investigation of the reproducibility of cancer biology research.

    PubMed

    Errington, Timothy M; Iorns, Elizabeth; Gunn, William; Tan, Fraser Elisabeth; Lomax, Joelle; Nosek, Brian A

    2014-12-10

    It is widely believed that research that builds upon previously published findings has reproduced the original work. However, it is rare for researchers to perform or publish direct replications of existing results. The Reproducibility Project: Cancer Biology is an open investigation of reproducibility in preclinical cancer biology research. We have identified 50 high impact cancer biology articles published in the period 2010-2012, and plan to replicate a subset of experimental results from each article. A Registered Report detailing the proposed experimental designs and protocols for each subset of experiments will be peer reviewed and published prior to data collection. The results of these experiments will then be published in a Replication Study. The resulting open methodology and dataset will provide evidence about the reproducibility of high-impact results, and an opportunity to identify predictors of reproducibility.

  14. Defect-free thin InAs nanowires grown using molecular beam epitaxy.

    PubMed

    Zhang, Zhi; Chen, Ping-Ping; Lu, Wei; Zou, Jin

    2016-01-21

    In this study, we designed a simple method to achieve the growth of defect-free thin InAs nanowires with a lateral dimension well below their Bohr radius on different substrate orientations. By depositing and annealing a thin layer of Au thin film on a (100) substrate surface, we have achieved the growth of defect-free uniform-sized thin InAs nanowires. This study provides a strategy to achieve the growth of pure defect-free thin nanowires.

  15. Graded Achievement, Tested Achievement, and Validity

    ERIC Educational Resources Information Center

    Brookhart, Susan M.

    2015-01-01

    Twenty-eight studies of grades, over a century, were reviewed using the argument-based approach to validity suggested by Kane as a theoretical framework. The review draws conclusions about the meaning of graded achievement, its relation to tested achievement, and changes in the construct of graded achievement over time. "Graded…

  16. Semiconducting boron carbide thin films: Structure, processing, and diode applications

    NASA Astrophysics Data System (ADS)

    Bao, Ruqiang

    The high energy density and long lifetime of betavoltaic devices make them very useful to provide the power for applications ranging from implantable cardiac pacemakers to deep space satellites and remote sensors. However, when made with conventional semiconductors, betavoltaic devices tend to suffer rapid degradation as a result of radiation damage. It has been suggested that the degradation problem could potentially be alleviated by replacing conventional semiconductors with a radiation hard semiconducting material like icosahedral boron carbide. The goal of my dissertation was to better understand the fundamental properties and structure of boron carbide thin films and to explore the processes to fabricate boron carbide based devices for voltaic applications. A pulsed laser deposition system and a radio frequency (RF) magnetron sputtering deposition system were designed and built to achieve the goals. After comparing the experimental results obtained using these two techniques, it was concluded that RF magnetron sputtering deposition technique is a good method to make B4C boron carbide thin films to fabricate repeatable and reproducible voltaic devices. The B4C thin films deposited by RF magnetron sputtering require in situ dry pre-cleaning to make ohmic contacts for B4C thin films to fabricate the devices. By adding another RF sputtering to pre-clean the substrate and thin films, a process to fabricate B4C / n-Si heterojunctions has been established. In addition, a low energy electron accelerator (LEEA) was built to mimic beta particles emitted from Pm147 and used to characterize the betavoltaic performance of betavoltaic devices as a function of beta energy and beta flux as well as do accelerated lifetime testing for betavoltaic devices. The energy range of LEEA is 20 - 250 keV with the current from several nA to 50 muA. High efficiency Si solar cells were used to demonstrate the powerful capabilities of LEEA, i.e., the characterization of betavoltaic

  17. Assessment of tumor motion reproducibility with audio-visual coaching through successive 4D CT sessions.

    PubMed

    Goossens, Samuel; Senny, Frédéric; Lee, John A; Janssens, Guillaume; Geets, Xavier

    2014-01-04

    This study aimed to compare combined audio-visual coaching with audio coaching alone and assess their respective impact on the reproducibility of external breathing motion and, one step further, on the internal lung tumor motion itself, through successive sessions. Thirteen patients with NSCLC were enrolled in this study. The tumor motion was assessed by three to four successive 4D CT sessions, while the breathing signal was measured from magnetic sensors positioned on the epigastric region. For all sessions, the breathing was regularized with either audio coaching alone (AC, n = 5) or combined with a real-time visual feedback (A/VC, n = 8) when tolerated by the patients. Peak-to-peak amplitude, period and signal shape of both breathing and tumor motions were first measured. Then, the correlation between the respiratory signal and internal tumor motion over time was evaluated, as well as the residual tumor motion for a gated strategy. Although breathing and tumor motions were comparable between AC and AV/C groups, A/VC approach achieved better reproducibility through sessions than AC alone (mean tumor motion of 7.2 mm ± 1 vs. 8.6 mm ± 1.8 mm, and mean breathing motion of 14.9 mm ± 1.2 mm vs. 13.3mm ± 3.7 mm, respectively). High internal/external correlation reproducibility was achieved in the superior-inferior tumor motion direction for all patients. For the anterior posterior tumor motion direction, better correlation reproducibility has been observed when visual feedback has been used. For a displacement-based gating approach, A/VC might also be recommended, since it led to smaller residual tumor motion within clinically relevant duty cycles. This study suggests that combining real-time visual feedback with audio coaching might improve the reproducibility of key characteristics of the breathing pattern, and might thus be considered in the implementation of lung tumor radiotherapy.

  18. Reproducible and controllable induction voltage adder for scaled beam experiments

    NASA Astrophysics Data System (ADS)

    Sakai, Yasuo; Nakajima, Mitsuo; Horioka, Kazuhiko

    2016-08-01

    A reproducible and controllable induction adder was developed using solid-state switching devices and Finemet cores for scaled beam compression experiments. A gate controlled MOSFET circuit was developed for the controllable voltage driver. The MOSFET circuit drove the induction adder at low magnetization levels of the cores which enabled us to form reproducible modulation voltages with jitter less than 0.3 ns. Preliminary beam compression experiments indicated that the induction adder can improve the reproducibility of modulation voltages and advance the beam physics experiments.

  19. Reproducible and controllable induction voltage adder for scaled beam experiments.

    PubMed

    Sakai, Yasuo; Nakajima, Mitsuo; Horioka, Kazuhiko

    2016-08-01

    A reproducible and controllable induction adder was developed using solid-state switching devices and Finemet cores for scaled beam compression experiments. A gate controlled MOSFET circuit was developed for the controllable voltage driver. The MOSFET circuit drove the induction adder at low magnetization levels of the cores which enabled us to form reproducible modulation voltages with jitter less than 0.3 ns. Preliminary beam compression experiments indicated that the induction adder can improve the reproducibility of modulation voltages and advance the beam physics experiments. PMID:27587112

  20. Thin Film?

    NASA Astrophysics Data System (ADS)

    Kariper, İ. Afşin

    2014-09-01

    This study focuses on the critical surface tension of lead sulfite (PbSO3) crystalline thin film produced with chemical bath deposition on substrates (commercial glass).The PbSO3 thin films were deposited at room temperature at different deposition times. The structural properties of the films were defined and examined according to X-ray diffraction (XRD) and the XRD results such as dislocation density, average grain size, and no. of crystallites per unit area. Atomic force microscopy was used to measure the film thickness and the surface properties. The critical surface tension of the PbSO3 thin films was measured with an optical tensiometer instrument and calculated using the Zisman method. The results indicated that the critical surface tension of films changed in accordance with the average grain size and film thickness. The film thickness increased with deposition time and was inversely correlated with surface tension. The average grain size increased according to deposition time and was inversely correlated with surface tension.

  1. Flexible thin film magnetoimpedance sensors

    NASA Astrophysics Data System (ADS)

    Kurlyandskaya, G. V.; Fernández, E.; Svalov, A.; Burgoa Beitia, A.; García-Arribas, A.; Larrañaga, A.

    2016-10-01

    Magnetically soft thin film deposited onto polymer substrates is an attractive option for flexible electronics including magnetoimpedance (MI) applications. MI FeNi/Ti based thin film sensitive elements were designed and prepared using the sputtering technique by deposition onto rigid and flexible substrates at different deposition rates. Their structure, magnetic properties and MI were comparatively analyzed. The main structural features were sufficiently accurately reproduced in the case of deposition onto cyclo olefine polymer substrates compared to glass substrates for the same conditions. Although for the best condition (28 nm/min rate) of the deposition onto polymer a significant reduction of the MI field sensitivity was found satisfactory for sensor applications sensitivity: 45%/Oe was obtained for a frequency of 60 MHz.

  2. Reproducibility of ERG responses obtained with the DTL electrode.

    PubMed

    Hébert, M; Vaegan; Lachapelle, P

    1999-03-01

    Previous investigators have suggested that the DTL fibre electrode might not be suitable for the recording of replicable electroretinograms. We present experimental evidence that when used adequately, this electrode does permit the recording of highly reproducible retinal potentials.

  3. 15. REPRODUCED FROM 'GRIST WIND MILLS AT EAST HAMPTON,' PICTURESQUE ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    15. REPRODUCED FROM 'GRIST WIND MILLS AT EAST HAMPTON,' PICTURESQUE AMERICA NEW YORK, 1872. THE HOOD WINDMILL IS IN THE FOREGROUND AND THE PANTIGO WINDMILL IS IN THE BACKGROUND - Pantigo Windmill, James Lane, East Hampton, Suffolk County, NY

  4. 8. Historic American Buildings Survey Reproduced from the collections of ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    8. Historic American Buildings Survey Reproduced from the collections of the Library of Congress, Accession No. 45041 Geographical File ('Nantucket, Mass.') Division of Prints and Photographs c. 1880 - Jethro Coffin House, Sunset Hill, Nantucket, Nantucket County, MA

  5. 223. FREQUENTLY REPRODUCED VIEW OF GWMP SHOWING VARIABLE WIDTH MEDIANS ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    223. FREQUENTLY REPRODUCED VIEW OF GWMP SHOWING VARIABLE WIDTH MEDIANS WITH INDEPENDENT ALIGNMENTS FROM KEY BRIDGE LOOKING NORTHWEST, 1953. - George Washington Memorial Parkway, Along Potomac River from McLean to Mount Vernon, VA, Mount Vernon, Fairfax County, VA

  6. Photographic copy of reproduced photograph dated 1942. Exterior view, west ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    Photographic copy of reproduced photograph dated 1942. Exterior view, west elevation. Building camouflaged during World War II. - Grand Central Air Terminal, 1310 Air Way, Glendale, Los Angeles County, CA

  7. Comment on "Estimating the reproducibility of psychological science".

    PubMed

    Gilbert, Daniel T; King, Gary; Pettigrew, Stephen; Wilson, Timothy D

    2016-03-01

    A paper from the Open Science Collaboration (Research Articles, 28 August 2015, aac4716) attempting to replicate 100 published studies suggests that the reproducibility of psychological science is surprisingly low. We show that this article contains three statistical errors and provides no support for such a conclusion. Indeed, the data are consistent with the opposite conclusion, namely, that the reproducibility of psychological science is quite high.

  8. Bitwise identical compiling setup: prospective for reproducibility and reliability of Earth system modeling

    NASA Astrophysics Data System (ADS)

    Li, R.; Liu, L.; Yang, G.; Zhang, C.; Wang, B.

    2016-02-01

    Reproducibility and reliability are fundamental principles of scientific research. A compiling setup that includes a specific compiler version and compiler flags is an essential technical support for Earth system modeling. With the fast development of computer software and hardware, a compiling setup has to be updated frequently, which challenges the reproducibility and reliability of Earth system modeling. The existing results of a simulation using an original compiling setup may be irreproducible by a newer compiling setup because trivial round-off errors introduced by the change in compiling setup can potentially trigger significant changes in simulation results. Regarding the reliability, a compiler with millions of lines of code may have bugs that are easily overlooked due to the uncertainties or unknowns in Earth system modeling. To address these challenges, this study shows that different compiling setups can achieve exactly the same (bitwise identical) results in Earth system modeling, and a set of bitwise identical compiling setups of a model can be used across different compiler versions and different compiler flags. As a result, the original results can be more easily reproduced; for example, the original results with an older compiler version can be reproduced exactly with a newer compiler version. Moreover, this study shows that new test cases can be generated based on the differences of bitwise identical compiling setups between different models, which can help detect software bugs in the codes of models and compilers and finally improve the reliability of Earth system modeling.

  9. Bitwise identical compiling setup: prospective for reproducibility and reliability of earth system modeling

    NASA Astrophysics Data System (ADS)

    Li, R.; Liu, L.; Yang, G.; Zhang, C.; Wang, B.

    2015-11-01

    Reproducibility and reliability are fundamental principles of scientific research. A compiling setup that includes a specific compiler version and compiler flags is essential technical supports for Earth system modeling. With the fast development of computer software and hardware, compiling setup has to be updated frequently, which challenges the reproducibility and reliability of Earth system modeling. The existing results of a simulation using an original compiling setup may be irreproducible by a newer compiling setup because trivial round-off errors introduced by the change of compiling setup can potentially trigger significant changes in simulation results. Regarding the reliability, a compiler with millions of lines of codes may have bugs that are easily overlooked due to the uncertainties or unknowns in Earth system modeling. To address these challenges, this study shows that different compiling setups can achieve exactly the same (bitwise identical) results in Earth system modeling, and a set of bitwise identical compiling setups of a model can be used across different compiler versions and different compiler flags. As a result, the original results can be more easily reproduced; for example, the original results with an older compiler version can be reproduced exactly with a newer compiler version. Moreover, this study shows that new test cases can be generated based on the differences of bitwise identical compiling setups between different models, which can help detect software bugs or risks in the codes of models and compilers and finally improve the reliability of Earth system modeling.

  10. On The Reproducibility of Seasonal Land-surface Climate

    SciTech Connect

    Phillips, T J

    2004-10-22

    The sensitivity of the continental seasonal climate to initial conditions is estimated from an ensemble of decadal simulations of an atmospheric general circulation model with the same specifications of radiative forcings and monthly ocean boundary conditions, but with different initial states of atmosphere and land. As measures of the ''reproducibility'' of continental climate for different initial conditions, spatio-temporal correlations are computed across paired realizations of eleven model land-surface variables in which the seasonal cycle is either included or excluded--the former case being pertinent to climate simulation, and the latter to seasonal anomaly prediction. It is found that the land-surface variables which include the seasonal cycle are impacted only marginally by changes in initial conditions; moreover, their seasonal climatologies exhibit high spatial reproducibility. In contrast, the reproducibility of a seasonal land-surface anomaly is generally low, although it is substantially higher in the Tropics; its spatial reproducibility also markedly fluctuates in tandem with warm and cold phases of the El Nino/Southern Oscillation. However, the overall degree of reproducibility depends strongly on the particular land-surface anomaly considered. It is also shown that the predictability of a land-surface anomaly implied by its reproducibility statistics is consistent with what is inferred from more conventional predictability metrics. Implications of these results for climate model intercomparison projects and for operational forecasts of seasonal continental climate also are elaborated.

  11. Host thin films incorporating nanoparticles

    NASA Astrophysics Data System (ADS)

    Qureshi, Uzma

    The focus of this research project was the investigation of the functional properties of thin films that incorporate a secondary nanoparticulate phase. In particular to assess if the secondary nanoparticulate material enhanced a functional property of the coating on glass. In order to achieve this, new thin film deposition methods were developed, namely use of nanopowder precursors, an aerosol assisted transport technique and an aerosol into atmospheric pressure chemical vapour deposition system. Aerosol assisted chemical vapour deposition (AACVD) was used to deposit 8 series of thin films on glass. Five different nanoparticles silver, gold, ceria, tungsten oxide and zinc oxide were tested and shown to successfully deposit thin films incorporating nanoparticles within a host matrix. Silver nanoparticles were synthesised and doped within a titania film by AACVD. This improved solar control properties. A unique aerosol assisted chemical vapour deposition (AACVD) into atmospheric pressure chemical vapour deposition (APCVD) system was used to deposit films of Au nanoparticles and thin films of gold nanoparticles incorporated within a host titania matrix. Incorporation of high refractive index contrast metal oxide particles within a host film altered the film colour. The key goal was to test the potential of nanopowder forms and transfer the suspended nanopowder via an aerosol to a substrate in order to deposit a thin film. Discrete tungsten oxide nanoparticles or ceria nanoparticles within a titanium dioxide thin film enhanced the self-cleaning and photo-induced super-hydrophilicity. The nanopowder precursor study was extended by deposition of zinc oxide thin films incorporating Au nanoparticles and also ZnO films deposited from a ZnO nanopowder precursor. Incorporation of Au nanoparticles within a VO: host matrix improved the thermochromic response, optical and colour properties. Composite VC/TiC and Au nanoparticle/V02/Ti02 thin films displayed three useful

  12. Corrections to the thin wall approximation in general relativity

    NASA Technical Reports Server (NTRS)

    Garfinkle, David; Gregory, Ruth

    1989-01-01

    The question is considered whether the thin wall formalism of Israel applies to the gravitating domain walls of a lambda phi(exp 4) theory. The coupled Einstein-scalar equations that describe the thick gravitating wall are expanded in powers of the thickness of the wall. The solutions of the zeroth order equations reproduce the results of the usual Israel thin wall approximation for domain walls. The solutions of the first order equations provide corrections to the expressions for the stress-energy of the wall and to the Israel thin wall equations. The modified thin wall equations are then used to treat the motion of spherical and planar domain walls.

  13. Shear Thinning of Noncolloidal Suspensions

    NASA Astrophysics Data System (ADS)

    Vázquez-Quesada, Adolfo; Tanner, Roger I.; Ellero, Marco

    2016-09-01

    Shear thinning—a reduction in suspension viscosity with increasing shear rates—is understood to arise in colloidal systems from a decrease in the relative contribution of entropic forces. The shear-thinning phenomenon has also been often reported in experiments with noncolloidal systems at high volume fractions. However its origin is an open theoretical question and the behavior is difficult to reproduce in numerical simulations where shear thickening is typically observed instead. In this letter we propose a non-Newtonian model of interparticle lubrication forces to explain shear thinning in noncolloidal suspensions. We show that hidden shear-thinning effects of the suspending medium, which occur at shear rates orders of magnitude larger than the range investigated experimentally, lead to significant shear thinning of the overall suspension at much smaller shear rates. At high particle volume fractions the local shear rates experienced by the fluid situated in the narrow gaps between particles are much larger than the averaged shear rate of the whole suspension. This allows the suspending medium to probe its high-shear non-Newtonian regime and it means that the matrix fluid rheology must be considered over a wide range of shear rates.

  14. Reproducibility of parameters of postocclusive reactive hyperemia measured by diffuse optical tomography

    NASA Astrophysics Data System (ADS)

    Vidal-Rosas, Ernesto E.; Billings, Stephen A.; Chico, Timothy; Coca, Daniel

    2016-06-01

    The application of near-infrared spectroscopy (NIRS) to assess microvascular function has shown promising results. An important limitation when using a single source-detector pair, however, is the lack of depth sensitivity. Diffuse optical tomography (DOT) overcomes this limitation using an array of sources and detectors that allow the reconstruction of volumetric hemodynamic changes. This study compares the key parameters of postocclusive reactive hyperemia measured in the forearm using standard NIRS and DOT. We show that while the mean parameter values are similar for the two techniques, DOT achieves much better reproducibility, as measured by the intraclass correlation coefficient (ICC). We show that DOT achieves high reproducibility for muscle oxygen consumption (ICC: 0.99), time to maximal HbO2 (ICC: 0.94), maximal HbO2 (ICC: 0.99), and time to maximal HbT (ICC: 0.99). Absolute reproducibility as measured by the standard error of measurement is consistently smaller and close to zero (ideal value) across all parameters measured by DOT compared to NIRS. We conclude that DOT provides a more robust characterization of the reactive hyperemic response and show how the availability of volumetric hemodynamic changes allows the identification of areas of temporal consistency, which could help characterize more precisely the microvasculature.

  15. Reproducible E. coli detection based on label-free SERS and mapping.

    PubMed

    Yang, Danting; Zhou, Haibo; Haisch, Christoph; Niessner, Reinhard; Ying, Yibin

    2016-01-01

    The biosensing for rapid detection of bacteria based on surface-enhanced Raman scattering (SERS) has been widely explored for recent years. It is still a challenge to achieve a high sensitive, reproducible label free detection method for bacteria. In this work, a label-free SERS detection method of Escherichia coli based on incubation with silver colloid was reported. Optimized incubation conditions including shaking speed, time and temperature were used to help construct a rapid SERS method for E. coli analysis. It was found that the enhancement of the Raman signal of E. coli could be achieved to 1.8×10(4) cps (counts per second) with high reproducibility. Three strains of E. coli DSM 1116/498/5695 could be successfully discriminated using such SERS method combining discriminant analysis. Finally, the lowest concentration of E. coli at 1×10(5) cell/mL can be detected by SERS mapping. Thus, our detection method offers higher sensitivity and reproducibility compared to previously reported label free simple-mixing methods, opening an avenue for developing various SERS-based biosensor.

  16. Randomized block experimental designs can increase the power and reproducibility of laboratory animal experiments.

    PubMed

    Festing, Michael F W

    2014-01-01

    Randomized block experimental designs have been widely used in agricultural and industrial research for many decades. Usually they are more powerful, have higher external validity, are less subject to bias, and produce more reproducible results than the completely randomized designs typically used in research involving laboratory animals. Reproducibility can be further increased by using time as a blocking factor. These benefits can be achieved at no extra cost. A small experiment investigating the effect of an antioxidant on the activity of a liver enzyme in four inbred mouse strains, which had two replications (blocks) separated by a period of two months, illustrates this approach. The widespread failure to use these designs more widely in research involving laboratory animals has probably led to a substantial waste of animals, money, and scientific resources and slowed down the development of new treatments for human and animal diseases.

  17. Reproducibility of the Structural Connectome Reconstruction across Diffusion Methods.

    PubMed

    Prčkovska, Vesna; Rodrigues, Paulo; Puigdellivol Sanchez, Ana; Ramos, Marc; Andorra, Magi; Martinez-Heras, Eloy; Falcon, Carles; Prats-Galino, Albert; Villoslada, Pablo

    2016-01-01

    Analysis of the structural connectomes can lead to powerful insights about the brain's organization and damage. However, the accuracy and reproducibility of constructing the structural connectome done with different acquisition and reconstruction techniques is not well defined. In this work, we evaluated the reproducibility of the structural connectome techniques by performing test-retest (same day) and longitudinal studies (after 1 month) as well as analyzing graph-based measures on the data acquired from 22 healthy volunteers (6 subjects were used for the longitudinal study). We compared connectivity matrices and tract reconstructions obtained with the most typical acquisition schemes used in clinical application: diffusion tensor imaging (DTI), high angular resolution diffusion imaging (HARDI), and diffusion spectrum imaging (DSI). We observed that all techniques showed high reproducibility in the test-retest analysis (correlation >.9). However, HARDI was the only technique with low variability (2%) in the longitudinal assessment (1-month interval). The intraclass coefficient analysis showed the highest reproducibility for the DTI connectome, however, with more sparse connections than HARDI and DSI. Qualitative (neuroanatomical) assessment of selected tracts confirmed the quantitative results showing that HARDI managed to detect most of the analyzed fiber groups and fanning fibers. In conclusion, we found that HARDI acquisition showed the most balanced trade-off between high reproducibility of the connectome, higher rate of path detection and of fanning fibers, and intermediate acquisition times (10-15 minutes), although at the cost of higher appearance of aberrant fibers. PMID:26464179

  18. Using prediction markets to estimate the reproducibility of scientific research.

    PubMed

    Dreber, Anna; Pfeiffer, Thomas; Almenberg, Johan; Isaksson, Siri; Wilson, Brad; Chen, Yiling; Nosek, Brian A; Johannesson, Magnus

    2015-12-15

    Concerns about a lack of reproducibility of statistically significant results have recently been raised in many fields, and it has been argued that this lack comes at substantial economic costs. We here report the results from prediction markets set up to quantify the reproducibility of 44 studies published in prominent psychology journals and replicated in the Reproducibility Project: Psychology. The prediction markets predict the outcomes of the replications well and outperform a survey of market participants' individual forecasts. This shows that prediction markets are a promising tool for assessing the reproducibility of published scientific results. The prediction markets also allow us to estimate probabilities for the hypotheses being true at different testing stages, which provides valuable information regarding the temporal dynamics of scientific discovery. We find that the hypotheses being tested in psychology typically have low prior probabilities of being true (median, 9%) and that a "statistically significant" finding needs to be confirmed in a well-powered replication to have a high probability of being true. We argue that prediction markets could be used to obtain speedy information about reproducibility at low cost and could potentially even be used to determine which studies to replicate to optimally allocate limited resources into replications.

  19. Reproducibility of regional brain metabolic responses to lorazepam

    SciTech Connect

    Wang, G.J.; Volkow, N.D.; Overall, J. |

    1996-10-01

    Changes in regional brain glucose metabolism in response to benzodiazepine agonists have been used as indicators of benzodiazepine-GABA receptor function. The purpose of this study was to assess the reproducibility of these responses. Sixteen healthy right-handed men underwent scanning with PET and [{sup 18}F]fluorodeoxyglucose (FDG) twice: before placebo and before lorazepam (30 {mu}g/kg). The same double FDG procedure was repeated 6-8 wk later on the men to assess test-retest reproducibility. The regional absolute brain metabolic values obtained during the second evaluation were significantly lower than those obtained from the first evaluation regardless of condition (p {le} 0.001). Lorazepam significantly and consistently decreased both whole-brain metabolism and the magnitude. The regional pattern of the changes were comparable for both studies (12.3% {plus_minus} 6.9% and 13.7% {plus_minus} 7.4%). Lorazepam effects were the largest in the thalamus (22.2% {plus_minus} 8.6% and 22.4% {plus_minus} 6.9%) and occipital cortex (19% {plus_minus} 8.9% and 21.8% {plus_minus} 8.9%). Relative metabolic measures were highly reproducible both for pharmacolgic and replication condition. This study measured the test-retest reproducibility in regional brain metabolic responses, and although the global and regional metabolic values were significantly lower for the repeated evaluation, the response to lorazepam was highly reproducible. 1613 refs., 3 figs., 3 tabs.

  20. Using prediction markets to estimate the reproducibility of scientific research

    PubMed Central

    Dreber, Anna; Pfeiffer, Thomas; Almenberg, Johan; Isaksson, Siri; Wilson, Brad; Chen, Yiling; Nosek, Brian A.; Johannesson, Magnus

    2015-01-01

    Concerns about a lack of reproducibility of statistically significant results have recently been raised in many fields, and it has been argued that this lack comes at substantial economic costs. We here report the results from prediction markets set up to quantify the reproducibility of 44 studies published in prominent psychology journals and replicated in the Reproducibility Project: Psychology. The prediction markets predict the outcomes of the replications well and outperform a survey of market participants’ individual forecasts. This shows that prediction markets are a promising tool for assessing the reproducibility of published scientific results. The prediction markets also allow us to estimate probabilities for the hypotheses being true at different testing stages, which provides valuable information regarding the temporal dynamics of scientific discovery. We find that the hypotheses being tested in psychology typically have low prior probabilities of being true (median, 9%) and that a “statistically significant” finding needs to be confirmed in a well-powered replication to have a high probability of being true. We argue that prediction markets could be used to obtain speedy information about reproducibility at low cost and could potentially even be used to determine which studies to replicate to optimally allocate limited resources into replications. PMID:26553988

  1. Self-reproducing systems: structure, niche relations and evolution.

    PubMed

    Sharov, A A

    1991-01-01

    A formal definition of a self-reproducing system is proposed using Petri nets. A potential self-reproducing system is a set of places in the Petri net such that the number of tokens in each place increases due to some sequence of internal transitions (a transition is called internal to the marked subset of places if at least one of its starting places and one of its terminating places belongs to that subset). An actual self-reproducing system is a system that compensates the outflow of its components by reproduction. In a suitable environment every potential self-reproducing system becomes an actual one. Each Petri net can be considered as an ecosystem with the web of ecological niches bound together with trophic and other relations. The stationary dynamics of the ecosystem is characterized by the set of filled niches. The process of evolution is described in terms of niche composition change. Perspectives of the theory of self-reproducing systems in biology are discussed.

  2. Benchmarking contactless acquisition sensor reproducibility for latent fingerprint trace evidence

    NASA Astrophysics Data System (ADS)

    Hildebrandt, Mario; Dittmann, Jana

    2015-03-01

    Optical, nano-meter range, contactless, non-destructive sensor devices are promising acquisition techniques in crime scene trace forensics, e.g. for digitizing latent fingerprint traces. Before new approaches are introduced in crime investigations, innovations need to be positively tested and quality ensured. In this paper we investigate sensor reproducibility by studying different scans from four sensors: two chromatic white light sensors (CWL600/CWL1mm), one confocal laser scanning microscope, and one NIR/VIS/UV reflection spectrometer. Firstly, we perform an intra-sensor reproducibility testing for CWL600 with a privacy conform test set of artificial-sweat printed, computer generated fingerprints. We use 24 different fingerprint patterns as original samples (printing samples/templates) for printing with artificial sweat (physical trace samples) and their acquisition with contactless sensory resulting in 96 sensor images, called scan or acquired samples. The second test set for inter-sensor reproducibility assessment consists of the first three patterns from the first test set, acquired in two consecutive scans using each device. We suggest using a simple feature space set in spatial and frequency domain known from signal processing and test its suitability for six different classifiers classifying scan data into small differences (reproducible) and large differences (non-reproducible). Furthermore, we suggest comparing the classification results with biometric verification scores (calculated with NBIS, with threshold of 40) as biometric reproducibility score. The Bagging classifier is nearly for all cases the most reliable classifier in our experiments and the results are also confirmed with the biometric matching rates.

  3. Next-generation sequencing data interpretation: enhancing reproducibility and accessibility.

    PubMed

    Nekrutenko, Anton; Taylor, James

    2012-09-01

    Areas of life sciences research that were previously distant from each other in ideology, analysis practices and toolkits, such as microbial ecology and personalized medicine, have all embraced techniques that rely on next-generation sequencing instruments. Yet the capacity to generate the data greatly outpaces our ability to analyse it. Existing sequencing technologies are more mature and accessible than the methodologies that are available for individual researchers to move, store, analyse and present data in a fashion that is transparent and reproducible. Here we discuss currently pressing issues with analysis, interpretation, reproducibility and accessibility of these data, and we present promising solutions and venture into potential future developments.

  4. Isotope and trace element proxies in sclerosponge skeletons: reproducibility and alteration through sampling

    NASA Astrophysics Data System (ADS)

    Kuhlmann, K.; Haase-Schramm, A.; Böhm, F.; Eisenhauer, A.; Joachimski, M. M.; Dullo, W.-C.

    2003-04-01

    During the last decade sclerosponge skeletons have been increasingly used as proxy recorders, e.g. for reconstructions of mixed layer temperature histories, variations of the carbon isotopic composition of seawater or trace metal input to the oceans. We investigated the influences of drilling and bleaching on the reproducibility of the most commonly used proxies in the skeletons of Ceratoporella nicholsoni: δ13C, δ18O and Sr/Ca ratios. We further compare proxy records from different specimens that were correlated by U-Th dating. We find a good reproducibility for δ13C and Sr/Ca ratios. On the other hand, δ18O records show no reproducible trends and do not correlate with the Sr/Ca records. Bleaching alters the isotopic composition of the samples and decreases the reproducibilty. Sr/Ca ratios are not affected by bleaching. XRD analysis shows that fast sample drilling in the dense aragonitic skeletons can produce up to about 1 percent of calcite. Isotope values from samples drilled with different drill speeds show no significant variation, even at elevated calcite contents. Analysis of the organic carbon content shows a 3 cm wide zone in the youngest part of the skeletons with slightly elevated values (0.25 percent). In the older skeletal parts organic carbon contents are lower (0.1 percent). X-ray radiographs show no porosity change with increasing age of the skeleton except for a thin (<5 mm) rim with higher porosities below the oral surface. Overall, porosities are very low (<4 percent). These observations largely exclude early diagenetic influences through secondary cementation or contamination by organic carbon phases. We conclude that the skeletons of C. nicholsoni are very well suited as recorder of environmental proxies like Sr/Ca and δ13C.

  5. ReproPhylo: An Environment for Reproducible Phylogenomics

    PubMed Central

    Szitenberg, Amir; John, Max; Blaxter, Mark L.; Lunt, David H.

    2015-01-01

    The reproducibility of experiments is key to the scientific process, and particularly necessary for accurate reporting of analyses in data-rich fields such as phylogenomics. We present ReproPhylo, a phylogenomic analysis environment developed to ensure experimental reproducibility, to facilitate the handling of large-scale data, and to assist methodological experimentation. Reproducibility, and instantaneous repeatability, is built in to the ReproPhylo system and does not require user intervention or configuration because it stores the experimental workflow as a single, serialized Python object containing explicit provenance and environment information. This ‘single file’ approach ensures the persistence of provenance across iterations of the analysis, with changes automatically managed by the version control program Git. This file, along with a Git repository, are the primary reproducibility outputs of the program. In addition, ReproPhylo produces an extensive human-readable report and generates a comprehensive experimental archive file, both of which are suitable for submission with publications. The system facilitates thorough experimental exploration of both parameters and data. ReproPhylo is a platform independent CC0 Python module and is easily installed as a Docker image or a WinPython self-sufficient package, with a Jupyter Notebook GUI, or as a slimmer version in a Galaxy distribution. PMID:26335558

  6. Ruggedness and reproducibility of the MBEC biofilm disinfectant efficacy test.

    PubMed

    Parker, A E; Walker, D K; Goeres, D M; Allan, N; Olson, M E; Omar, A

    2014-07-01

    The MBEC™ Physiology & Genetics Assay recently became the first approved ASTM standardized biofilm disinfectant efficacy test method. This report summarizes the results of the standardization process using Pseudomonas aeruginosa biofilms. Initial ruggedness testing of the MBEC method suggests that the assay is rugged (i.e., insensitive) to small changes to the protocol with respect to 4 factors: incubation time of the bacteria (when varied from 16 to 18h), treatment temperature (20-24°C), sonication duration (25-35min), and sonication power (130-480W). In order to assess the repeatability of MBEC results across multiple tests in the same laboratory and the reproducibility across multiple labs, an 8-lab study was conducted in which 8 concentrations of each of 3 disinfectants (a non-chlorine oxidizer, a phenolic, and a quaternary ammonium compound) were applied to biofilms using the MBEC method. The repeatability and reproducibility of the untreated control biofilms were acceptable, as indicated by small repeatability and reproducibility standard deviations (SD) (0.33 and 0.67 log10(CFU/mm(2)), respectively). The repeatability SDs of the biofilm log reductions after application of the 24 concentration and disinfectant combinations ranged from 0.22 to 1.61, and the reproducibility SDs ranged from 0.27 to 1.70. In addition, for each of the 3 disinfectant types considered, the assay was statistically significantly responsive to the increasing treatment concentrations.

  7. The reproducibility of dipping status: beyond the cutoff points.

    PubMed

    Chaves, Hilton; Campello de Souza, Fernando Menezes; Krieger, Eduardo Moacyr

    2005-08-01

    A limited reproducibility has been ascribed to 24-h ambulatory blood pressure monitoring, especially in relation to the dipper and nondipper phenomena. This study examined the reproducibility of 24-h ambulatory blood pressure monitoring in three recordings of pressure at intervals of 8-15 days in 101 study participants (73% treated hypertensive patients) residing in the city of Recife, Pernambuco, Brazil. SpaceLabs 90207 monitors were used, and the minimum number of valid measurements was 80. No significant differences were found between the mean systolic and diastolic pressures, between the second and third recordings when the normotensive and hypertensive patients were assessed jointly (P=0.44). Likewise, no significant differences were present when the normotensive patients were analyzed separately (P=0.96). In the hypertensive group, a significant difference existed between only the first and second ambulatory blood pressure readings (135.1 vs. 132.9 mmHg, respectively; P=0.0005). Regarding declines in pressure during sleep, no significant differences occurred when continuous percentage values were considered (P=0.27). The values obtained from 24-h ambulatory blood pressure monitoring are reproducible when tested at intervals of 8-15 days. Small differences, when significantly present, always involved the first ambulatory blood pressure monitoring. The reproducibility of the dipper and nondipper patterns is of greater complexity because it considers cutoff points rather than continuous ones to characterize these states.

  8. Artificially reproduced image of earth photographed by UV camera

    NASA Technical Reports Server (NTRS)

    1972-01-01

    A reproduction of a color enhancement of a picture photographed in far-ultraviolet light by Astronaut John W. Young, Apollo 16 commander, showing the Earth. Note this is an artificially reproduced image. The three auroral belts, the sunlit atmosphere and background stars are visible.

  9. ReproPhylo: An Environment for Reproducible Phylogenomics.

    PubMed

    Szitenberg, Amir; John, Max; Blaxter, Mark L; Lunt, David H

    2015-09-01

    The reproducibility of experiments is key to the scientific process, and particularly necessary for accurate reporting of analyses in data-rich fields such as phylogenomics. We present ReproPhylo, a phylogenomic analysis environment developed to ensure experimental reproducibility, to facilitate the handling of large-scale data, and to assist methodological experimentation. Reproducibility, and instantaneous repeatability, is built in to the ReproPhylo system and does not require user intervention or configuration because it stores the experimental workflow as a single, serialized Python object containing explicit provenance and environment information. This 'single file' approach ensures the persistence of provenance across iterations of the analysis, with changes automatically managed by the version control program Git. This file, along with a Git repository, are the primary reproducibility outputs of the program. In addition, ReproPhylo produces an extensive human-readable report and generates a comprehensive experimental archive file, both of which are suitable for submission with publications. The system facilitates thorough experimental exploration of both parameters and data. ReproPhylo is a platform independent CC0 Python module and is easily installed as a Docker image or a WinPython self-sufficient package, with a Jupyter Notebook GUI, or as a slimmer version in a Galaxy distribution. PMID:26335558

  10. Latin America Today: An Atlas of Reproducible Pages. Revised Edition.

    ERIC Educational Resources Information Center

    World Eagle, Inc., Wellesley, MA.

    This document contains reproducible maps, charts and graphs of Latin America for use by teachers and students. The maps are divided into five categories (1) the land; (2) peoples, countries, cities, and governments; (3) the national economies, product, trade, agriculture, and resources; (4) energy, education, employment, illicit drugs, consumer…

  11. Reproducibility of polycarbonate reference material in toxicity evaluation

    NASA Technical Reports Server (NTRS)

    Hilado, C. J.; Huttlinger, P. A.

    1981-01-01

    A specific lot of bisphenol A polycarbonate has been used for almost four years as the reference material for the NASA-USF-PSC toxicity screening test method. The reproducibility of the test results over this period of time indicate that certain plastics may be more suitable reference materials than the more traditional cellulosic materials.

  12. 46 CFR 56.30-3 - Piping joints (reproduces 110).

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 46 Shipping 2 2010-10-01 2010-10-01 false Piping joints (reproduces 110). 56.30-3 Section 56.30-3 Shipping COAST GUARD, DEPARTMENT OF HOMELAND SECURITY (CONTINUED) MARINE ENGINEERING PIPING SYSTEMS AND... joint tightness, mechanical strength and the nature of the fluid handled....

  13. Slide rule-type color chart predicts reproduced photo tones

    NASA Technical Reports Server (NTRS)

    Griffin, J. D.

    1966-01-01

    Slide rule-type color chart determines the final reproduced gray tones in the production of briefing charts that are photographed in black and white. The chart shows both the color by drafting paint manufacturers name and mixture number, and the gray tone resulting from black and white photographic reproduction.

  14. The reproducibility of dipping status: beyond the cutoff points.

    PubMed

    Chaves, Hilton; Campello de Souza, Fernando Menezes; Krieger, Eduardo Moacyr

    2005-08-01

    A limited reproducibility has been ascribed to 24-h ambulatory blood pressure monitoring, especially in relation to the dipper and nondipper phenomena. This study examined the reproducibility of 24-h ambulatory blood pressure monitoring in three recordings of pressure at intervals of 8-15 days in 101 study participants (73% treated hypertensive patients) residing in the city of Recife, Pernambuco, Brazil. SpaceLabs 90207 monitors were used, and the minimum number of valid measurements was 80. No significant differences were found between the mean systolic and diastolic pressures, between the second and third recordings when the normotensive and hypertensive patients were assessed jointly (P=0.44). Likewise, no significant differences were present when the normotensive patients were analyzed separately (P=0.96). In the hypertensive group, a significant difference existed between only the first and second ambulatory blood pressure readings (135.1 vs. 132.9 mmHg, respectively; P=0.0005). Regarding declines in pressure during sleep, no significant differences occurred when continuous percentage values were considered (P=0.27). The values obtained from 24-h ambulatory blood pressure monitoring are reproducible when tested at intervals of 8-15 days. Small differences, when significantly present, always involved the first ambulatory blood pressure monitoring. The reproducibility of the dipper and nondipper patterns is of greater complexity because it considers cutoff points rather than continuous ones to characterize these states. PMID:16077266

  15. A simple and reproducible breast cancer prognostic test

    PubMed Central

    2013-01-01

    Background A small number of prognostic and predictive tests based on gene expression are currently offered as reference laboratory tests. In contrast to such success stories, a number of flaws and errors have recently been identified in other genomic-based predictors and the success rate for developing clinically useful genomic signatures is low. These errors have led to widespread concerns about the protocols for conducting and reporting of computational research. As a result, a need has emerged for a template for reproducible development of genomic signatures that incorporates full transparency, data sharing and statistical robustness. Results Here we present the first fully reproducible analysis of the data used to train and test MammaPrint, an FDA-cleared prognostic test for breast cancer based on a 70-gene expression signature. We provide all the software and documentation necessary for researchers to build and evaluate genomic classifiers based on these data. As an example of the utility of this reproducible research resource, we develop a simple prognostic classifier that uses only 16 genes from the MammaPrint signature and is equally accurate in predicting 5-year disease free survival. Conclusions Our study provides a prototypic example for reproducible development of computational algorithms for learning prognostic biomarkers in the era of personalized medicine. PMID:23682826

  16. Reproducibility of topographic measures of the glaucomatous optic nerve head

    PubMed Central

    Geyer, O; Michaeli-Cohen, A; Silver, D; Versano, D; Neudorfer, M; Dzhanov, R; Lazar, M

    1998-01-01

    AIMS/BACKGROUND—Laser scanning tomography provides an assessment of three dimensional optic disc topography. For the clinical purpose of follow up of glaucoma patients, the repeatability of the various measured variables is essential. In the present study, the reproducibility of morphometric variables calculated by the topographic scanning system, TopSS (Laser Diagnostic Technology, San Diego, CA) was investigated.
METHODS—Two independent measurements (30 minutes apart) each consisting of three complete images of the optic disc were performed on 16 eyes of 16 glaucoma patients using a TopSS. The instrument calculates 14 morphometric variables for the characterisation of the optic disc.
RESULTS—From the two tailed paired tests, all variables were seen to have good reproducibility. However, correlation and regression analyses showed that only the three variables, volume below, half depth area, and average cup depth, are acceptably reproducible.
CONCLUSION—The TopSS provides three variables which describe the physiological shape of the optic disc that have high reproducibility. These three variables might be useful for following the progression of optic disc changes in glaucoma patients.

 Keywords: optic nerve head; scanning laser; glaucoma; tomography PMID:9536873

  17. The United States Today: An Atlas of Reproducible Pages.

    ERIC Educational Resources Information Center

    World Eagle, Inc., Wellesley, MA.

    Black and white maps, graphs and tables that may be reproduced are presented in this volume focusing on the United States. Some of the features of the United States depicted are: size, population, agriculture and resources, manufactures, trade, citizenship, employment, income, poverty, the federal budget, energy, health, education, crime, and the…

  18. Reproducibility of Tactile Assessments for Children with Unilateral Cerebral Palsy

    ERIC Educational Resources Information Center

    Auld, Megan Louise; Ware, Robert S.; Boyd, Roslyn Nancy; Moseley, G. Lorimer; Johnston, Leanne Marie

    2012-01-01

    A systematic review identified tactile assessments used in children with cerebral palsy (CP), but their reproducibility is unknown. Sixteen children with unilateral CP and 31 typically developing children (TDC) were assessed 2-4 weeks apart. Test-retest percent agreements within one point for children with unilateral CP (and TDC) were…

  19. Characterizing the thermal infrared spectral effects of optically thin surface dust: Implications for remote-sensing and in situ measurements of the martian surface

    NASA Astrophysics Data System (ADS)

    Rivera-Hernandez, Frances; Bandfield, Joshua L.; Ruff, Steven W.; Wolff, Michael J.

    2015-12-01

    A spectral contribution different from that observed for thick dust mantles has been identified in many of the in situ measurements of rocks and regolith acquired by the Miniature Thermal Emission Spectrometer (Mini-TES) instruments on the Mars Exploration Rovers (MER). This spectral contribution is thought to be caused by optically thin surface dust and if not corrected can greatly hinder the mineralogical interpretation of rock surfaces. The focus of this study is the characterization of key radiative processes that are necessary to understand the spectral contributions produced by optically thin surface dust. An understanding of these radiative processes is important to be able to reproduce, predict, and correct their contribution in thermal infrared (TIR; ∼200-2000 cm-1; 5-50 μm) datasets. By combining TIR spectroscopic laboratory measurements and radiative transfer (RT) modeling, we have reproduced and quantified the spectral contributions produced by optically thin surface dust in the TIR spectral range. TIR laboratory measurements were acquired of basaltic rocks and gold diffuse reflectors (GDR) mantled with varying amounts of optically thin dust. The spectral contributions of optically thin dust as observed by Mini-TES were not observed in the laboratory measurements of the dusty basaltic rocks, but were observed in the measurements of the dusty GDR's. For the dust to contribute spectral features the dust must maintain a thermal contrast with the underlying surface. This thermal contrast was not achieved for the dusty basaltic rocks. Using our RT model, laboratory spectra of the dusty basaltic rocks and GDR's were reproduced. Our RT model appears to reproduce the spectral features attributed to the dust in the laboratory measurements to first order and can quantify the relationship between dust coatings and measured radiance. After validating the RT model against the TIR laboratory measurements, it was then used in an initial application to reproduce

  20. Tract Specific Reproducibility of Tractography Based Morphology and Diffusion Metrics

    PubMed Central

    Besseling, René M. H.; Jansen, Jacobus F. A.; Overvliet, Geke M.; Vaessen, Maarten J.; Braakman, Hilde M. H.; Hofman, Paul A. M.; Aldenkamp, Albert P.; Backes, Walter H.

    2012-01-01

    Introduction The reproducibility of tractography is important to determine its sensitivity to pathological abnormalities. The reproducibility of tract morphology has not yet been systematically studied and the recently developed tractography contrast Tract Density Imaging (TDI) has not yet been assessed at the tract specific level. Materials and Methods Diffusion tensor imaging (DTI) and probabilistic constrained spherical deconvolution (CSD) tractography are performed twice in 9 healthy subjects. Tractography is based on common space seed and target regions and performed for several major white matter tracts. Tractograms are converted to tract segmentations and inter-session reproducibility of tract morphology is assessed using Dice similarity coefficient (DSC). The coefficient of variation (COV) and intraclass correlation coefficient (ICC) are calculated of the following tract metrics: fractional anisotropy (FA), apparent diffusion coefficient (ADC), volume, and TDI. Analyses are performed both for proximal (deep white matter) and extended (including subcortical white matter) tract segmentations. Results Proximal DSC values were 0.70–0.92. DSC values were 5–10% lower in extended compared to proximal segmentations. COV/ICC values of FA, ADC, volume and TDI were 1–4%/0.65–0.94, 2–4%/0.62–0.94, 3–22%/0.53–0.96 and 8–31%/0.48–0.70, respectively, with the lower COV and higher ICC values found in the proximal segmentations. Conclusion For all investigated metrics, reproducibility depended on the segmented tract. FA and ADC had relatively low COV and relatively high ICC, indicating clinical potential. Volume had higher COV but its moderate to high ICC values in most tracts still suggest subject-differentiating power. Tract TDI had high COV and relatively low ICC, which reflects unfavorable reproducibility. PMID:22485157

  1. Reproducibility of dual-photon absorptiometry using a clinical phantom

    SciTech Connect

    DaCosta, M.; DeLaney, M.; Goldsmith, S.J.

    1985-05-01

    The use of dual-photon absorptiometry (DPA) bone mineral density (BMD) to monitor bone for diagnosis and monitoring therapy of osteoporosis has been established. The objective of this study is to determine the reproducibility of DPA measurements. A phantom was constructed using a section of human boney pelvis and lumbo-sacral spine. Provisions were made to mimic changes in patient girth. To evaluate the DPA reproducibility within a single day, 12 consecutive studies were performed on the phantom using standard acquisition and processing procedures. The mean BMD +-1 SD in gms/cm/sup 2/ (BMD-bar)of lumbar vertebrae 2-4 was 0.771 +- 0.007 with a 0.97% coefficient of variation (1SD) (CV). This evaluation was repeated 7 times over the next 4 months with the performance of 3 to 6 studies each time, the maximum CV found was 1.93. In order to evaluate the DPA reproducibility with time, phantom studies were performed over a 7 month period which included a 153-Gd source change. The BMD-bar was 0.770 +- 0.017 with a 2.15CV. DPA reproducibility with patient girth changes was evaluated by performing the phantom studies at water depths of 12.5, 17.0 and 20.0cm. Five studies of each were performed using standard acquisition and processing procedures. The BMD-bar was 0.779 +- 0.012 with a 1.151CV. based on these results, BMD measurements by DPA are reproducible within 2%. This reliability is maintained for studies performed over extended period of time and are independent of changes in patient girth.

  2. Nanosecond structural visualization of the reproducibility of polarization switching in ferroelectrics.

    SciTech Connect

    Grigoriev, A.; Do, D. H.; Kim, D. M.; Eom, C. B.; Evans, P. G.; Adams, B. W.; Dufresne, E. M.; Univ. of Wisconsin at Madison

    2006-01-01

    As the polarization of a ferroelectric thin film reverses in response to an applied electric field, concomitant structural changes can be visualized using time-resolved x-ray microdiffraction. We report the details of this visualization approach and discuss the structural signature of polarization switching measured by time-resolved x-ray diffraction. The dynamics associated with polarization switching in ferroelectric devices have received continuous theoretical and experimental attention since the discovery of the remnant polarization of ferroelectric oxides. Even though the basic phenomena of domain nucleation and domain wall motion are reasonably well parameterized by conventional models, several important questions remain. For example, the relative importance of domain wall motion and nucleation, the scaling of domain wall velocities with the applied electric field, and ultimately the speed at which devices can be switched are not well known. The degree of repeatability of the domain wall dynamics from cycle to cycle of the electric field depends on these phenomena, and can be used to understand which processes are relevant in switching. Here we address the homogeneity and reproducibility of polarization switching in thin ferroelectric Pb(Zr,Ti)O{sub 3} (PZT) films using time-resolved x-ray microdiffraction.

  3. Validity and reproducibility of a food frequency questionnaire to assess food group intake in adolescents.

    PubMed

    Martinez, Marcelle Flores; Philippi, Sonia Tucunduva; Estima, Camilla; Leal, Greisse

    2013-09-01

    The objective of this study was to assess the validity and reproducibility of a food frequency questionnaire to assess intake of the food groups included in the food guide pyramid for adolescents (FFQ-FP). The final version of the FFQ-FP consisted of 50 food items. The study was carried out with a sample of 109 adolescents over a period of four months. A 24hr recall (24hr) was conducted four times and the FFQ-FP was conducted twice. Validity was determined by comparing the second FFQ-FP and the mean of the four 24hrs, while reproducibility was verified by comparing the results of the two FFQ-FPs. Statistical analysis was carried out using medians, standard deviations, Pearson and intraclass correlations and Kappa statistics to assess concordance. Best results were achieved for the rice (including bread, grains and starches), meats and sugars groups. Weakest correlation was observed for the variable vitamin C. The validity and reproducibility of the FFQ-FP was satisfactory for most variables. PMID:24068225

  4. Validity and reproducibility of a food frequency questionnaire to assess food group intake in adolescents.

    PubMed

    Martinez, Marcelle Flores; Philippi, Sonia Tucunduva; Estima, Camilla; Leal, Greisse

    2013-09-01

    The objective of this study was to assess the validity and reproducibility of a food frequency questionnaire to assess intake of the food groups included in the food guide pyramid for adolescents (FFQ-FP). The final version of the FFQ-FP consisted of 50 food items. The study was carried out with a sample of 109 adolescents over a period of four months. A 24hr recall (24hr) was conducted four times and the FFQ-FP was conducted twice. Validity was determined by comparing the second FFQ-FP and the mean of the four 24hrs, while reproducibility was verified by comparing the results of the two FFQ-FPs. Statistical analysis was carried out using medians, standard deviations, Pearson and intraclass correlations and Kappa statistics to assess concordance. Best results were achieved for the rice (including bread, grains and starches), meats and sugars groups. Weakest correlation was observed for the variable vitamin C. The validity and reproducibility of the FFQ-FP was satisfactory for most variables.

  5. The presentation of plastic surgery visual data from 1816 to 1916: The evolution of reproducible results.

    PubMed

    Freshwater, M Felix

    2016-09-01

    All scientific data should be presented with sufficient accuracy and precision so that they can be both analyzed properly and reproduced. Visual data are the foundation upon which plastic surgeons advance knowledge. We use visual data to achieve reproducible results by discerning details of procedures and differences between pre- and post-surgery images. This review highlights how the presentation of visual data evolved from 1816, when Joseph Carpue published his book on nasal reconstruction to 1916, when Captain Harold Gillies began to treat over 2000 casualties from the Battle of the Somme. It shows the frailties of human nature that led some authors such as Carl von Graefe, Joseph Pancoast and Thomas Mutter to record inaccurate methods or results that could not be reproduced, and what measures other authors such as Eduard Zeis, Johann Dieffenbach, and Gurdon Buck took to affirm the accuracy of their results. It shows how photography gradually supplanted illustration as a reference standard. Finally, it shows the efforts that some authors and originators took to authenticate and preserve their visual data in what can be considered the forerunners of clinical registries.

  6. Standardization of Hemagglutination Inhibition Assay for Influenza Serology Allows for High Reproducibility between Laboratories.

    PubMed

    Zacour, Mary; Ward, Brian J; Brewer, Angela; Tang, Patrick; Boivin, Guy; Li, Yan; Warhuus, Michelle; McNeil, Shelly A; LeBlanc, Jason J; Hatchette, Todd F

    2016-03-01

    Standardization of the hemagglutination inhibition (HAI) assay for influenza serology is challenging. Poor reproducibility of HAI results from one laboratory to another is widely cited, limiting comparisons between candidate vaccines in different clinical trials and posing challenges for licensing authorities. In this study, we standardized HAI assay materials, methods, and interpretive criteria across five geographically dispersed laboratories of a multidisciplinary influenza research network and then evaluated intralaboratory and interlaboratory variations in HAI titers by repeatedly testing standardized panels of human serum samples. Duplicate precision and reproducibility from comparisons between assays within laboratories were 99.8% (99.2% to 100%) and 98.0% (93.3% to 100%), respectively. The results for 98.9% (95% to 100%) of the samples were within 2-fold of all-laboratory consensus titers, and the results for 94.3% (85% to 100%) of the samples were within 2-fold of our reference laboratory data. Low-titer samples showed the greatest variability in comparisons between assays and between sites. Classification of seroprotection (titer ≥ 40) was accurate in 93.6% or 89.5% of cases in comparison to the consensus or reference laboratory classification, respectively. This study showed that with carefully chosen standardization processes, high reproducibility of HAI results between laboratories is indeed achievable. PMID:26818953

  7. Comparing Science Achievement Constructs: Targeted and Achieved

    ERIC Educational Resources Information Center

    Ferrara, Steve; Duncan, Teresa

    2011-01-01

    This article illustrates how test specifications based solely on academic content standards, without attention to other cognitive skills and item response demands, can fall short of their targeted constructs. First, the authors inductively describe the science achievement construct represented by a statewide sixth-grade science proficiency test.…

  8. Mobility and Reading Achievement.

    ERIC Educational Resources Information Center

    Waters, Theresa Z.

    A study examined the effect of geographic mobility on elementary school students' achievement. Although such mobility, which requires students to make multiple moves among schools, can have a negative impact on academic achievement, the hypothesis for the study was that it was not a determining factor in reading achievement test scores. Subjects…

  9. A mechanism to thin the continental lithosphere at magma-poor margins.

    PubMed

    Lavier, Luc L; Manatschal, Gianreto

    2006-03-16

    Where continental plates break apart, slip along multiple normal faults provides the required space for the Earth's crust to thin and subside. After initial rifting, however, the displacement on normal faults observed at the sea floor seems not to match the inferred extension. Here we show that crustal thinning can be accomplished in such extensional environments by a system of conjugate concave downward faults instead of multiple normal faults. Our model predicts that these concave faults accumulate large amounts of extension and form a very thin crust (< 10 km) by exhumation of mid-crustal and mantle material. This transitional crust is capped by sub-horizontal detachment surfaces over distances exceeding 100 km with little visible deformation. Our rift model is based on numerical experiments constrained by geological and geophysical observations from the Alpine Tethys and Iberia/Newfoundland margins. Furthermore, we suggest that the observed transition from broadly distributed and symmetric extension to localized and asymmetric rifting is directly controlled by the existence of a strong gabbroic lower crust. The presence of such lower crustal gabbros is well constrained for the Alpine Tethys system. Initial decoupling of upper crustal deformation from lower crustal and mantle deformation by progressive weakening of the middle crust is an essential requirement to reproduce the observed rift evolution. This is achieved in our models by the formation of weak ductile shear zones.

  10. Low-temperature processable amorphous In-W-O thin-film transistors with high mobility and stability

    SciTech Connect

    Kizu, Takio; Aikawa, Shinya; Mitoma, Nobuhiko; Shimizu, Maki; Gao, Xu; Lin, Meng-Fang; Tsukagoshi, Kazuhito; Nabatame, Toshihide

    2014-04-14

    Thin-film transistors (TFTs) with a high stability and a high field-effect mobility have been achieved using W-doped indium oxide semiconductors in a low-temperature process (∼150 °C). By incorporating WO{sub 3} into indium oxide, TFTs that were highly stable under a negative bias stress were reproducibly achieved without high-temperature annealing, and the degradation of the field-effect mobility was not pronounced. This may be due to the efficient suppression of the excess oxygen vacancies in the film by the high dissociation energy of the bond between oxygen and W atoms and to the different charge states of W ions.

  11. Composting in small laboratory pilots: Performance and reproducibility

    SciTech Connect

    Lashermes, G.; Barriuso, E.; Le Villio-Poitrenaud, M.; Houot, S.

    2012-02-15

    Highlights: Black-Right-Pointing-Pointer We design an innovative small-scale composting device including six 4-l reactors. Black-Right-Pointing-Pointer We investigate the performance and reproducibility of composting on a small scale. Black-Right-Pointing-Pointer Thermophilic conditions are established by self-heating in all replicates. Black-Right-Pointing-Pointer Biochemical transformations, organic matter losses and stabilisation are realistic. Black-Right-Pointing-Pointer The organic matter evolution exhibits good reproducibility for all six replicates. - Abstract: Small-scale reactors (<10 l) have been employed in composting research, but few attempts have assessed the performance of composting considering the transformations of organic matter. Moreover, composting at small scales is often performed by imposing a fixed temperature, thus creating artificial conditions, and the reproducibility of composting has rarely been reported. The objectives of this study are to design an innovative small-scale composting device safeguarding self-heating to drive the composting process and to assess the performance and reproducibility of composting in small-scale pilots. The experimental setup included six 4-l reactors used for composting a mixture of sewage sludge and green wastes. The performance of the process was assessed by monitoring the temperature, O{sub 2} consumption and CO{sub 2} emissions, and characterising the biochemical evolution of organic matter. A good reproducibility was found for the six replicates with coefficients of variation for all parameters generally lower than 19%. An intense self-heating ensured the existence of a spontaneous thermophilic phase in all reactors. The average loss of total organic matter (TOM) was 46% of the initial content. Compared to the initial mixture, the hot water soluble fraction decreased by 62%, the hemicellulose-like fraction by 68%, the cellulose-like fraction by 50% and the lignin-like fractions by 12% in the final

  12. Multifrequency super-thin cloaks

    NASA Astrophysics Data System (ADS)

    Wang, Jiafu; Qu, Shaobo; Xu, Zhuo; Zhang, Anxue; Ma, Hua; Zhang, Jieqiu; Chen, Hongya; Feng, Mingde

    2014-04-01

    Bandwidth and thickness have become the most troublesome problems for EM cloaks. In this paper, we propose to solve the two problems using connected patches based on the microwave network model. By covering an obstacle with combined connected patches, cloaking effect can be achieved at multiple frequencies so as to expand the operating band. As an explicit example, a dual-band super-thin cloak using two different connected patch unit cells is demonstrated. Cloaking effect can be achieved at 3.50 GHz and 4.14 GHz simultaneously with an 8 dB transmission enhancement. The cloak design method provides a new route to broadening the bandwidth of thin EM cloaks.

  13. Additive Manufacturing of 17-4 PH Stainless Steel: Post-processing Heat Treatment to Achieve Uniform Reproducible Microstructure

    NASA Astrophysics Data System (ADS)

    Cheruvathur, Sudha; Lass, Eric A.; Campbell, Carelyn E.

    2016-03-01

    17-4 precipitation hardenable (PH) stainless steel is a useful material when a combination of high strength and good corrosion resistance up to about 315°C is required. In the wrought form, this steel has a fully martensitic structure that can be strengthened by precipitation of fine Cu-rich face-centered cubic phase upon aging. When fabricated via additive manufacturing (AM), specifically laser powder-bed fusion, 17-4 PH steel exhibits a dendritic structure containing a substantial fraction of nearly 50% of retained austenite along with body centered cubic/martensite and fine niobium carbides preferentially aligned along interdendritic boundaries. The effect of post-build thermal processing on the material microstructure is studied in comparison to that of conventionally produced wrought 17-4 PH with the intention of creating a more uniform, fully martensitic microstructure. The recommended stress relief heat treatment currently employed in industry for post-processing of AM 17-4 PH steel is found to have little effect on the as-built dendritic microstructure. It is found that, by implementing the recommended homogenization heat treatment regimen of Aerospace Materials Specification 5355 for CB7Cu-1, a casting alloy analog to 17-4 PH, the dendritic solidification structure is eliminated, resulting in a microstructure containing about 90% martensite with 10% retained austenite.

  14. An exploration of graph metric reproducibility in complex brain networks

    PubMed Central

    Telesford, Qawi K.; Burdette, Jonathan H.; Laurienti, Paul J.

    2013-01-01

    The application of graph theory to brain networks has become increasingly popular in the neuroimaging community. These investigations and analyses have led to a greater understanding of the brain's complex organization. More importantly, it has become a useful tool for studying the brain under various states and conditions. With the ever expanding popularity of network science in the neuroimaging community, there is increasing interest to validate the measurements and calculations derived from brain networks. Underpinning these studies is the desire to use brain networks in longitudinal studies or as clinical biomarkers to understand changes in the brain. A highly reproducible tool for brain imaging could potentially prove useful as a clinical tool. In this review, we examine recent studies in network reproducibility and their implications for analysis of brain networks. PMID:23717257

  15. Properties of galaxies reproduced by a hydrodynamic simulation.

    PubMed

    Vogelsberger, M; Genel, S; Springel, V; Torrey, P; Sijacki, D; Xu, D; Snyder, G; Bird, S; Nelson, D; Hernquist, L

    2014-05-01

    Previous simulations of the growth of cosmic structures have broadly reproduced the 'cosmic web' of galaxies that we see in the Universe, but failed to create a mixed population of elliptical and spiral galaxies, because of numerical inaccuracies and incomplete physical models. Moreover, they were unable to track the small-scale evolution of gas and stars to the present epoch within a representative portion of the Universe. Here we report a simulation that starts 12 million years after the Big Bang, and traces 13 billion years of cosmic evolution with 12 billion resolution elements in a cube of 106.5 megaparsecs a side. It yields a reasonable population of ellipticals and spirals, reproduces the observed distribution of galaxies in clusters and characteristics of hydrogen on large scales, and at the same time matches the 'metal' and hydrogen content of galaxies on small scales.

  16. Implementation of a portable and reproducible parallel pseudorandom number generator

    SciTech Connect

    Pryor, D.V.; Cuccaro, S.A.; Mascagni, M.; Robinson, M.L.

    1994-12-31

    The authors describe in detail the parallel implementation of a family of additive lagged-Fibonacci pseudorandom number generators. The theoretical structure of these generators is exploited to preserve their well-known randomness properties and to provide a parallel system in of distinct cycles. The algorithm presented here solves the reproducibility problem for a far larger class of parallel Monte Carlo applications than has been previously possible. In particular, Monte Carlo applications that undergo ``splitting`` can be coded to be reproducible, independent both of the number of processors and the execution order of the parallel processes. A library of portable C routines (available from the authors) that implements these ideas is also described.

  17. Reproducibility of Mammography Units, Film Processing and Quality Imaging

    NASA Astrophysics Data System (ADS)

    Gaona, Enrique

    2003-09-01

    The purpose of this study was to carry out an exploratory survey of the problems of quality control in mammography and processors units as a diagnosis of the current situation of mammography facilities. Measurements of reproducibility, optical density, optical difference and gamma index are included. Breast cancer is the most frequently diagnosed cancer and is the second leading cause of cancer death among women in the Mexican Republic. Mammography is a radiographic examination specially designed for detecting breast pathology. We found that the problems of reproducibility of AEC are smaller than the problems of processors units because almost all processors fall outside of the acceptable variation limits and they can affect the mammography quality image and the dose to breast. Only four mammography units agree with the minimum score established by ACR and FDA for the phantom image.

  18. Reproducing kernel particle method for free and forced vibration analysis

    NASA Astrophysics Data System (ADS)

    Zhou, J. X.; Zhang, H. Y.; Zhang, L.

    2005-01-01

    A reproducing kernel particle method (RKPM) is presented to analyze the natural frequencies of Euler-Bernoulli beams as well as Kirchhoff plates. In addition, RKPM is also used to predict the forced vibration responses of buried pipelines due to longitudinal travelling waves. Two different approaches, Lagrange multipliers as well as transformation method , are employed to enforce essential boundary conditions. Based on the reproducing kernel approximation, the domain of interest is discretized by a set of particles without the employment of a structured mesh, which constitutes an advantage over the finite element method. Meanwhile, RKPM also exhibits advantages over the classical Rayleigh-Ritz method and its counterparts. Numerical results presented here demonstrate the effectiveness of this novel approach for both free and forced vibration analysis.

  19. Reproducible analyses of microbial food for advanced life support systems

    NASA Technical Reports Server (NTRS)

    Petersen, Gene R.

    1988-01-01

    The use of yeasts in controlled ecological life support systems (CELSS) for microbial food regeneration in space required the accurate and reproducible analysis of intracellular carbohydrate and protein levels. The reproducible analysis of glycogen was a key element in estimating overall content of edibles in candidate yeast strains. Typical analytical methods for estimating glycogen in Saccharomyces were not found to be entirely aplicable to other candidate strains. Rigorous cell lysis coupled with acid/base fractionation followed by specific enzymatic glycogen analyses were required to obtain accurate results in two strains of Candida. A profile of edible fractions of these strains was then determined. The suitability of yeasts as food sources in CELSS food production processes is discussed.

  20. Properties of galaxies reproduced by a hydrodynamic simulation.

    PubMed

    Vogelsberger, M; Genel, S; Springel, V; Torrey, P; Sijacki, D; Xu, D; Snyder, G; Bird, S; Nelson, D; Hernquist, L

    2014-05-01

    Previous simulations of the growth of cosmic structures have broadly reproduced the 'cosmic web' of galaxies that we see in the Universe, but failed to create a mixed population of elliptical and spiral galaxies, because of numerical inaccuracies and incomplete physical models. Moreover, they were unable to track the small-scale evolution of gas and stars to the present epoch within a representative portion of the Universe. Here we report a simulation that starts 12 million years after the Big Bang, and traces 13 billion years of cosmic evolution with 12 billion resolution elements in a cube of 106.5 megaparsecs a side. It yields a reasonable population of ellipticals and spirals, reproduces the observed distribution of galaxies in clusters and characteristics of hydrogen on large scales, and at the same time matches the 'metal' and hydrogen content of galaxies on small scales. PMID:24805343

  1. MASSIVE DATA, THE DIGITIZATION OF SCIENCE, AND REPRODUCIBILITY OF RESULTS

    SciTech Connect

    2010-07-02

    As the scientific enterprise becomes increasingly computational and data-driven, the nature of the information communicated must change. Without inclusion of the code and data with published computational results, we are engendering a credibility crisis in science. Controversies such as ClimateGate, the microarray-based drug sensitivity clinical trials under investigation at Duke University, and retractions from prominent journals due to unverified code suggest the need for greater transparency in our computational science. In this talk I argue that the scientific method be restored to (1) a focus on error control as central to scientific communication and (2) complete communication of the underlying methodology producing the results, ie. reproducibility. I outline barriers to these goals based on recent survey work (Stodden 2010), and suggest solutions such as the “Reproducible Research Standard” (Stodden 2009), giving open licensing options designed to create an intellectual property framework for scientists consonant with longstanding scientific norms.

  2. MASSIVE DATA, THE DIGITIZATION OF SCIENCE, AND REPRODUCIBILITY OF RESULTS

    ScienceCinema

    None

    2016-07-12

    As the scientific enterprise becomes increasingly computational and data-driven, the nature of the information communicated must change. Without inclusion of the code and data with published computational results, we are engendering a credibility crisis in science. Controversies such as ClimateGate, the microarray-based drug sensitivity clinical trials under investigation at Duke University, and retractions from prominent journals due to unverified code suggest the need for greater transparency in our computational science. In this talk I argue that the scientific method be restored to (1) a focus on error control as central to scientific communication and (2) complete communication of the underlying methodology producing the results, ie. reproducibility. I outline barriers to these goals based on recent survey work (Stodden 2010), and suggest solutions such as the “Reproducible Research Standard” (Stodden 2009), giving open licensing options designed to create an intellectual property framework for scientists consonant with longstanding scientific norms.

  3. Intersubject variability and reproducibility of 15O PET studies.

    PubMed

    Coles, Jonathan P; Fryer, Tim D; Bradley, Peter G; Nortje, Jurgens; Smielewski, Peter; Rice, Kenneth; Clark, John C; Pickard, John D; Menon, David K

    2006-01-01

    Oxygen-15 positron emission tomography (15O PET) can provide important data regarding patients with head injury. We provide reference data on intersubject variability and reproducibility of cerebral blood flow (CBF), cerebral blood volume (CBV), cerebral metabolism (CMRO2) and oxygen extraction fraction (OEF) in patients and healthy controls, and explored alternative ways of assessing reproducibility within the context of a single PET study. In addition, we used independent measurements of CBF and CMRO2 to investigate the effect of mathematical correlation on the relationship between flow and metabolism. In patients, intersubject coefficients of variation (CoV) for CBF, CMRO2 and OEF were larger than in controls (32.9%+/-2.2%, 23.2%+/-2.0% and 22.5%+/-3.4% versus 13.5%+/-1.4%, 12.8%+/-1.1% and 7.3%+/-1.2%), while CoV for CBV were lower (15.2%+/-2.1% versus 22.5%+/-2.8%) (P<0.001). The CoV for the test-retest reproducibility of CBF, CBV, CMRO2 and OEF in patients were 2.1%+/-1.5%, 3.8%+/-3.0%, 3.7%+/-3.0% and 4.6%+/-3.5%, respectively. These were much lower than the intersubject CoV figures, and were similar to alternative measures of reproducibility obtained by fractionating data from a single study. The physiological relationship between flow and metabolism was preserved even when mathematically independent measures were used for analysis. These data provide a context for the design and interpretation of interventional PET studies. While ideally each centre should develop its own bank of such data, the figures provided will allow initial generic approximations of sample size for such studies.

  4. Composting in small laboratory pilots: performance and reproducibility.

    PubMed

    Lashermes, G; Barriuso, E; Le Villio-Poitrenaud, M; Houot, S

    2012-02-01

    Small-scale reactors (<10 l) have been employed in composting research, but few attempts have assessed the performance of composting considering the transformations of organic matter. Moreover, composting at small scales is often performed by imposing a fixed temperature, thus creating artificial conditions, and the reproducibility of composting has rarely been reported. The objectives of this study are to design an innovative small-scale composting device safeguarding self-heating to drive the composting process and to assess the performance and reproducibility of composting in small-scale pilots. The experimental setup included six 4-l reactors used for composting a mixture of sewage sludge and green wastes. The performance of the process was assessed by monitoring the temperature, O(2) consumption and CO(2) emissions, and characterising the biochemical evolution of organic matter. A good reproducibility was found for the six replicates with coefficients of variation for all parameters generally lower than 19%. An intense self-heating ensured the existence of a spontaneous thermophilic phase in all reactors. The average loss of total organic matter (TOM) was 46% of the initial content. Compared to the initial mixture, the hot water soluble fraction decreased by 62%, the hemicellulose-like fraction by 68%, the cellulose-like fraction by 50% and the lignin-like fractions by 12% in the final compost. The TOM losses, compost stabilisation and evolution of the biochemical fractions were similar to observed in large reactors or on-site experiments, excluding the lignin degradation, which was less important than in full-scale systems. The reproducibility of the process and the quality of the final compost make it possible to propose the use of this experimental device for research requiring a mass reduction of the initial composted waste mixtures. PMID:21982279

  5. Regulating Ultrasound Cavitation in order to Induce Reproducible Sonoporation

    NASA Astrophysics Data System (ADS)

    Mestas, J.-L.; Alberti, L.; El Maalouf, J.; Béra, J.-C.; Gilles, B.

    2010-03-01

    Sonoporation would be linked to cavitation, which generally appears to be a non reproducible and unstationary phenomenon. In order to obtain an acceptable trade-off between cell mortality and transfection, a regulated cavitation generator based on an acoustical cavitation measurement was developed and tested. The medium to be sonicated is placed in a sample tray. This tray is immersed in in degassed water and positioned above the face of a flat ultrasonic transducer (frequency: 445 kHz; intensity range: 0.08-1.09 W/cm2). This technical configuration was admitted to be conducive to standing-wave generation through reflection at the air/medium interface in the well thus enhancing the cavitation phenomenon. Laterally to the transducer, a homemade hydrophone was oriented to receive the acoustical signal from the bubbles. From this spectral signal recorded at intervals of 5 ms, a cavitation index was calculated as the mean of the cavitation spectrum integration in a logarithmic scale, and the excitation power is automatically corrected. The device generates stable and reproducible cavitation level for a wide range of cavitation setpoint from stable cavitation condition up to full-developed inertial cavitation. For the ultrasound intensity range used, the time delay of the response is lower than 200 ms. The cavitation regulation device was evaluated in terms of chemical bubble collapse effect. Hydroxyl radical production was measured on terephthalic acid solutions. In open loop, the results present a great variability whatever the excitation power. On the contrary the closed loop allows a great reproducibility. This device was implemented for study of sonodynamic effect. The regulation provides more reproducible results independent of cell medium and experimental conditions (temperature, pressure). Other applications of this regulated cavitation device concern internalization of different particles (Quantum Dot) molecules (SiRNA) or plasmids (GFP, DsRed) into different

  6. Highly reproducible Bragg grating acousto-ultrasonic contact transducers

    NASA Astrophysics Data System (ADS)

    Saxena, Indu Fiesler; Guzman, Narciso; Lieberman, Robert A.

    2014-09-01

    Fiber optic acousto-ultrasonic transducers offer numerous applications as embedded sensors for impact and damage detection in industrial and aerospace applications as well as non-destructive evaluation. Superficial contact transducers with a sheet of fiber optic Bragg gratings has been demonstrated for guided wave ultrasound based measurements. It is reported here that this method of measurement provides highly reproducible guided ultrasound data of the test composite component, despite the optical fiber transducers not being permanently embedded in it.

  7. Reproducing the assembly of massive galaxies within the hierarchical cosmogony

    NASA Astrophysics Data System (ADS)

    Fontanot, Fabio; Monaco, Pierluigi; Silva, Laura; Grazian, Andrea

    2007-12-01

    In order to gain insight into the physical mechanisms leading to the formation of stars and their assembly in galaxies, we compare the predictions of the MOdel for the Rise of GAlaxies aNd Active nuclei (MORGANA) to the properties of K- and 850-μm-selected galaxies (such as number counts, redshift distributions and luminosity functions) by combining MORGANA with the spectrophotometric model GRASIL. We find that it is possible to reproduce the K- and 850-μm-band data sets at the same time and with a standard Salpeter initial mass function, and ascribe this success to our improved modelling of cooling in DM haloes. We then predict that massively star-forming discs are common at z ~ 2 and dominate the star formation rate, but most of them merge with other galaxies within ~100 Myr. Our preferred model produces an overabundance of bright galaxies at z < 1; this overabundance might be connected to the build-up of the diffuse stellar component in galaxy clusters, as suggested by Monaco et al., but a naive implementation of the mechanism suggested in that paper does not produce a sufficient slowdown of the evolution of these objects. Moreover, our model overpredicts the number of 1010-1011Msolar galaxies at z ~ 1; this is a common behaviour of theoretical models as shown by Fontana et al.. These findings show that, while the overall build-up of the stellar mass is correctly reproduced by galaxy formation models, the `downsizing' trend of galaxies is not fully reproduced yet. This hints to some missing feedback mechanism in order to reproduce at the same time the formation of both the massive and the small galaxies.

  8. Reproducibility of graph metrics of human brain structural networks.

    PubMed

    Duda, Jeffrey T; Cook, Philip A; Gee, James C

    2014-01-01

    Recent interest in human brain connectivity has led to the application of graph theoretical analysis to human brain structural networks, in particular white matter connectivity inferred from diffusion imaging and fiber tractography. While these methods have been used to study a variety of patient populations, there has been less examination of the reproducibility of these methods. A number of tractography algorithms exist and many of these are known to be sensitive to user-selected parameters. The methods used to derive a connectivity matrix from fiber tractography output may also influence the resulting graph metrics. Here we examine how these algorithm and parameter choices influence the reproducibility of proposed graph metrics on a publicly available test-retest dataset consisting of 21 healthy adults. The dice coefficient is used to examine topological similarity of constant density subgraphs both within and between subjects. Seven graph metrics are examined here: mean clustering coefficient, characteristic path length, largest connected component size, assortativity, global efficiency, local efficiency, and rich club coefficient. The reproducibility of these network summary measures is examined using the intraclass correlation coefficient (ICC). Graph curves are created by treating the graph metrics as functions of a parameter such as graph density. Functional data analysis techniques are used to examine differences in graph measures that result from the choice of fiber tracking algorithm. The graph metrics consistently showed good levels of reproducibility as measured with ICC, with the exception of some instability at low graph density levels. The global and local efficiency measures were the most robust to the choice of fiber tracking algorithm.

  9. Mechanostructure and composition of highly reproducible decellularized liver matrices.

    PubMed

    Mattei, G; Di Patria, V; Tirella, A; Alaimo, A; Elia, G; Corti, A; Paolicchi, A; Ahluwalia, A

    2014-02-01

    Despite the increasing number of papers on decellularized scaffolds, there is little consensus on the optimum method of decellularizing biological tissue such that the micro-architecture and protein content of the matrix are conserved as far as possible. Focusing on the liver, the aim of this study was therefore to develop a method for the production of well-characterized and reproducible matrices that best preserves the structure and composition of the native extra cellular matrix (ECM). Given the importance of matrix stiffness in regulating cell response, the mechanical properties of the decellularized tissue were also considered. The testing and analysis framework is based on the characterization of decellularized and untreated samples in the same reproducible initial state (i.e., the equilibrium swollen state). Decellularized ECM (dECM) were characterized using biochemical, histological, mechanical and structural analyses to identify the best procedure to ensure complete cell removal while preserving most of the native ECM structure and composition. Using this method, sterile decellularized porcine ECM with highly conserved intra-lobular micro-structure and protein content were obtained in a consistent and reproducible manner using the equilibrium swollen state of tissue or matrix as a reference. A significant reduction in the compressive elastic modulus was observed for liver dECM with respect to native tissue, suggesting a re-examination of design parameters for ECM-mimicking scaffolds for engineering tissues in vitro.

  10. An evaluation of RAPD fragment reproducibility and nature.

    PubMed

    Pérez, T; Albornoz, J; Domínguez, A

    1998-10-01

    Random amplified polymorphic DNA (RAPD) fragment reproducibility was assayed in three animal species: red deer (Cervus elaphus), wild boar (Sus scrofa) and fruit fly (Drosophila melanogaster). Ten 10-mer primers (Operon) were tested in two replicate reactions per individual under different stringency conditions (annealing temperatures of 35 degrees C or 45 degrees C). Two estimates were generated from the data: autosimilarity, which tests the reproducibility of overall banding patterns, and band repeatability, which tests the reproducibility of specific bands. Autosimilarity (the similarity of individuals with themselves) was lower than 1 for all three species ranging between values of 0.66 for Drosophila at 45 degrees C and 0.88 for wild boar at 35 degrees C. Band repeatability was estimated as the proportion of individuals showing homologous bands in both replicates. The fraction of repeatable bands was 23% for deer, 36% for boar and 26% for fruit fly, all at an annealing temperature of 35 degrees C. Raising the annealing temperature did not improve repeatability. Phage lambda DNA was subjected to amplification and the pattern of bands compared with theoretical expectations based on nucleotide sequence. Observed fragments could not be related to expected ones, even if a 2 bp mismatch is allowed. Therefore, the nature of genetic variation uncovered by the RAPD method is unclear. These data demonstrate that prudence should guide inferences about population structure and nucleotide divergence based on RAPD markers. PMID:9787445

  11. Representativity and reproducibility of DNA malignancy grading in different carcinomas.

    PubMed

    Böcking, A; Chatelain, R; Homge, M; Daniel, R; Gillissen, A; Wohltmann, D

    1989-04-01

    The reproducibility of the determination of the "DNA malignancy grade" (DNA-MG) was tested in 56 carcinomas of the colon, breast and lung while its representativity was tested on 195 slides from 65 tumors of the colon, breast and lung. DNA measurements were performed on Feulgen-stained smears with the TAS Plus TV-based image analysis system combined with an automated microscope. The variance of the DNA values of tumor cells around the 2c peak, the "2c deviation index" (2cDI), was taken as a basis for the computation of the DNA-MG, which ranges on a continuous scale from 0.01 to 3.00. The representativity, analyzed by comparison of the DNA-MGs measured in three different areas of the same tumor greater than or equal to 1.5 cm apart from each other, yielded an 81% agreement. No significant differences between DNA-MGs of these areas were found. The intraobserver and interobserver reproducibilities of the DNA grading system, investigated by repeated DNA measurements, were 83.9% and 82.2%, respectively. In comparison, histopathologic grading of the 27 breast cancers studied yielded 65% intraobserver and 57% interobserver reproducibilities and 66% representativity.

  12. An evaluation of RAPD fragment reproducibility and nature.

    PubMed

    Pérez, T; Albornoz, J; Domínguez, A

    1998-10-01

    Random amplified polymorphic DNA (RAPD) fragment reproducibility was assayed in three animal species: red deer (Cervus elaphus), wild boar (Sus scrofa) and fruit fly (Drosophila melanogaster). Ten 10-mer primers (Operon) were tested in two replicate reactions per individual under different stringency conditions (annealing temperatures of 35 degrees C or 45 degrees C). Two estimates were generated from the data: autosimilarity, which tests the reproducibility of overall banding patterns, and band repeatability, which tests the reproducibility of specific bands. Autosimilarity (the similarity of individuals with themselves) was lower than 1 for all three species ranging between values of 0.66 for Drosophila at 45 degrees C and 0.88 for wild boar at 35 degrees C. Band repeatability was estimated as the proportion of individuals showing homologous bands in both replicates. The fraction of repeatable bands was 23% for deer, 36% for boar and 26% for fruit fly, all at an annealing temperature of 35 degrees C. Raising the annealing temperature did not improve repeatability. Phage lambda DNA was subjected to amplification and the pattern of bands compared with theoretical expectations based on nucleotide sequence. Observed fragments could not be related to expected ones, even if a 2 bp mismatch is allowed. Therefore, the nature of genetic variation uncovered by the RAPD method is unclear. These data demonstrate that prudence should guide inferences about population structure and nucleotide divergence based on RAPD markers.

  13. Reproducibility of LCA models of crude oil production.

    PubMed

    Vafi, Kourosh; Brandt, Adam R

    2014-11-01

    Scientific models are ideally reproducible, with results that converge despite varying methods. In practice, divergence between models often remains due to varied assumptions, incompleteness, or simply because of avoidable flaws. We examine LCA greenhouse gas (GHG) emissions models to test the reproducibility of their estimates for well-to-refinery inlet gate (WTR) GHG emissions. We use the Oil Production Greenhouse gas Emissions Estimator (OPGEE), an open source engineering-based life cycle assessment (LCA) model, as the reference model for this analysis. We study seven previous studies based on six models. We examine the reproducibility of prior results by successive experiments that align model assumptions and boundaries. The root-mean-square error (RMSE) between results varies between ∼1 and 8 g CO2 eq/MJ LHV when model inputs are not aligned. After model alignment, RMSE generally decreases only slightly. The proprietary nature of some of the models hinders explanations for divergence between the results. Because verification of the results of LCA GHG emissions is often not possible by direct measurement, we recommend the development of open source models for use in energy policy. Such practice will lead to iterative scientific review, improvement of models, and more reliable understanding of emissions.

  14. Git can facilitate greater reproducibility and increased transparency in science

    PubMed Central

    2013-01-01

    Background Reproducibility is the hallmark of good science. Maintaining a high degree of transparency in scientific reporting is essential not just for gaining trust and credibility within the scientific community but also for facilitating the development of new ideas. Sharing data and computer code associated with publications is becoming increasingly common, motivated partly in response to data deposition requirements from journals and mandates from funders. Despite this increase in transparency, it is still difficult to reproduce or build upon the findings of most scientific publications without access to a more complete workflow. Findings Version control systems (VCS), which have long been used to maintain code repositories in the software industry, are now finding new applications in science. One such open source VCS, Git, provides a lightweight yet robust framework that is ideal for managing the full suite of research outputs such as datasets, statistical code, figures, lab notes, and manuscripts. For individual researchers, Git provides a powerful way to track and compare versions, retrace errors, explore new approaches in a structured manner, while maintaining a full audit trail. For larger collaborative efforts, Git and Git hosting services make it possible for everyone to work asynchronously and merge their contributions at any time, all the while maintaining a complete authorship trail. In this paper I provide an overview of Git along with use-cases that highlight how this tool can be leveraged to make science more reproducible and transparent, foster new collaborations, and support novel uses. PMID:23448176

  15. Interrater reproducibility of clinical tests for rotator cuff lesions

    PubMed Central

    Ostor, A; Richards, C; Prevost, A; Hazleman, B; Speed, C

    2004-01-01

    Background: Rotator cuff lesions are common in the community but reproducibility of tests for shoulder assessment has not been adequately appraised and there is no uniform approach to their use. Objective: To study interrater reproducibility of standard tests for shoulder evaluation among a rheumatology specialist, rheumatology trainee, and research nurse. Methods: 136 patients were reviewed over 12 months at a major teaching hospital. The three assessors examined each patient in random order and were unaware of each other's evaluation. Each shoulder was examined in a standard manner by recognised tests for specific lesions and a diagnostic algorithm was used. Between-observer agreement was determined by calculating Cohen's κ coefficients (measuring agreement beyond that expected by chance). Results: Fair to substantial agreement was obtained for the observations of tenderness, painful arc, and external rotation. Tests for supraspinatus and subscapularis also showed at least fair agreement between observers. 40/55 (73%) κ coefficient assessments were rated at >0.2, indicating at least fair concordance between observers; 21/55 (38%) were rated at >0.4, indicating at least moderate concordance between observers. Conclusion: The reproducibility of certain tests, employed by observers of varying experience, in the assessment of the rotator cuff and general shoulder disease was determined. This has implications for delegation of shoulder assessment to nurse specialists, the development of a simplified evaluation schedule for general practitioners, and uniformity in epidemiological research studies. PMID:15361389

  16. Dosimetric algorithm to reproduce isodose curves obtained from a LINAC.

    PubMed

    Estrada Espinosa, Julio Cesar; Martínez Ovalle, Segundo Agustín; Pereira Benavides, Cinthia Kotzian

    2014-01-01

    In this work isodose curves are obtained by the use of a new dosimetric algorithm using numerical data from percentage depth dose (PDD) and the maximum absorbed dose profile, calculated by Monte Carlo in a 18 MV LINAC. The software allows reproducing the absorbed dose percentage in the whole irradiated volume quickly and with a good approximation. To validate results an 18 MV LINAC with a whole geometry and a water phantom were constructed. On this construction, the distinct simulations were processed by the MCNPX code and then obtained the PDD and profiles for the whole depths of the radiation beam. The results data were used by the code to produce the dose percentages in any point of the irradiated volume. The absorbed dose for any voxel's size was also reproduced at any point of the irradiated volume, even when the voxels are considered to be of a pixel's size. The dosimetric algorithm is able to reproduce the absorbed dose induced by a radiation beam over a water phantom, considering PDD and profiles, whose maximum percent value is in the build-up region. Calculation time for the algorithm is only a few seconds, compared with the days taken when it is carried out by Monte Carlo. PMID:25045398

  17. Dosimetric Algorithm to Reproduce Isodose Curves Obtained from a LINAC

    PubMed Central

    Estrada Espinosa, Julio Cesar; Martínez Ovalle, Segundo Agustín; Pereira Benavides, Cinthia Kotzian

    2014-01-01

    In this work isodose curves are obtained by the use of a new dosimetric algorithm using numerical data from percentage depth dose (PDD) and the maximum absorbed dose profile, calculated by Monte Carlo in a 18 MV LINAC. The software allows reproducing the absorbed dose percentage in the whole irradiated volume quickly and with a good approximation. To validate results an 18 MV LINAC with a whole geometry and a water phantom were constructed. On this construction, the distinct simulations were processed by the MCNPX code and then obtained the PDD and profiles for the whole depths of the radiation beam. The results data were used by the code to produce the dose percentages in any point of the irradiated volume. The absorbed dose for any voxel's size was also reproduced at any point of the irradiated volume, even when the voxels are considered to be of a pixel's size. The dosimetric algorithm is able to reproduce the absorbed dose induced by a radiation beam over a water phantom, considering PDD and profiles, whose maximum percent value is in the build-up region. Calculation time for the algorithm is only a few seconds, compared with the days taken when it is carried out by Monte Carlo. PMID:25045398

  18. Reproducibly estimating and evaluating supraglacial lake depth with Landsat 8 and other multispectral sensors

    NASA Astrophysics Data System (ADS)

    Pope, Allen

    2016-04-01

    Lakes which form on the surface of ice sheets (supraglacial lakes) play an important role in the ice sheet hydrological system, serving as temporary reservoirs for meltwater that can lead to ice fracture and associated ice flow speedups or ice shelf disintegration. Satellite imagery can be used to monitor the extent and volume of supraglacial lakes. In this study, we summarize and expand on methods for doing this that have been optimized for the multispectral imager aboard Landsat 8. This report fully documents the data and software (i.e., MATLAB and GDAL scripts) used in these analyses, linking citeable and freely accessible data (in ACADIS and Figshare) to published figures via shared (GitHub), described (OntoSoft), and citeable (Zenodo) code as described in a full provenance diagram. In addition, new water supraglacial volumes for the Sermeq Kujalleq (Jakobshavn) region for 2015 are presented and compared to results from 2014. Lakes in 2015 largely behaved similarly to 2014, with maxima and minima occurring in recurrent areas; disparate behavior is explained both by aliasing and interannual temperature variability. The challenges of achieving full openness, documentation, and reproducibility are discussed, as well as examples where higher standards of accessibility and provenance would have facilitated the original research. Still, the interdependence of documentation can make accessibility challenging to achieve. However, if best practice is integrated into research processes and workflow, as demonstrated here, it will facilitate more complete and more effective reproducibility and reuse of geoscience methods and results.

  19. Easy Fabrication of Thin Membranes with Through Holes. Application to Protein Patterning

    PubMed Central

    Arasi, Bakya; Gauthier, Nils; Viasnoff, Virgile

    2012-01-01

    Since protein patterning on 2D surfaces has emerged as an important tool in cell biology, the development of easy patterning methods has gained importance in biology labs. In this paper we present a simple, rapid and reliable technique to fabricate thin layers of UV curable polymer with through holes. These membranes are as easy to fabricate as microcontact printing stamps and can be readily used for stencil patterning. We show how this microfabrication scheme allows highly reproducible and highly homogeneous protein patterning with micron sized resolution on surfaces as large as 10 cm2. Using these stencils, fragile proteins were patterned without loss of function in a fully hydrated state. We further demonstrate how intricate patterns of multiple proteins can be achieved by stacking the stencil membranes. We termed this approach microserigraphy. PMID:22952944

  20. Partially hollowed ultra-thin dielectric meta-surface for transmission manipulation.

    PubMed

    Liu, Guiqiang; Fu, Guolan; Liu, Zhengqi; Huang, Zhenping; Chen, Jian

    2016-09-01

    Impressive optical properties are numerically demonstrated in the partially hollowed dielectric meta-surface (p-HDMS), which consists of an air cavity array intercalated in an ultra-thin (~λ/6) high-index dielectric film. Multispectral transmission band-stop response with near-perfect spectral modulation depth is achieved. The spectral slop is up to 80%/nm, indicating the sharp and narrowband transmission behavior. Classical Malus law is confirmed by this sub-wavelength platform. Moreover, the multispectral light propagation manipulation can be perfectly reproduced by using the actual dielectric with absorption loss. In this all-dielectric meta-surface, conduction loss is avoided compared to its metallic plasmonic counterpart. Such configurations can therefore serve as excellent alternatives for plasmonic meta-surfaces and constitute an important step in nanophotonics. PMID:27607661

  1. Easy fabrication of thin membranes with through holes. Application to protein patterning.

    PubMed

    Masters, Thomas; Engl, Wilfried; Weng, Zhe L; Arasi, Bakya; Gauthier, Nils; Viasnoff, Virgile

    2012-01-01

    Since protein patterning on 2D surfaces has emerged as an important tool in cell biology, the development of easy patterning methods has gained importance in biology labs. In this paper we present a simple, rapid and reliable technique to fabricate thin layers of UV curable polymer with through holes. These membranes are as easy to fabricate as microcontact printing stamps and can be readily used for stencil patterning. We show how this microfabrication scheme allows highly reproducible and highly homogeneous protein patterning with micron sized resolution on surfaces as large as 10 cm(2). Using these stencils, fragile proteins were patterned without loss of function in a fully hydrated state. We further demonstrate how intricate patterns of multiple proteins can be achieved by stacking the stencil membranes. We termed this approach microserigraphy. PMID:22952944

  2. Scaling Laws for Proton Acceleration from the Rear Surface of Laser-Irradiated Thin Foils

    NASA Astrophysics Data System (ADS)

    Fuchs, J.; Antici, P.; d'Humières, E.; Lefebvre, E.; Borghesi, M.; Brambrink, E.; Cecchetti, C. A.; Kaluza, M.; Malka, V.; Manclossi, M.; Meyroneinc, S.; Mora, P.; Schreiber, J.; Toncian, T.; Pépin, H.; Audebert, P.

    2006-04-01

    In the last few years, intense research has been conducted on the topic of laser-accelerated ion sources and their applications. Ultra-bright beams of multi-MeV protons are produced by irradiating thin metallic foils with ultra-intense short laser pulses. These sources open new opportunities for ion beam generation and control, and could stimulate development of compact ion accelerators for many applications, in particular proton therapy of deep-seated tumours. Here we show that scaling laws deduced from fluid models reproduce well the acceleration of proton beams for a large range of laser and target parameters. These scaling laws show that, in our regime, there is an optimum in the laser pulse duration of ˜200 fs-1 ps, with a needed laser energy level of 30 to 100 J, in order to achieve e.g. 200 MeV energy protons necessary for proton therapy.

  3. Motivations for dieting: Drive for Thinness is different from Drive for Objective Thinness.

    PubMed

    Chernyak, Yelena; Lowe, Michael R

    2010-05-01

    Drive for thinness is a cardinal feature of bulimia nervosa. However, the widely used Drive for Thinness (DFT) subscale of the Eating Disorder Inventory (Garner, 2004; Garner, Olmstead, & Polivy, 1983) appears to measure a desire to be thinner, not a desire to be objectively thin. We developed the Drive for Objective Thinness (DFOT) Scale and compared unrestrained and restrained eaters and those with bulimia nervosa on the DFT subscale, Goldfarb's Fear of Fat Scale (GFFS; Goldfarb, Dykens, & Gerrard, 1983), and the DFOT Scale. Restrained eaters had higher scores than unrestrained eaters on the DFT subscale and the GFFS, but both groups had low scores on the DFOT Scale. Only the group with bulimia nervosa showed elevated scores on the DFOT Scale. We conclude that restrained eaters diet mostly to avoid weight gain, that individuals with bulimia nervosa diet to achieve thinness and avoid fatness, and that the drive for objective thinness is a unique feature of bulimia nervosa.

  4. Thin-film metal coated insulation barrier in a Josephson tunnel junction. [Patent application

    DOEpatents

    Hawkins, G.A.; Clarke, J.

    1975-10-31

    A highly stable, durable, and reproducible Josephson tunnel junction consists of a thin-film electrode of a hard superconductor, a thin oxide insulation layer over the electrode constituting a Josephson tunnel junction barrier, a thin-film layer of stabilizing metal over the barrier, and a second thin-film hard superconductive electrode over the stabilizing film. The thin stabilizing metal film is made only thick enough to limit penetration of the electrode material through the insulation layer so as to prevent a superconductive short.

  5. Achieving optimal SERS through enhanced experimental design

    PubMed Central

    Fisk, Heidi; Westley, Chloe; Turner, Nicholas J.

    2016-01-01

    One of the current limitations surrounding surface‐enhanced Raman scattering (SERS) is the perceived lack of reproducibility. SERS is indeed challenging, and for analyte detection, it is vital that the analyte interacts with the metal surface. However, as this is analyte dependent, there is not a single set of SERS conditions that are universal. This means that experimental optimisation for optimum SERS response is vital. Most researchers optimise one factor at a time, where a single parameter is altered first before going onto optimise the next. This is a very inefficient way of searching the experimental landscape. In this review, we explore the use of more powerful multivariate approaches to SERS experimental optimisation based on design of experiments and evolutionary computational methods. We particularly focus on colloidal‐based SERS rather than thin film preparations as a result of their popularity. © 2015 The Authors. Journal of Raman Spectroscopy published by John Wiley & Sons, Ltd. PMID:27587905

  6. General Achievement Trends: Oklahoma

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  7. General Achievement Trends: Georgia

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  8. General Achievement Trends: Nebraska

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  9. General Achievement Trends: Arkansas

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  10. General Achievement Trends: Maryland

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  11. General Achievement Trends: Maine

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  12. General Achievement Trends: Iowa

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  13. General Achievement Trends: Texas

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  14. General Achievement Trends: Hawaii

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  15. General Achievement Trends: Kansas

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  16. General Achievement Trends: Florida

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  17. General Achievement Trends: Massachusetts

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  18. General Achievement Trends: Tennessee

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  19. General Achievement Trends: Alabama

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  20. General Achievement Trends: Virginia

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  1. General Achievement Trends: Michigan

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  2. General Achievement Trends: Colorado

    ERIC Educational Resources Information Center

    Center on Education Policy, 2009

    2009-01-01

    This general achievement trends profile includes information that the Center on Education Policy (CEP) and the Human Resources Research Organization (HumRRO) obtained from states from fall 2008 through April 2009. Included herein are: (1) Bullet points summarizing key findings about achievement trends in that state at three performance…

  3. Inverting the Achievement Pyramid

    ERIC Educational Resources Information Center

    White-Hood, Marian; Shindel, Melissa

    2006-01-01

    Attempting to invert the pyramid to improve student achievement and increase all students' chances for success is not a new endeavor. For decades, educators have strategized, formed think tanks, and developed school improvement teams to find better ways to improve the achievement of all students. Currently, the No Child Left Behind Act (NCLB) is…

  4. Achievement Test Program.

    ERIC Educational Resources Information Center

    Ohio State Dept. of Education, Columbus. Trade and Industrial Education Service.

    The Ohio Trade and Industrial Education Achievement Test battery is comprised of seven basic achievement tests: Machine Trades, Automotive Mechanics, Basic Electricity, Basic Electronics, Mechanical Drafting, Printing, and Sheet Metal. The tests were developed by subject matter committees and specialists in testing and research. The Ohio Trade and…

  5. School Effects on Achievement.

    ERIC Educational Resources Information Center

    Nichols, Robert C.

    The New York State Education Department conducts a Pupil Evaluation Program (PEP) in which each year all third, sixth, and ninth grade students in the state are given a series of achievement tests in reading and mathematics. The data accumulated by the department includes achievement test scores, teacher characteristics, building and curriculum…

  6. Heritability of Creative Achievement

    ERIC Educational Resources Information Center

    Piffer, Davide; Hur, Yoon-Mi

    2014-01-01

    Although creative achievement is a subject of much attention to lay people, the origin of individual differences in creative accomplishments remain poorly understood. This study examined genetic and environmental influences on creative achievement in an adult sample of 338 twins (mean age = 26.3 years; SD = 6.6 years). Twins completed the Creative…

  7. Confronting the Achievement Gap

    ERIC Educational Resources Information Center

    Gardner, David

    2007-01-01

    This article talks about the large achievement gap between children of color and their white peers. The reasons for the achievement gap are varied. First, many urban minorities come from a background of poverty. One of the detrimental effects of growing up in poverty is receiving inadequate nourishment at a time when bodies and brains are rapidly…

  8. Achieving Public Schools

    ERIC Educational Resources Information Center

    Abowitz, Kathleen Knight

    2011-01-01

    Public schools are functionally provided through structural arrangements such as government funding, but public schools are achieved in substance, in part, through local governance. In this essay, Kathleen Knight Abowitz explains the bifocal nature of achieving public schools; that is, that schools are both subject to the unitary Public compact of…

  9. Reproducibility and quantitation of amplicon sequencing-based detection.

    PubMed

    Zhou, Jizhong; Wu, Liyou; Deng, Ye; Zhi, Xiaoyang; Jiang, Yi-Huei; Tu, Qichao; Xie, Jianping; Van Nostrand, Joy D; He, Zhili; Yang, Yunfeng

    2011-08-01

    To determine the reproducibility and quantitation of the amplicon sequencing-based detection approach for analyzing microbial community structure, a total of 24 microbial communities from a long-term global change experimental site were examined. Genomic DNA obtained from each community was used to amplify 16S rRNA genes with two or three barcode tags as technical replicates in the presence of a small quantity (0.1% wt/wt) of genomic DNA from Shewanella oneidensis MR-1 as the control. The technical reproducibility of the amplicon sequencing-based detection approach is quite low, with an average operational taxonomic unit (OTU) overlap of 17.2%±2.3% between two technical replicates, and 8.2%±2.3% among three technical replicates, which is most likely due to problems associated with random sampling processes. Such variations in technical replicates could have substantial effects on estimating β-diversity but less on α-diversity. A high variation was also observed in the control across different samples (for example, 66.7-fold for the forward primer), suggesting that the amplicon sequencing-based detection approach could not be quantitative. In addition, various strategies were examined to improve the comparability of amplicon sequencing data, such as increasing biological replicates, and removing singleton sequences and less-representative OTUs across biological replicates. Finally, as expected, various statistical analyses with preprocessed experimental data revealed clear differences in the composition and structure of microbial communities between warming and non-warming, or between clipping and non-clipping. Taken together, these results suggest that amplicon sequencing-based detection is useful in analyzing microbial community structure even though it is not reproducible and quantitative. However, great caution should be taken in experimental design and data interpretation when the amplicon sequencing-based detection approach is used for quantitative

  10. Validity and Reproducibility of a Spanish Dietary History

    PubMed Central

    Guallar-Castillón, Pilar; Sagardui-Villamor, Jon; Balboa-Castillo, Teresa; Sala-Vila, Aleix; Ariza Astolfi, Mª José; Sarrión Pelous, Mª Dolores; León-Muñoz, Luz María; Graciani, Auxiliadora; Laclaustra, Martín; Benito, Cristina; Banegas, José Ramón; Artalejo, Fernando Rodríguez

    2014-01-01

    Objective To assess the validity and reproducibility of food and nutrient intake estimated with the electronic diet history of ENRICA (DH-E), which collects information on numerous aspects of the Spanish diet. Methods The validity of food and nutrient intake was estimated using Pearson correlation coefficients between the DH-E and the mean of seven 24-hour recalls collected every 2 months over the previous year. The reproducibility was estimated using intraclass correlation coefficients between two DH-E made one year apart. Results The correlations coefficients between the DH-E and the mean of seven 24-hour recalls for the main food groups were cereals (r = 0.66), meat (r = 0.66), fish (r = 0.42), vegetables (r = 0.62) and fruits (r = 0.44). The mean correlation coefficient for all 15 food groups considered was 0.53. The correlations for macronutrients were: energy (r = 0.76), proteins (r = 0.58), lipids (r = 0.73), saturated fat (r = 0.73), monounsaturated fat (r = 0.59), polyunsaturated fat (r = 0.57), and carbohydrates (r = 0.66). The mean correlation coefficient for all 41 nutrients studied was 0.55. The intraclass correlation coefficient between the two DH-E was greater than 0.40 for most foods and nutrients. Conclusions The DH-E shows good validity and reproducibility for estimating usual intake of foods and nutrients. PMID:24465878

  11. Repeatability and Reproducibility of Decisions by Latent Fingerprint Examiners

    PubMed Central

    Ulery, Bradford T.; Hicklin, R. Austin; Buscaglia, JoAnn; Roberts, Maria Antonia

    2012-01-01

    The interpretation of forensic fingerprint evidence relies on the expertise of latent print examiners. We tested latent print examiners on the extent to which they reached consistent decisions. This study assessed intra-examiner repeatability by retesting 72 examiners on comparisons of latent and exemplar fingerprints, after an interval of approximately seven months; each examiner was reassigned 25 image pairs for comparison, out of total pool of 744 image pairs. We compare these repeatability results with reproducibility (inter-examiner) results derived from our previous study. Examiners repeated 89.1% of their individualization decisions, and 90.1% of their exclusion decisions; most of the changed decisions resulted in inconclusive decisions. Repeatability of comparison decisions (individualization, exclusion, inconclusive) was 90.0% for mated pairs, and 85.9% for nonmated pairs. Repeatability and reproducibility were notably lower for comparisons assessed by the examiners as “difficult” than for “easy” or “moderate” comparisons, indicating that examiners' assessments of difficulty may be useful for quality assurance. No false positive errors were repeated (n = 4); 30% of false negative errors were repeated. One percent of latent value decisions were completely reversed (no value even for exclusion vs. of value for individualization). Most of the inter- and intra-examiner variability concerned whether the examiners considered the information available to be sufficient to reach a conclusion; this variability was concentrated on specific image pairs such that repeatability and reproducibility were very high on some comparisons and very low on others. Much of the variability appears to be due to making categorical decisions in borderline cases. PMID:22427888

  12. Venusian Polar Vortex reproduced by a general circulation model

    NASA Astrophysics Data System (ADS)

    Ando, Hiroki; Sugimoto, Norihiko; Takagi, Masahiro

    2016-10-01

    Unlike the polar vortices observed in the Earth, Mars and Titan atmospheres, the observed Venus polar vortex is warmer than the mid-latitudes at cloud-top levels (~65 km). This warm polar vortex is zonally surrounded by a cold latitude band located at ~60 degree latitude, which is a unique feature called 'cold collar' in the Venus atmosphere [e.g. Taylor et al. 1980; Piccioni et al. 2007]. Although these structures have been observed in numerous previous observations, the formation mechanism is still unknown. In addition, an axi-asymmetric feature is always seen in the warm polar vortex. It changes temporally and sometimes shows a hot polar dipole or S-shaped structure as shown by a lot of infrared measurements [e.g. Garate-Lopez et al. 2013; 2015]. However, its vertical structure has not been investigated. To solve these problems, we performed a numerical simulation of the Venus atmospheric circulation using a general circulation model named AFES for Venus [Sugimoto et al. 2014] and reproduced these puzzling features.And then, the reproduced structures of the atmosphere and the axi-asymmetirc feature are compared with some previous observational results.In addition, the quasi-periodical zonal-mean zonal wind fluctuation is also seen in the Venus polar vortex reproduced in our model. This might be able to explain some observational results [e.g. Luz et al. 2007] and implies that the polar vacillation might also occur in the Venus atmosphere, which is silimar to the Earth's polar atmosphere. We will also show some initial results about this point in this presentation.

  13. Reproducing continuous radio blackout using glow discharge plasma

    SciTech Connect

    Xie, Kai; Li, Xiaoping; Liu, Donglin; Shao, Mingxu; Zhang, Hanlu

    2013-10-15

    A novel plasma generator is described that offers large-scale, continuous, non-magnetized plasma with a 30-cm-diameter hollow structure, which provides a path for an electromagnetic wave. The plasma is excited by a low-pressure glow discharge, with varying electron densities ranging from 10{sup 9} to 2.5 × 10{sup 11} cm{sup −3}. An electromagnetic wave propagation experiment reproduced a continuous radio blackout in UHF-, L-, and S-bands. The results are consistent with theoretical expectations. The proposed method is suitable in simulating a plasma sheath, and in researching communications, navigation, electromagnetic mitigations, and antenna compensation in plasma sheaths.

  14. Data quality in predictive toxicology: reproducibility of rodent carcinogenicity experiments.

    PubMed Central

    Gottmann, E; Kramer, S; Pfahringer, B; Helma, C

    2001-01-01

    We compared 121 replicate rodent carcinogenicity assays from the two parts (National Cancer Institute/National Toxicology Program and literature) of the Carcinogenic Potency Database (CPDB) to estimate the reliability of these experiments. We estimated a concordance of 57% between the overall rodent carcinogenicity classifications from both sources. This value did not improve substantially when additional biologic information (species, sex, strain, target organs) was considered. These results indicate that rodent carcinogenicity assays are much less reproducible than previously expected, an effect that should be considered in the development of structure-activity relationship models and the risk assessment process. PMID:11401763

  15. Inter-study reproducibility of cardiovascular magnetic resonance tagging

    PubMed Central

    2013-01-01

    Background The aim of this study is to determine the test-retest reliability of the measurement of regional myocardial function by cardiovascular magnetic resonance (CMR) tagging using spatial modulation of magnetization. Methods Twenty-five participants underwent CMR tagging twice over 12 ± 7 days. To assess the role of slice orientation on strain measurement, two healthy volunteers had a first exam, followed by image acquisition repeated with slices rotated ±15 degrees out of true short axis, followed by a second exam in the true short axis plane. To assess the role of slice location, two healthy volunteers had whole heart tagging. The harmonic phase (HARP) method was used to analyze the tagged images. Peak midwall circumferential strain (Ecc), radial strain (Err), Lambda 1, Lambda 2, and Angle α were determined in basal, mid and apical slices. LV torsion, systolic and early diastolic circumferential strain and torsion rates were also determined. Results LV Ecc and torsion had excellent intra-, interobserver, and inter-study intra-class correlation coefficients (ICC range, 0.7 to 0.9). Err, Lambda 1, Lambda 2 and angle had excellent intra- and interobserver ICC than inter-study ICC. Angle had least inter-study reproducibility. Torsion rates had superior intra-, interobserver, and inter-study reproducibility to strain rates. The measurements of LV Ecc were comparable in all three slices with different short axis orientations (standard deviation of mean Ecc was 0.09, 0.18 and 0.16 at basal, mid and apical slices, respectively). The mean difference in LV Ecc between slices was more pronounced in most of the basal slices compared to the rest of the heart. Conclusions Intraobserver and interobserver reproducibility of all strain and torsion parameters was excellent. Inter-study reproducibility of CMR tagging by SPAMM varied between different parameters as described in the results above and was superior for Ecc and LV torsion. The variation in LV Ecc

  16. Towards interoperable and reproducible QSAR analyses: Exchange of datasets

    PubMed Central

    2010-01-01

    Background QSAR is a widely used method to relate chemical structures to responses or properties based on experimental observations. Much effort has been made to evaluate and validate the statistical modeling in QSAR, but these analyses treat the dataset as fixed. An overlooked but highly important issue is the validation of the setup of the dataset, which comprises addition of chemical structures as well as selection of descriptors and software implementations prior to calculations. This process is hampered by the lack of standards and exchange formats in the field, making it virtually impossible to reproduce and validate analyses and drastically constrain collaborations and re-use of data. Results We present a step towards standardizing QSAR analyses by defining interoperable and reproducible QSAR datasets, consisting of an open XML format (QSAR-ML) which builds on an open and extensible descriptor ontology. The ontology provides an extensible way of uniquely defining descriptors for use in QSAR experiments, and the exchange format supports multiple versioned implementations of these descriptors. Hence, a dataset described by QSAR-ML makes its setup completely reproducible. We also provide a reference implementation as a set of plugins for Bioclipse which simplifies setup of QSAR datasets, and allows for exporting in QSAR-ML as well as old-fashioned CSV formats. The implementation facilitates addition of new descriptor implementations from locally installed software and remote Web services; the latter is demonstrated with REST and XMPP Web services. Conclusions Standardized QSAR datasets open up new ways to store, query, and exchange data for subsequent analyses. QSAR-ML supports completely reproducible creation of datasets, solving the problems of defining which software components were used and their versions, and the descriptor ontology eliminates confusions regarding descriptors by defining them crisply. This makes is easy to join, extend, combine datasets

  17. Novel simple templates for reproducible positioning of skin applicators in brachytherapy

    PubMed Central

    Perez-Calatayud, Maria Jose; Bautista, Juan Antonio; Carmona, Vicente; Celada, Francisco; Tormo, Alejandro; García-Martinez, Teresa; Richart, José; Ortega, Manuel Santos; Silla, Magda; Ballester, Facundo; Perez-Calatayud, Jose

    2016-01-01

    Purpose Esteya and Valencia surface applicators are designed to treat skin tumors using brachytherapy. In clinical practice, in order to avoid errors that may affect the treatment outcome, there are two issues that need to be carefully addressed. First, the selected applicator for the treatment should provide adequate margin for the target, and second, the applicator has to be precisely positioned before each treatment fraction. In this work, we describe the development and use of a new acrylic templates named Template La Fe-ITIC. They have been designed specifically to help the clinical user in the selection of the correct applicator, and to assist the medical staff in reproducing the positioning of the applicator. These templates are freely available upon request. Material and methods Templates that were developed by University and Polytechnic Hospital La Fe (La Fe) and Hospital Clínica Benidorm (ITIC) in cooperation with Elekta, consist of a thin sheet made of transparent acrylic. For each applicator, a crosshair and two different circles are drawn on these templates: the inner one corresponds to the useful beam, while the outer one represents the external perimeter of the applicator. The outer circle contains slits that facilitate to draw a circle on the skin of the patient for exact positioning of the applicator. In addition, there are two perpendicular rulers to define the adequate margin. For each applicator size, a specific template was developed. Results The templates have been used successfully in our institutions for more than 50 patients’ brachytherapy treatments. They are currently being used for Esteya and Valencia applicators. Conclusions The template La Fe-ITIC is simple and practical. It improves both the set-up time and reproducibility. It helps to establish the adequate margins, an essential point in the clinical outcome. PMID:27648089

  18. Novel simple templates for reproducible positioning of skin applicators in brachytherapy

    PubMed Central

    Perez-Calatayud, Maria Jose; Bautista, Juan Antonio; Carmona, Vicente; Celada, Francisco; Tormo, Alejandro; García-Martinez, Teresa; Richart, José; Ortega, Manuel Santos; Silla, Magda; Ballester, Facundo; Perez-Calatayud, Jose

    2016-01-01

    Purpose Esteya and Valencia surface applicators are designed to treat skin tumors using brachytherapy. In clinical practice, in order to avoid errors that may affect the treatment outcome, there are two issues that need to be carefully addressed. First, the selected applicator for the treatment should provide adequate margin for the target, and second, the applicator has to be precisely positioned before each treatment fraction. In this work, we describe the development and use of a new acrylic templates named Template La Fe-ITIC. They have been designed specifically to help the clinical user in the selection of the correct applicator, and to assist the medical staff in reproducing the positioning of the applicator. These templates are freely available upon request. Material and methods Templates that were developed by University and Polytechnic Hospital La Fe (La Fe) and Hospital Clínica Benidorm (ITIC) in cooperation with Elekta, consist of a thin sheet made of transparent acrylic. For each applicator, a crosshair and two different circles are drawn on these templates: the inner one corresponds to the useful beam, while the outer one represents the external perimeter of the applicator. The outer circle contains slits that facilitate to draw a circle on the skin of the patient for exact positioning of the applicator. In addition, there are two perpendicular rulers to define the adequate margin. For each applicator size, a specific template was developed. Results The templates have been used successfully in our institutions for more than 50 patients’ brachytherapy treatments. They are currently being used for Esteya and Valencia applicators. Conclusions The template La Fe-ITIC is simple and practical. It improves both the set-up time and reproducibility. It helps to establish the adequate margins, an essential point in the clinical outcome.

  19. A Bayesian Perspective on the Reproducibility Project: Psychology.

    PubMed

    Etz, Alexander; Vandekerckhove, Joachim

    2016-01-01

    We revisit the results of the recent Reproducibility Project: Psychology by the Open Science Collaboration. We compute Bayes factors-a quantity that can be used to express comparative evidence for an hypothesis but also for the null hypothesis-for a large subset (N = 72) of the original papers and their corresponding replication attempts. In our computation, we take into account the likely scenario that publication bias had distorted the originally published results. Overall, 75% of studies gave qualitatively similar results in terms of the amount of evidence provided. However, the evidence was often weak (i.e., Bayes factor < 10). The majority of the studies (64%) did not provide strong evidence for either the null or the alternative hypothesis in either the original or the replication, and no replication attempts provided strong evidence in favor of the null. In all cases where the original paper provided strong evidence but the replication did not (15%), the sample size in the replication was smaller than the original. Where the replication provided strong evidence but the original did not (10%), the replication sample size was larger. We conclude that the apparent failure of the Reproducibility Project to replicate many target effects can be adequately explained by overestimation of effect sizes (or overestimation of evidence against the null hypothesis) due to small sample sizes and publication bias in the psychological literature. We further conclude that traditional sample sizes are insufficient and that a more widespread adoption of Bayesian methods is desirable. PMID:26919473

  20. Selection on soil microbiomes reveals reproducible impacts on plant function.

    PubMed

    Panke-Buisse, Kevin; Poole, Angela C; Goodrich, Julia K; Ley, Ruth E; Kao-Kniffin, Jenny

    2015-04-01

    Soil microorganisms found in the root zone impact plant growth and development, but the potential to harness these benefits is hampered by the sheer abundance and diversity of the players influencing desirable plant traits. Here, we report a high level of reproducibility of soil microbiomes in altering plant flowering time and soil functions when partnered within and between plant hosts. We used a multi-generation experimental system using Arabidopsis thaliana Col to select for soil microbiomes inducing earlier or later flowering times of their hosts. We then inoculated the selected microbiomes from the tenth generation of plantings into the soils of three additional A. thaliana genotypes (Ler, Be, RLD) and a related crucifer (Brassica rapa). With the exception of Ler, all other plant hosts showed a shift in flowering time corresponding with the inoculation of early- or late-flowering microbiomes. Analysis of the soil microbial community using 16 S rRNA gene sequencing showed distinct microbiota profiles assembling by flowering time treatment. Plant hosts grown with the late-flowering-associated microbiomes showed consequent increases in inflorescence biomass for three A. thaliana genotypes and an increase in total biomass for B. rapa. The increase in biomass was correlated with two- to five-fold enhancement of microbial extracellular enzyme activities associated with nitrogen mineralization in soils. The reproducibility of the flowering phenotype across plant hosts suggests that microbiomes can be selected to modify plant traits and coordinate changes in soil resource pools.

  1. Selection on soil microbiomes reveals reproducible impacts on plant function.

    PubMed

    Panke-Buisse, Kevin; Poole, Angela C; Goodrich, Julia K; Ley, Ruth E; Kao-Kniffin, Jenny

    2015-04-01

    Soil microorganisms found in the root zone impact plant growth and development, but the potential to harness these benefits is hampered by the sheer abundance and diversity of the players influencing desirable plant traits. Here, we report a high level of reproducibility of soil microbiomes in altering plant flowering time and soil functions when partnered within and between plant hosts. We used a multi-generation experimental system using Arabidopsis thaliana Col to select for soil microbiomes inducing earlier or later flowering times of their hosts. We then inoculated the selected microbiomes from the tenth generation of plantings into the soils of three additional A. thaliana genotypes (Ler, Be, RLD) and a related crucifer (Brassica rapa). With the exception of Ler, all other plant hosts showed a shift in flowering time corresponding with the inoculation of early- or late-flowering microbiomes. Analysis of the soil microbial community using 16 S rRNA gene sequencing showed distinct microbiota profiles assembling by flowering time treatment. Plant hosts grown with the late-flowering-associated microbiomes showed consequent increases in inflorescence biomass for three A. thaliana genotypes and an increase in total biomass for B. rapa. The increase in biomass was correlated with two- to five-fold enhancement of microbial extracellular enzyme activities associated with nitrogen mineralization in soils. The reproducibility of the flowering phenotype across plant hosts suggests that microbiomes can be selected to modify plant traits and coordinate changes in soil resource pools. PMID:25350154

  2. A Bayesian Perspective on the Reproducibility Project: Psychology.

    PubMed

    Etz, Alexander; Vandekerckhove, Joachim

    2016-01-01

    We revisit the results of the recent Reproducibility Project: Psychology by the Open Science Collaboration. We compute Bayes factors-a quantity that can be used to express comparative evidence for an hypothesis but also for the null hypothesis-for a large subset (N = 72) of the original papers and their corresponding replication attempts. In our computation, we take into account the likely scenario that publication bias had distorted the originally published results. Overall, 75% of studies gave qualitatively similar results in terms of the amount of evidence provided. However, the evidence was often weak (i.e., Bayes factor < 10). The majority of the studies (64%) did not provide strong evidence for either the null or the alternative hypothesis in either the original or the replication, and no replication attempts provided strong evidence in favor of the null. In all cases where the original paper provided strong evidence but the replication did not (15%), the sample size in the replication was smaller than the original. Where the replication provided strong evidence but the original did not (10%), the replication sample size was larger. We conclude that the apparent failure of the Reproducibility Project to replicate many target effects can be adequately explained by overestimation of effect sizes (or overestimation of evidence against the null hypothesis) due to small sample sizes and publication bias in the psychological literature. We further conclude that traditional sample sizes are insufficient and that a more widespread adoption of Bayesian methods is desirable.

  3. [Study of the validity and reproducibility of passive ozone monitors].

    PubMed

    Cortez-Lugo, M; Romieu, I; Palazuelos-Rendón, E; Hernández-Avila, M

    1995-01-01

    The aim of this study was to evaluate the validity and reproducibility between ozone measurements obtained with passive ozone monitors and those registered with a continuous ozone monitor, to determine the applicability of passive monitors in epidemiological research. The study was carried out during November and December 1992. Indoor and outdoor classroom air ozone concentrations were analyzed using 28 passive monitors and using a continuous monitor. The correlation between both measurements was highly significant (r = 0.089, p < 0.001), indicating a very good validity. Also, the correlation between the measurements obtained with two different passive monitors exposed concurrently was very high (r = 0.97, p < 0.001), indicating a good reproducibility in the measurements of the passive monitors. The relative error between the concentrations measured by the passive monitors and those from the continuous monitor tended to decrease with increasing ozone concentrations. The results suggest that passive monitors should be used to determine cumulative exposure of ozone exceeding 100 ppb, corresponding to an exposure period greater than five days, if used to analyze indoor air.

  4. Reproducible quantitative proteotype data matrices for systems biology

    PubMed Central

    Röst, Hannes L.; Malmström, Lars; Aebersold, Ruedi

    2015-01-01

    Historically, many mass spectrometry–based proteomic studies have aimed at compiling an inventory of protein compounds present in a biological sample, with the long-term objective of creating a proteome map of a species. However, to answer fundamental questions about the behavior of biological systems at the protein level, accurate and unbiased quantitative data are required in addition to a list of all protein components. Fueled by advances in mass spectrometry, the proteomics field has thus recently shifted focus toward the reproducible quantification of proteins across a large number of biological samples. This provides the foundation to move away from pure enumeration of identified proteins toward quantitative matrices of many proteins measured across multiple samples. It is argued here that data matrices consisting of highly reproducible, quantitative, and unbiased proteomic measurements across a high number of conditions, referred to here as quantitative proteotype maps, will become the fundamental currency in the field and provide the starting point for downstream biological analysis. Such proteotype data matrices, for example, are generated by the measurement of large patient cohorts, time series, or multiple experimental perturbations. They are expected to have a large effect on systems biology and personalized medicine approaches that investigate the dynamic behavior of biological systems across multiple perturbations, time points, and individuals. PMID:26543201

  5. Data reproducibility of pace strategy in a laboratory test run.

    PubMed

    de França, Elias; Xavier, Ana Paula; Hirota, Vinicius Barroso; Côrrea, Sônia Cavalcanti; Caperuto, Érico Chagas

    2016-06-01

    This data paper contains data related to a reproducibility test for running pacing strategy in an intermittent running test until exhaustion. Ten participants underwent a crossover study (test and retest) with an intermittent running test. The test was composed of three-minute sets (at 1 km/h above Onset Blood Lactate Accumulation) until volitional exhaustion. To assess pace strategy change, in the first test participants chose the rest time interval (RTI) between sets (ranging from 30 to 60 s) and in the second test the maximum RTI values were either the RTI chosen in the first test (maximum RTI value), or less if desired. To verify the reproducibility of the test, rating perceived exertion (RPE), heart rate (HR) and blood plasma lactate concentration ([La]p) were collected at rest, immediately after each set and at the end of the tests. As results, RTI, RPE, HR, [La]p and time to exhaustion were not statistically different (p>0.05) between test and retest, as well as they demonstrated good intraclass correlation. PMID:27081672

  6. Reproducibility of UAV-based photogrammetric surface models

    NASA Astrophysics Data System (ADS)

    Anders, Niels; Smith, Mike; Cammeraat, Erik; Keesstra, Saskia

    2016-04-01

    Soil erosion, rapid geomorphological change and vegetation degradation are major threats to the human and natural environment in many regions. Unmanned Aerial Vehicles (UAVs) and Structure-from-Motion (SfM) photogrammetry are invaluable tools for the collection of highly detailed aerial imagery and subsequent low cost production of 3D landscapes for an assessment of landscape change. Despite the widespread use of UAVs for image acquisition in monitoring applications, the reproducibility of UAV data products has not been explored in detail. This paper investigates this reproducibility by comparing the surface models and orthophotos derived from different UAV flights that vary in flight direction and altitude. The study area is located near Lorca, Murcia, SE Spain, which is a semi-arid medium-relief locale. The area is comprised of terraced agricultural fields that have been abandoned for about 40 years and have suffered subsequent damage through piping and gully erosion. In this work we focused upon variation in cell size, vertical and horizontal accuracy, and horizontal positioning of recognizable landscape features. The results suggest that flight altitude has a significant impact on reconstructed point density and related cell size, whilst flight direction affects the spatial distribution of vertical accuracy. The horizontal positioning of landscape features is relatively consistent between the different flights. We conclude that UAV data products are suitable for monitoring campaigns for land cover purposes or geomorphological mapping, but special care is required when used for monitoring changes in elevation.

  7. Reproducible quantitative proteotype data matrices for systems biology.

    PubMed

    Röst, Hannes L; Malmström, Lars; Aebersold, Ruedi

    2015-11-01

    Historically, many mass spectrometry-based proteomic studies have aimed at compiling an inventory of protein compounds present in a biological sample, with the long-term objective of creating a proteome map of a species. However, to answer fundamental questions about the behavior of biological systems at the protein level, accurate and unbiased quantitative data are required in addition to a list of all protein components. Fueled by advances in mass spectrometry, the proteomics field has thus recently shifted focus toward the reproducible quantification of proteins across a large number of biological samples. This provides the foundation to move away from pure enumeration of identified proteins toward quantitative matrices of many proteins measured across multiple samples. It is argued here that data matrices consisting of highly reproducible, quantitative, and unbiased proteomic measurements across a high number of conditions, referred to here as quantitative proteotype maps, will become the fundamental currency in the field and provide the starting point for downstream biological analysis. Such proteotype data matrices, for example, are generated by the measurement of large patient cohorts, time series, or multiple experimental perturbations. They are expected to have a large effect on systems biology and personalized medicine approaches that investigate the dynamic behavior of biological systems across multiple perturbations, time points, and individuals.

  8. Reproducible Research Practices and Transparency across the Biomedical Literature

    PubMed Central

    Khoury, Muin J.; Schully, Sheri D.; Ioannidis, John P. A.

    2016-01-01

    There is a growing movement to encourage reproducibility and transparency practices in the scientific community, including public access to raw data and protocols, the conduct of replication studies, systematic integration of evidence in systematic reviews, and the documentation of funding and potential conflicts of interest. In this survey, we assessed the current status of reproducibility and transparency addressing these indicators in a random sample of 441 biomedical journal articles published in 2000–2014. Only one study provided a full protocol and none made all raw data directly available. Replication studies were rare (n = 4), and only 16 studies had their data included in a subsequent systematic review or meta-analysis. The majority of studies did not mention anything about funding or conflicts of interest. The percentage of articles with no statement of conflict decreased substantially between 2000 and 2014 (94.4% in 2000 to 34.6% in 2014); the percentage of articles reporting statements of conflicts (0% in 2000, 15.4% in 2014) or no conflicts (5.6% in 2000, 50.0% in 2014) increased. Articles published in journals in the clinical medicine category versus other fields were almost twice as likely to not include any information on funding and to have private funding. This study provides baseline data to compare future progress in improving these indicators in the scientific literature. PMID:26726926

  9. Selection on soil microbiomes reveals reproducible impacts on plant function

    PubMed Central

    Panke-Buisse, Kevin; Poole, Angela C; Goodrich, Julia K; Ley, Ruth E; Kao-Kniffin, Jenny

    2015-01-01

    Soil microorganisms found in the root zone impact plant growth and development, but the potential to harness these benefits is hampered by the sheer abundance and diversity of the players influencing desirable plant traits. Here, we report a high level of reproducibility of soil microbiomes in altering plant flowering time and soil functions when partnered within and between plant hosts. We used a multi-generation experimental system using Arabidopsis thaliana Col to select for soil microbiomes inducing earlier or later flowering times of their hosts. We then inoculated the selected microbiomes from the tenth generation of plantings into the soils of three additional A. thaliana genotypes (Ler, Be, RLD) and a related crucifer (Brassica rapa). With the exception of Ler, all other plant hosts showed a shift in flowering time corresponding with the inoculation of early- or late-flowering microbiomes. Analysis of the soil microbial community using 16 S rRNA gene sequencing showed distinct microbiota profiles assembling by flowering time treatment. Plant hosts grown with the late-flowering-associated microbiomes showed consequent increases in inflorescence biomass for three A. thaliana genotypes and an increase in total biomass for B. rapa. The increase in biomass was correlated with two- to five-fold enhancement of microbial extracellular enzyme activities associated with nitrogen mineralization in soils. The reproducibility of the flowering phenotype across plant hosts suggests that microbiomes can be selected to modify plant traits and coordinate changes in soil resource pools. PMID:25350154

  10. Fluctuation-Driven Neural Dynamics Reproduce Drosophila Locomotor Patterns

    PubMed Central

    Cruchet, Steeve; Gustafson, Kyle; Benton, Richard; Floreano, Dario

    2015-01-01

    The neural mechanisms determining the timing of even simple actions, such as when to walk or rest, are largely mysterious. One intriguing, but untested, hypothesis posits a role for ongoing activity fluctuations in neurons of central action selection circuits that drive animal behavior from moment to moment. To examine how fluctuating activity can contribute to action timing, we paired high-resolution measurements of freely walking Drosophila melanogaster with data-driven neural network modeling and dynamical systems analysis. We generated fluctuation-driven network models whose outputs—locomotor bouts—matched those measured from sensory-deprived Drosophila. From these models, we identified those that could also reproduce a second, unrelated dataset: the complex time-course of odor-evoked walking for genetically diverse Drosophila strains. Dynamical models that best reproduced both Drosophila basal and odor-evoked locomotor patterns exhibited specific characteristics. First, ongoing fluctuations were required. In a stochastic resonance-like manner, these fluctuations allowed neural activity to escape stable equilibria and to exceed a threshold for locomotion. Second, odor-induced shifts of equilibria in these models caused a depression in locomotor frequency following olfactory stimulation. Our models predict that activity fluctuations in action selection circuits cause behavioral output to more closely match sensory drive and may therefore enhance navigation in complex sensory environments. Together these data reveal how simple neural dynamics, when coupled with activity fluctuations, can give rise to complex patterns of animal behavior. PMID:26600381

  11. Data reproducibility of pace strategy in a laboratory test run

    PubMed Central

    de França, Elias; Xavier, Ana Paula; Hirota, Vinicius Barroso; Côrrea, Sônia Cavalcanti; Caperuto, Érico Chagas

    2016-01-01

    This data paper contains data related to a reproducibility test for running pacing strategy in an intermittent running test until exhaustion. Ten participants underwent a crossover study (test and retest) with an intermittent running test. The test was composed of three-minute sets (at 1 km/h above Onset Blood Lactate Accumulation) until volitional exhaustion. To assess pace strategy change, in the first test participants chose the rest time interval (RTI) between sets (ranging from 30 to 60 s) and in the second test the maximum RTI values were either the RTI chosen in the first test (maximum RTI value), or less if desired. To verify the reproducibility of the test, rating perceived exertion (RPE), heart rate (HR) and blood plasma lactate concentration ([La]p) were collected at rest, immediately after each set and at the end of the tests. As results, RTI, RPE, HR, [La]p and time to exhaustion were not statistically different (p>0.05) between test and retest, as well as they demonstrated good intraclass correlation. PMID:27081672

  12. Effect of Soil Moisture Content on the Splash Phenomenon Reproducibility

    PubMed Central

    Ryżak, Magdalena; Bieganowski, Andrzej; Polakowski, Cezary

    2015-01-01

    One of the methods for testing splash (the first phase of water erosion) may be an analysis of photos taken using so-called high-speed cameras. The aim of this study was to determine the reproducibility of measurements using a single drop splash of simulated precipitation. The height from which the drops fell resulted in a splash of 1.5 m. Tests were carried out using two types of soil: Eutric Cambisol (loamy silt) and Orthic Luvisol (sandy loam); three initial pressure heads were applied equal to 16 kPa, 3.1 kPa, and 0.1 kPa. Images for one, five, and 10 drops were recorded at a rate of 2000 frames per second. It was found that (i) the dispersion of soil caused by the striking of the 1st drop was significantly different from the splash impact caused by subsequent drops; (ii) with every drop, the splash phenomenon proceeded more reproducibly, that is, the number of particles of soil and/or water that splashed were increasingly close to each other; (iii) the number of particles that were detached during the splash were strongly correlated with its surface area; and (iv) the higher the water film was on the surface the smaller the width of the crown was. PMID:25785859

  13. Reproducibility of the 6-minute walk test in obese adults.

    PubMed

    Beriault, K; Carpentier, A C; Gagnon, C; Ménard, J; Baillargeon, J-P; Ardilouze, J-L; Langlois, M-F

    2009-10-01

    The six-minute walk test (6MWT) is an inexpensive, quick and safe tool to evaluate the functional capacity of patients with heart failure and chronic obstructive pulmonary disease. The aim of this study was to determine the reproducibility of the 6MWT in overweight and obese individuals. We thus undertook a prospective repeated-measure validity study taking place in our academic weight management outpatient clinic. The 6MWT was conducted twice the same day in 21 overweight or obese adult subjects (15 females and 6 males). Repeatability of walking distance was the primary outcome. Anthropometric measures, blood pressure and heart rate were also recorded. Participant's mean BMI was 37.2+/-9.8 kg/m(2) (range: 27.0-62.3 kg/m(2)). Walking distance in the morning (mean=452+/-90 m) and in the afternoon (mean=458+/-97 m) were highly correlated (r=0.948; 95% Confidence Interval 0.877-0.978; p<0.001). Walking distance was negatively correlated with BMI (r=-0.47, p=0.03), waist circumference (r=-0.43, p=0.05) and pre-test heart rate (r=-0.54, p=0.01). Our findings indicate that the 6MWT is highly reproducible in obese subjects and could thus be used as a fitness indicator in clinical studies and clinical care in this population.

  14. Student Achievement and Motivation

    ERIC Educational Resources Information Center

    Flammer, Gordon H.; Mecham, Robert C.

    1974-01-01

    Compares the lecture and self-paced methods of instruction on the basis of student motivation and achieveme nt, comparing motivating and demotivating factors in each, and their potential for motivation and achievement. (Authors/JR)

  15. Thin film mechanics

    NASA Astrophysics Data System (ADS)

    Cooper, Ryan C.

    the role of grain boundaries on the strength of chemical vapor deposited graphene. The results from these studies suggest that two dimensional films have remarkably high strength-reaching the intrinsic limit of molecular bonds. Chapter 5 explores the viscoelastic properties of heterogeneous polydimethylsiloxane (PDMS) microfilms through dynamic nanoindentation. PDMS microfilms are irradiated with an electron beam creating a 3 m-thick film with an increased cross-link density. The change in mechanical properties of PDMS due to thermal history and accelerator have been explored by a variety of tests, but the effect of electron beam irradiation is still unknown. The resulting structure is a stiff microfilm embedded in a soft rubber with some transformational strain induced by the cross-linking volume changes. Chapter 5 employs a combination of dynamic nanoindentation and finite element analysis to determine the change in stiffness as a function of electron beam irradiation. The experimental results are compared to the literature. The results of these experimental and numerical techniques provide exciting opportu- nities in future research. Two dimensional materials and flexible thin films are exciting materials for novel applications with new form factors, such as flexible electronics and microfluidic devices. The results herein indicate that you can accurately model the strength of two dimsensional materials and that these materials are robust against nanoscale defects. The results also reveal local variation of mechanical properties in PDMS microfilms. This allows one to design substrates that flex with varying amounts of strain on the surface. Combining the mechanics of two dimensional materials with that of a locally irradiated PDMS film could achieve a new class of flexible microelectromechanical systems. Large-scale growth of two dimensional materials will be structurally robust-even in the presence of nanostructural defects-and PDMS microfilms can be irradiated to

  16. Feasibility and Reproducibility of Echo Planar Spectroscopic Imaging on the Quantification of Hepatic Fat

    PubMed Central

    Lin, Yi-Ru; Chiu, Jian-Jia; Tsai, Shang-Yueh

    2014-01-01

    Objectives 1H-MRS is widely regarded as the most accurate noninvasive method to quantify hepatic fat content (HFC). When practical period of breath holding, and acquisition of HFC over multiple liver areas is considered, a fast MR spectroscopic imaging technique is desired. The aim of this study is to examine the feasibility and reproducibility of echo planar spectroscopic imaging (EPSI) on the quantification of HFC in subject with various HFCs. Methods Twenty two volunteers were examined in a 3T MR system. The acquisition time of proposed EPSI protocol was 18 seconds. The EPSI scans were repeated 8 times for each subject to test reproducibility. The peak of water and individual peaks of fat including methyl, methylene, and allylic peaks at 0.9, 1.3, and 2.0 ppm were fitted. Calculated amount of water and fat content were corrected for T2 relaxation. The total HFC was defined as the combination of individual peaks. Standard deviation (SD), coefficient of variance (COV) and fitting reliability of HFC quantified by LCModel were calculated. Results Our results show that the SDs of total HFC for all subjects are less than 2.5%. Fitting reliability is mostly under 10% and positively correlates with COV. Subjects separated into three subgroups according to quantified total HFC show that improved fitting reliability and reproducibility can be achieved on subjects with higher total HFC. Conclusions We have demonstrated feasibility of the proposed EPSI protocols on the quantification of HFC over a whole slice of liver with scan time in a single breath hold. PMID:25514348

  17. Vapor Pressure of Aqueous Solutions of Electrolytes Reproduced with Coarse-Grained Models without Electrostatics.

    PubMed

    Perez Sirkin, Yamila A; Factorovich, Matías H; Molinero, Valeria; Scherlis, Damian A

    2016-06-14

    The vapor pressure of water is a key property in a large class of applications from the design of membranes for fuel cells and separations to the prediction of the mixing state of atmospheric aerosols. Molecular simulations have been used to compute vapor pressures, and a few studies on liquid mixtures and solutions have been reported on the basis of the Gibbs Ensemble Monte Carlo method in combination with atomistic force fields. These simulations are costly, making them impractical for the prediction of the vapor pressure of complex materials. The goal of the present work is twofold: (1) to demonstrate the use of the grand canonical screening approach ( Factorovich , M. H. J. Chem. Phys. 2014 , 140 , 064111 ) to compute the vapor pressure of solutions and to extend the methodology for the treatment of systems without a liquid-vapor interface and (2) to investigate the ability of computationally efficient high-resolution coarse-grained models based on the mW monatomic water potential and ions described exclusively with short-range interactions to reproduce the relative vapor pressure of aqueous solutions. We find that coarse-grained models of LiCl and NaCl solutions faithfully reproduce the experimental relative pressures up to high salt concentrations, despite the inability of these models to predict cohesive energies of the solutions or the salts. A thermodynamic analysis reveals that the coarse-grained models achieve the experimental activity coefficients of water in solution through a compensation of severely underestimated hydration and vaporization free energies of the salts. Our results suggest that coarse-grained models developed to replicate the hydration structure and the effective ion-ion attraction in solution may lead to this compensation. Moreover, they suggest an avenue for the design of coarse-grained models that accurately reproduce the activity coefficients of solutions.

  18. Vapor Pressure of Aqueous Solutions of Electrolytes Reproduced with Coarse-Grained Models without Electrostatics.

    PubMed

    Perez Sirkin, Yamila A; Factorovich, Matías H; Molinero, Valeria; Scherlis, Damian A

    2016-06-14

    The vapor pressure of water is a key property in a large class of applications from the design of membranes for fuel cells and separations to the prediction of the mixing state of atmospheric aerosols. Molecular simulations have been used to compute vapor pressures, and a few studies on liquid mixtures and solutions have been reported on the basis of the Gibbs Ensemble Monte Carlo method in combination with atomistic force fields. These simulations are costly, making them impractical for the prediction of the vapor pressure of complex materials. The goal of the present work is twofold: (1) to demonstrate the use of the grand canonical screening approach ( Factorovich , M. H. J. Chem. Phys. 2014 , 140 , 064111 ) to compute the vapor pressure of solutions and to extend the methodology for the treatment of systems without a liquid-vapor interface and (2) to investigate the ability of computationally efficient high-resolution coarse-grained models based on the mW monatomic water potential and ions described exclusively with short-range interactions to reproduce the relative vapor pressure of aqueous solutions. We find that coarse-grained models of LiCl and NaCl solutions faithfully reproduce the experimental relative pressures up to high salt concentrations, despite the inability of these models to predict cohesive energies of the solutions or the salts. A thermodynamic analysis reveals that the coarse-grained models achieve the experimental activity coefficients of water in solution through a compensation of severely underestimated hydration and vaporization free energies of the salts. Our results suggest that coarse-grained models developed to replicate the hydration structure and the effective ion-ion attraction in solution may lead to this compensation. Moreover, they suggest an avenue for the design of coarse-grained models that accurately reproduce the activity coefficients of solutions. PMID:27196963

  19. Reproducibility of an aerobic endurance test for nonexpert swimmers

    PubMed Central

    Veronese da Costa, Adalberto; Costa, Manoel da Cunha; Carlos, Daniel Medeiros; Guerra, Luis Marcos de Medeiros; Silva, Antônio José; Barbosa, Tiago Manoel Cabral dos Santos

    2012-01-01

    Background: This study aimed to verify the reproduction of an aerobic test to determine nonexpert swimmers’ resistance. Methods: The sample consisted of 24 male swimmers (age: 22.79 ± 3.90 years; weight: 74.72 ± 11.44 kg; height: 172.58 ± 4.99 cm; and fat percentage: 15.19% ± 3.21%), who swim for 1 hour three times a week. A new instrument was used in this study (a Progressive Swim Test): the swimmer wore an underwater MP3 player and increased their swimming speed on hearing a beep after every 25 meters. Each swimmer’s heart rate was recorded before the test (BHR) and again after the test (AHR). The rate of perceived exertion (RPE) and the number of laps performed (NLP) were also recorded. The sample size was estimated using G*Power software (v 3.0.10; Franz Faul, Kiel University, Kiel, Germany). The descriptive values were expressed as mean and standard deviation. After confirming the normality of the data using both the Shapiro–Wilk and Levene tests, a paired t-test was performed to compare the data. The Pearson’s linear correlation (r) and intraclass coefficient correlation (ICC) tests were used to determine relative reproducibility. The standard error of measurement (SEM) and the coefficient of variation (CV) were used to determine absolute reproducibility. The limits of agreement and the bias of the absolute and relative values between days were determined by Bland–Altman plots. All values had a significance level of P < 0.05. Results: There were significant differences in AHR (P = 0.03) and NLP (P = 0.01) between the 2 days of testing. The obtained values were r > 0.50 and ICC > 0.66. The SEM had a variation of ±2% and the CV was <10%. Most cases were within the upper and lower limits of Bland–Altman plots, suggesting correlation of the results. The applicability of NLP showed greater robustness (r and ICC > 0.90; SEM < 1%; CV < 3%), indicating that the other variables can be used to predict incremental changes in the physiological condition

  20. Building Consensus on Community Standards for Reproducible Science

    NASA Astrophysics Data System (ADS)

    Lehnert, K. A.; Nielsen, R. L.

    2015-12-01

    As geochemists, the traditional model by which standard methods for generating, presenting, and using data have been generated relied on input from the community, the results of seminal studies, a variety of authoritative bodies, and has required a great deal of time. The rate of technological and related policy change has accelerated to the point that this historical model does not satisfy the needs of the community, publishers, or funders. The development of a new mechanism for building consensus raises a number of questions: Which aspects of our data are the focus of reproducibility standards? Who sets the standards? How do we subdivide the development of the consensus? We propose an open, transparent, and inclusive approach to the development of data and reproducibility standards that is organized around specific sub-disciplines and driven by the community of practitioners in those sub-disciplines. It should involve editors, program managers, and representatives of domain data facilities as well as professional societies, but avoid any single group to be the final authority. A successful example of this model is the Editors Roundtable, a cross section of editors, funders, and data facility managers that discussed and agreed on leading practices for the reporting of geochemical data in publications, including accessibility and format of the data, data quality information, and metadata and identifiers for samples (Goldstein et al., 2014). We argue that development of data and reproducibility standards needs to heavily rely on representatives from the community of practitioners to set priorities and provide perspective. Groups of editors, practicing scientists, and other stakeholders would be assigned the task of reviewing existing practices and recommending changes as deemed necessary. They would weigh the costs and benefits of changing the standards for that community, propose appropriate tools to facilitate those changes, work through the professional societies

  1. The CAIRN method: automated, reproducible calculation of catchment-averaged denudation rates from cosmogenic nuclide concentrations

    NASA Astrophysics Data System (ADS)

    Marius Mudd, Simon; Harel, Marie-Alice; Hurst, Martin D.; Grieve, Stuart W. D.; Marrero, Shasta M.

    2016-08-01

    We report a new program for calculating catchment-averaged denudation rates from cosmogenic nuclide concentrations. The method (Catchment-Averaged denudatIon Rates from cosmogenic Nuclides: CAIRN) bundles previously reported production scaling and topographic shielding algorithms. In addition, it calculates production and shielding on a pixel-by-pixel basis. We explore the effect of sampling frequency across both azimuth (Δθ) and altitude (Δϕ) angles for topographic shielding and show that in high relief terrain a relatively high sampling frequency is required, with a good balance achieved between accuracy and computational expense at Δθ = 8° and Δϕ = 5°. CAIRN includes both internal and external uncertainty analysis, and is packaged in freely available software in order to facilitate easily reproducible denudation rate estimates. CAIRN calculates denudation rates but also automates catchment averaging of shielding and production, and thus can be used to provide reproducible input parameters for the CRONUS family of online calculators.

  2. A Highly Reproducible Bolus Immobilization Technique for the Treatment of Scalp Malignancies

    SciTech Connect

    Lin, Steven H.; Latronico, Diane; Teslow, Terrance; Bajaj, Gopal K.

    2008-04-01

    Radiation treatment of scalp malignancies can be a challenge due to the multiple curved surfaces to which homogenous dose must be delivered. The most readily available techniques utilize linear accelerator-based technique of opposed lateral electron field abutting opposed lateral photon field with central blocking. Bolus material is used to achieve adequate skin dose. Although plans to add bolus material often occur in the virtual setting during treatment planning, the practical aspects of reproducibly maintain the bolus material along curved surfaces during the day-to-day patient setup can be a challenge. We present a case of a patient with squamous cell carcinoma of the scalp with neck node involvement treated with surgery followed by adjuvant radiotherapy. We demonstrate a unique immobilization technique that maintains the bolus material on the aquaplast mesh adherent to the patient's scalp as well as the neck. TomoTherapy with daily megavoltage computed tomography (CT) scan was utilized to verify the daily bolus position. We were able to maintain a 95% reproducibility rate. This technique reliably maintains the bolus material on the desired locations with minimum adjustments and manipulation by the therapist and is a technique that can be universally adapatable for conventional radiotherapy or intensity modulated radiation therapy (IMRT) techniques.

  3. Repeatability and Reproducibility of Anterior Segment Measurements in Normal Eyes Using Dual Scheimpflug Analyzer

    PubMed Central

    Altıparmak, Zeynep; Yağcı, Ramazan; Güler, Emre; Arslanyılmaz, Zeynel; Canbal, Metin; Hepşen, İbrahim F.

    2015-01-01

    Objectives: To assess the repeatability and reproducibility of anterior segment measurements including aberrometric measurements provided by a dual Scheimpflug analyzer (Galilei) system in normal eyes. Materials and Methods: Three repeated consecutive measurements were taken by two independent examiners. The following were evaluated: total corneal power and posterior corneal power, corneal higher-order wavefront aberrations (6.0 mm pupil), pachymetry at the central, paracentral, and peripheral zones, and anterior chamber depth (ACD). Repeatability was assessed by calculating the within-subject standard deviation, precision, repeatability, and intraclass correlation coefficient (ICC). Bland-Altman analysis was used for assessing reproducibility. Results: Thirty eyes of 30 patients were included. The best ICC values were for corneal pachymetry and ACD. For both observers, acceptable ICC was also achieved for the other parameters, the only exceptions being posterior corneal astigmatism and total high order aberration. The 95% LoA (Limits of Agreement) values for all measurements showed small variability between the two examiners. Conclusion: The Galilei system provided reliable measurements of anterior segment parameters. Therefore, the instrument can be confidently used for routine clinical use and research purposes. PMID:27800242

  4. High reproducibility of histological diagnosis of human papillomavirus-related intraepithelial lesions of the anal canal.

    PubMed

    Roberts, Jennifer M; Jin, Fengyi; Thurloe, Julia K; Biro, Clare; Poynten, Isobel M; Tabrizi, Sepehr N; Fairley, Christopher K; Templeton, David J; Carr, Andrew D; Garland, Suzanne M; Hillman, Richard J; Cornall, Alyssa M; Grulich, Andrew E; Farnsworth, Annabelle

    2015-06-01

    In a natural history study of anal human papillomavirus (HPV) infection and HPV-related lesions, we examined the reproducibility of histological high-grade squamous intraepithelial lesion (HSIL). Three expert anogenital pathologists share the reporting of histological specimens from the Study of the Prevention of Anal Cancer (SPANC), utilising Lower Anogenital Squamous Terminology (LAST) criteria. In total, 194 previously reported biopsies were randomly chosen within diagnostic strata [50 HSIL-anal intraepithelial neoplasia (AIN) 3; 45 HSIL-AIN 2; 49 'flat' low-grade squamous intraepithelial lesion (LSIL); 50 'exophytic' LSIL; and 50 negative for squamous intraepithelial lesion] and reviewed by each of these three pathologists. Consensus was defined as agreement between at least two review diagnoses, using a binary classification of HSIL and non-HSIL, or if consensus was not obtained in this way, it was achieved through a multiheader microscope session by the three pathologists. We found very high agreement between original and consensus diagnoses (Kappa = 0.886) and between each pathologist's review and consensus (Kappas = 0.926, 0.917 and 0.905). Intra-observer agreement for the three pathologists was 0.705, 1.000 and 0.854. This high level of diagnostic reproducibility indicates that the findings of SPANC should be robust and provide reliable information about HPV-related anal canal disease. PMID:25938361

  5. Reproducible, Scalable Fusion Gene Detection from RNA-Seq.

    PubMed

    Arsenijevic, Vladan; Davis-Dusenbery, Brandi N

    2016-01-01

    Chromosomal rearrangements resulting in the creation of novel gene products, termed fusion genes, have been identified as driving events in the development of multiple types of cancer. As these gene products typically do not exist in normal cells, they represent valuable prognostic and therapeutic targets. Advances in next-generation sequencing and computational approaches have greatly improved our ability to detect and identify fusion genes. Nevertheless, these approaches require significant computational resources. Here we describe an approach which leverages cloud computing technologies to perform fusion gene detection from RNA sequencing data at any scale. We additionally highlight methods to enhance reproducibility of bioinformatics analyses which may be applied to any next-generation sequencing experiment. PMID:26667464

  6. [Expansion of undergraduate nursing and the labor market: reproducing inequalities?].

    PubMed

    Silva, Kênia Lara; de Sena, Roseni Rosângela; Tavares, Tatiana Silva; Wan der Maas, Lucas

    2012-01-01

    This study aimed to analyze the relationship between the increase in the number of degree courses in nursing and the nursing job market. It is a descriptive exploratory study with a quantitative approach, which used data on Undergraduate Nursing courses, supply of nurses, connection with health facilities, and formal jobs in nursing in the state of Minas Gerais. The evolution of Undergraduate Nursing courses reveals a supply and demand decline in recent years. Such context is determined by the nurse's labor market being influenced by the contradiction of a professional quantitative surplus, particularly in the state's less developed areas, as opposed to a low percentage of nurses to care for the population's health. These characteristics of the nursing labor market reproduce inequalities furthermore aspects such as the regulation of nursing education and the creation of new jobs need to be discussed further.

  7. Extended Eden model reproduces growth of an acellular slime mold

    NASA Astrophysics Data System (ADS)

    Wagner, Geri; Halvorsrud, Ragnhild; Meakin, Paul

    1999-11-01

    A stochastic growth model was used to simulate the growth of the acellular slime mold Physarum polycephalum on substrates where the nutrients were confined in separate drops. Growth of Physarum on such substrates was previously studied experimentally and found to produce a range of different growth patterns [Phys. Rev. E 57, 941 (1998)]. The model represented the aging of cluster sites and differed from the original Eden model in that the occupation probability of perimeter sites depended on the time of occupation of adjacent cluster sites. This feature led to a bias in the selection of growth directions. A moderate degree of persistence was found to be crucial to reproduce the biological growth patterns under various conditions. Persistence in growth combined quick propagation in heterogeneous environments with a high probability of locating sources of nutrients.

  8. Reproducibility in density functional theory calculations of solids.

    PubMed

    Lejaeghere, Kurt; Bihlmayer, Gustav; Björkman, Torbjörn; Blaha, Peter; Blügel, Stefan; Blum, Volker; Caliste, Damien; Castelli, Ivano E; Clark, Stewart J; Dal Corso, Andrea; de Gironcoli, Stefano; Deutsch, Thierry; Dewhurst, John Kay; Di Marco, Igor; Draxl, Claudia; Dułak, Marcin; Eriksson, Olle; Flores-Livas, José A; Garrity, Kevin F; Genovese, Luigi; Giannozzi, Paolo; Giantomassi, Matteo; Goedecker, Stefan; Gonze, Xavier; Grånäs, Oscar; Gross, E K U; Gulans, Andris; Gygi, François; Hamann, D R; Hasnip, Phil J; Holzwarth, N A W; Iuşan, Diana; Jochym, Dominik B; Jollet, François; Jones, Daniel; Kresse, Georg; Koepernik, Klaus; Küçükbenli, Emine; Kvashnin, Yaroslav O; Locht, Inka L M; Lubeck, Sven; Marsman, Martijn; Marzari, Nicola; Nitzsche, Ulrike; Nordström, Lars; Ozaki, Taisuke; Paulatto, Lorenzo; Pickard, Chris J; Poelmans, Ward; Probert, Matt I J; Refson, Keith; Richter, Manuel; Rignanese, Gian-Marco; Saha, Santanu; Scheffler, Matthias; Schlipf, Martin; Schwarz, Karlheinz; Sharma, Sangeeta; Tavazza, Francesca; Thunström, Patrik; Tkatchenko, Alexandre; Torrent, Marc; Vanderbilt, David; van Setten, Michiel J; Van Speybroeck, Veronique; Wills, John M; Yates, Jonathan R; Zhang, Guo-Xu; Cottenier, Stefaan

    2016-03-25

    The widespread popularity of density functional theory has given rise to an extensive range of dedicated codes for predicting molecular and crystalline properties. However, each code implements the formalism in a different way, raising questions about the reproducibility of such predictions. We report the results of a community-wide effort that compared 15 solid-state codes, using 40 different potentials or basis set types, to assess the quality of the Perdew-Burke-Ernzerhof equations of state for 71 elemental crystals. We conclude that predictions from recent codes and pseudopotentials agree very well, with pairwise differences that are comparable to those between different high-precision experiments. Older methods, however, have less precise agreement. Our benchmark provides a framework for users and developers to document the precision of new applications and methodological improvements.

  9. GigaDB: promoting data dissemination and reproducibility

    PubMed Central

    Sneddon, Tam P.; Si Zhe, Xiao; Edmunds, Scott C.; Li, Peter; Goodman, Laurie; Hunter, Christopher I.

    2014-01-01

    Often papers are published where the underlying data supporting the research are not made available because of the limitations of making such large data sets publicly and permanently accessible. Even if the raw data are deposited in public archives, the essential analysis intermediaries, scripts or software are frequently not made available, meaning the science is not reproducible. The GigaScience journal is attempting to address this issue with the associated data storage and dissemination portal, the GigaScience database (GigaDB). Here we present the current version of GigaDB and reveal plans for the next generation of improvements. However, most importantly, we are soliciting responses from you, the users, to ensure that future developments are focused on the data storage and dissemination issues that still need resolving. Database URL: http://www.gigadb.org PMID:24622612

  10. Reproducibility in density functional theory calculations of solids.

    PubMed

    Lejaeghere, Kurt; Bihlmayer, Gustav; Björkman, Torbjörn; Blaha, Peter; Blügel, Stefan; Blum, Volker; Caliste, Damien; Castelli, Ivano E; Clark, Stewart J; Dal Corso, Andrea; de Gironcoli, Stefano; Deutsch, Thierry; Dewhurst, John Kay; Di Marco, Igor; Draxl, Claudia; Dułak, Marcin; Eriksson, Olle; Flores-Livas, José A; Garrity, Kevin F; Genovese, Luigi; Giannozzi, Paolo; Giantomassi, Matteo; Goedecker, Stefan; Gonze, Xavier; Grånäs, Oscar; Gross, E K U; Gulans, Andris; Gygi, François; Hamann, D R; Hasnip, Phil J; Holzwarth, N A W; Iuşan, Diana; Jochym, Dominik B; Jollet, François; Jones, Daniel; Kresse, Georg; Koepernik, Klaus; Küçükbenli, Emine; Kvashnin, Yaroslav O; Locht, Inka L M; Lubeck, Sven; Marsman, Martijn; Marzari, Nicola; Nitzsche, Ulrike; Nordström, Lars; Ozaki, Taisuke; Paulatto, Lorenzo; Pickard, Chris J; Poelmans, Ward; Probert, Matt I J; Refson, Keith; Richter, Manuel; Rignanese, Gian-Marco; Saha, Santanu; Scheffler, Matthias; Schlipf, Martin; Schwarz, Karlheinz; Sharma, Sangeeta; Tavazza, Francesca; Thunström, Patrik; Tkatchenko, Alexandre; Torrent, Marc; Vanderbilt, David; van Setten, Michiel J; Van Speybroeck, Veronique; Wills, John M; Yates, Jonathan R; Zhang, Guo-Xu; Cottenier, Stefaan

    2016-03-25

    The widespread popularity of density functional theory has given rise to an extensive range of dedicated codes for predicting molecular and crystalline properties. However, each code implements the formalism in a different way, raising questions about the reproducibility of such predictions. We report the results of a community-wide effort that compared 15 solid-state codes, using 40 different potentials or basis set types, to assess the quality of the Perdew-Burke-Ernzerhof equations of state for 71 elemental crystals. We conclude that predictions from recent codes and pseudopotentials agree very well, with pairwise differences that are comparable to those between different high-precision experiments. Older methods, however, have less precise agreement. Our benchmark provides a framework for users and developers to document the precision of new applications and methodological improvements. PMID:27013736

  11. geoknife: Reproducible web-processing of large gridded datasets

    USGS Publications Warehouse

    Read, Jordan S.; Walker, Jordan I.; Appling, Alison P.; Blodgett, David L.; Read, Emily Kara; Winslow, Luke A.

    2016-01-01

    Geoprocessing of large gridded data according to overlap with irregular landscape features is common to many large-scale ecological analyses. The geoknife R package was created to facilitate reproducible analyses of gridded datasets found on the U.S. Geological Survey Geo Data Portal web application or elsewhere, using a web-enabled workflow that eliminates the need to download and store large datasets that are reliably hosted on the Internet. The package provides access to several data subset and summarization algorithms that are available on remote web processing servers. Outputs from geoknife include spatial and temporal data subsets, spatially-averaged time series values filtered by user-specified areas of interest, and categorical coverage fractions for various land-use types.

  12. Whole blood metal ion measurement reproducibility between different laboratories.

    PubMed

    Rahmé, Michel; Lavigne, Martin; Barry, Janie; Cirtiu, Ciprian Mihai; Bélanger, Patrick; Vendittoli, Pascal-André

    2014-11-01

    Monitoring patients' metal ion blood concentrations can be useful in cases of problematic metal on metal hip implants. Our objective was to evaluate the reproducibility of metal ion level values measured by two different laboratories. Whole blood samples were collected in 46 patients with metal on metal hip arthroplasty. For each patients, two whole blood samples were collected and analyzed by two laboratories. Laboratory 1 had higher results than laboratory 2. There was a clinically significant absolute difference between the two laboratories, above the predetermined threshold, 35% of Cr samples and 38% of Co samples. All laboratories do not use the same technologies for their measurements. Therefore, decision to revise a metal on metal hip arthroplasty should rely on metal ion trends and have to be done in the same laboratory.

  13. Reproducing the kinematics of damped Lyman α systems

    NASA Astrophysics Data System (ADS)

    Bird, Simeon; Haehnelt, Martin; Neeleman, Marcel; Genel, Shy; Vogelsberger, Mark; Hernquist, Lars

    2015-02-01

    We examine the kinematic structure of damped Lyman α systems (DLAs) in a series of cosmological hydrodynamic simulations using the AREPO code. We are able to match the distribution of velocity widths of associated low-ionization metal absorbers substantially better than earlier work. Our simulations produce a population of DLAs dominated by haloes with virial velocities around 70 km s-1, consistent with a picture of relatively small, faint objects. In addition, we reproduce the observed correlation between velocity width and metallicity and the equivalent width distribution of Si II. Some discrepancies of moderate statistical significance remain; too many of our spectra show absorption concentrated at the edge of the profile and there are slight differences in the exact shape of the velocity width distribution. We show that the improvement over previous work is mostly due to our strong feedback from star formation and our detailed modelling of the metal ionization state.

  14. Initial evaluations of the reproducibility of vapor-diffusion crystallization.

    PubMed

    Newman, Janet; Xu, Jian; Willis, Michael C

    2007-07-01

    Experiments were set up to test how the crystallization drop size affects the crystallization process; in the test cases studied, increasing the drop size led to increasing numbers of crystals. Other data produced from a high-throughput automation-system run were analyzed in order to gauge the effect of replication on the success of crystallization screening. With over 40-fold multiplicity, lysozyme was found to crystallize in over half of the conditions in a standard 96-condition screen. However, despite the fact that industry-standard lysozyme was used in our tests, it was rare that we obtained crystals reproducibly; this suggests that replication whilst screening might improve the success rate of macromolecular crystallization.

  15. The Vienna LTE simulators - Enabling reproducibility in wireless communications research

    NASA Astrophysics Data System (ADS)

    Mehlführer, Christian; Colom Colom Ikuno, Josep; Šimko, Michal; Schwarz, Stefan; Wrulich, Martin; Rupp, Markus

    2011-12-01

    In this article, we introduce MATLAB-based link and system level simulation environments for UMTS Long-Term Evolution (LTE). The source codes of both simulators are available under an academic non-commercial use license, allowing researchers full access to standard-compliant simulation environments. Owing to the open source availability, the simulators enable reproducible research in wireless communications and comparison of novel algorithms. In this study, we explain how link and system level simulations are connected and show how the link level simulator serves as a reference to design the system level simulator. We compare the accuracy of the PHY modeling at system level by means of simulations performed both with bit-accurate link level simulations and PHY-model-based system level simulations. We highlight some of the currently most interesting research questions for LTE, and explain by some research examples how our simulators can be applied.

  16. Investigating the reproducibility of a complex multifocal radiosurgery treatment

    PubMed Central

    Niebanck, M; Juang, T; Newton, J; Adamovics, J; Wang, Z; Oldham, M

    2013-01-01

    Stereotactic radiosurgery has become a widely used technique to treat solid tumors and secondary metastases of the brain. Multiple targets can be simultaneously treated with a single isocenter in order to reduce the set-up time to improve patient comfort and workflow. In this study, a 5-arc multifocal RapidArc treatment was delivered to multiple PRESAGE® dosimeters in order to explore the repeatability of the treatment. The three delivery measurements agreed well with each other, with less than 3% standard deviation of dose in the target. The deliveries also agreed well with the treatment plan, with gamma passing rates greater than 90% (5% dose-difference, and 2 mm distance-to-agreement criteria). The optical-CT PRESAGE® system provided a reproducible measurement for treatment verification, provided measurements were made immediately following treatment. PMID:27081397

  17. Reproducing kernel hilbert space based single infrared image super resolution

    NASA Astrophysics Data System (ADS)

    Chen, Liangliang; Deng, Liangjian; Shen, Wei; Xi, Ning; Zhou, Zhanxin; Song, Bo; Yang, Yongliang; Cheng, Yu; Dong, Lixin

    2016-07-01

    The spatial resolution of Infrared (IR) images is limited by lens optical diffraction, sensor array pitch size and pixel dimension. In this work, a robust model is proposed to reconstruct high resolution infrared image via a single low resolution sampling, where the image features are discussed and classified as reflective, cooled emissive and uncooled emissive based on infrared irradiation source. A spline based reproducing kernel hilbert space and approximative heaviside function are deployed to model smooth part and edge component of image respectively. By adjusting the parameters of heaviside function, the proposed model can enhance distinct part of images. The experimental results show that the model is applicable on both reflective and emissive low resolution infrared images to improve thermal contrast. The overall outcome produces a high resolution IR image, which makes IR camera better measurement accuracy and observes more details at long distance.

  18. New model for datasets citation and extraction reproducibility in VAMDC

    NASA Astrophysics Data System (ADS)

    Zwölf, Carlo Maria; Moreau, Nicolas; Dubernet, Marie-Lise

    2016-09-01

    In this paper we present a new paradigm for the identification of datasets extracted from the Virtual Atomic and Molecular Data Centre (VAMDC) e-science infrastructure. Such identification includes information on the origin and version of the datasets, references associated to individual data in the datasets, as well as timestamps linked to the extraction procedure. This paradigm is described through the modifications of the language used to exchange data within the VAMDC and through the services that will implement those modifications. This new paradigm should enforce traceability of datasets, favor reproducibility of datasets extraction, and facilitate the systematic citation of the authors having originally measured and/or calculated the extracted atomic and molecular data.

  19. Accurate and reproducible determination of lignin molar mass by acetobromination.

    PubMed

    Asikkala, Janne; Tamminen, Tarja; Argyropoulos, Dimitris S

    2012-09-12

    The accurate and reproducible determination of lignin molar mass by using size exclusion chromatography (SEC) is challenging. The lignin association effects, known to dominate underivatized lignins, have been thoroughly addressed by reaction with acetyl bromide in an excess of glacial acetic acid. The combination of a concerted acetylation with the introduction of bromine within the lignin alkyl side chains is thought to be responsible for the observed excellent solubilization characteristics acetobromination imparts to a variety of lignin samples. The proposed methodology was compared and contrasted to traditional lignin derivatization methods. In addition, side reactions that could possibly be induced under the acetobromination conditions were explored with native softwood (milled wood lignin, MWL) and technical (kraft) lignin. These efforts lend support toward the use of room temperature acetobromination being a facile, effective, and universal lignin derivatization medium proposed to be employed prior to SEC measurements. PMID:22870925

  20. Reproducibility of MRI segmentation using a feature space method

    NASA Astrophysics Data System (ADS)

    Soltanian-Zadeh, Hamid; Windham, Joe P.; Scarpace, Lisa; Murnock, Tanya

    1998-06-01

    This paper presents reproducibility studies for the segmentation results obtained by our optimal MRI feature space method. The steps of the work accomplished are as follows. (1) Eleven patients with brain tumors were imaged by a 1.5 T General Electric Signa MRI System. Four T2- weighted and two T1-weighted images (before and after Gadolinium injection) were acquired for each patient. (2) Images of a slice through the center of the tumor were selected for processing. (3) Patient information was removed from the image headers and new names (unrecognizable by the image analysts) were given to the images. These images were blindly analyzed by the image analysts. (4) Segmentation results obtained by the two image analysts at two time points were compared to assess the reproducibility of the segmentation method. For each tissue segmented in each patient study, a comparison was done by kappa statistics and a similarity measure (an approximation of kappa statistics used by other researchers), to evaluate the number of pixels that were in both of the segmentation results obtained by the two image analysts (agreement) relative to the number of pixels that were not in both (disagreement). An overall agreement comparison was done by finding means and standard deviations of kappa statistics and the similarity measure found for each tissue type in the studies. The kappa statistics for white matter was the largest (0.80) followed by those of gray matter (0.68), partial volume (0.67), total lesion (0.66), and CSF (0.44). The similarity measure showed the same trend but it was always higher than kappa statistics. It was 0.85 for white matter, 0.77 for gray matter, 0.73 for partial volume, 0.72 for total lesion, and 0.47 for CSF.

  1. Galaxy Zoo: reproducing galaxy morphologies via machine learning

    NASA Astrophysics Data System (ADS)

    Banerji, Manda; Lahav, Ofer; Lintott, Chris J.; Abdalla, Filipe B.; Schawinski, Kevin; Bamford, Steven P.; Andreescu, Dan; Murray, Phil; Raddick, M. Jordan; Slosar, Anze; Szalay, Alex; Thomas, Daniel; Vandenberg, Jan

    2010-07-01

    We present morphological classifications obtained using machine learning for objects in the Sloan Digital Sky Survey DR6 that have been classified by Galaxy Zoo into three classes, namely early types, spirals and point sources/artefacts. An artificial neural network is trained on a subset of objects classified by the human eye, and we test whether the machine-learning algorithm can reproduce the human classifications for the rest of the sample. We find that the success of the neural network in matching the human classifications depends crucially on the set of input parameters chosen for the machine-learning algorithm. The colours and parameters associated with profile fitting are reasonable in separating the objects into three classes. However, these results are considerably improved when adding adaptive shape parameters as well as concentration and texture. The adaptive moments, concentration and texture parameters alone cannot distinguish between early type galaxies and the point sources/artefacts. Using a set of 12 parameters, the neural network is able to reproduce the human classifications to better than 90 per cent for all three morphological classes. We find that using a training set that is incomplete in magnitude does not degrade our results given our particular choice of the input parameters to the network. We conclude that it is promising to use machine-learning algorithms to perform morphological classification for the next generation of wide-field imaging surveys and that the Galaxy Zoo catalogue provides an invaluable training set for such purposes. This publication has been made possible by the participation of more than 100000 volunteers in the Galaxy Zoo project. Their contributions are individually acknowledged at http://www.galaxyzoo.org/Volunteers.aspx. E-mail: mbanerji@ast.cam.ac.uk ‡ Einstein Fellow.

  2. A workflow for reproducing mean benthic gas fluxes

    NASA Astrophysics Data System (ADS)

    Fulweiler, Robinson W.; Emery, Hollie E.; Maguire, Timothy J.

    2016-08-01

    Long-term data sets provide unique opportunities to examine temporal variability of key ecosystem processes. The need for such data sets is becoming increasingly important as we try to quantify the impact of human activities across various scales and in some cases, as we try to determine the success of management interventions. Unfortunately, long-term benthic flux data sets for coastal ecosystems are rare and curating them is a challenge. If we wish to make our data available to others now and into the future, however, then we need to provide mechanisms that allow others to understand our methods, access the data, reproduce the results, and see updates as they become available. Here we use techniques, learned through the EarthCube Ontosoft Geoscience Paper of the Future project, to develop best practices to allow us to share a long-term data set of directly measured net sediment N2 fluxes and sediment oxygen demand at two sites in Narragansett Bay, Rhode Island (USA). This technical report describes the process we used, the challenges we faced, and the steps we will take in the future to ensure transparency and reproducibility. By developing these data and software sharing tools we hope to help disseminate well-curated data with provenance as well as products from these data, so that the community can better assess how this temperate estuary has changed over time. We also hope to provide a data sharing model for others to follow so that long-term estuarine data are more easily shared and not lost over time.

  3. CIEF method optimization: development of robust and reproducible protein reagent characterization in the clinical immunodiagnostic industry.

    PubMed

    Bonn, Ryan; Rampal, Sushma; Rae, Tracey; Fishpaugh, Jeffrey

    2013-03-01

    Several method parameters have been refined for application of CIEF methods to provide optimal capillary robustness and performance longevity while maintaining desired analytical output for the ever increasing characterization scrutiny of protein reagents used in clinical assay formulations. Demonstrated here are significant modifications to the existing protocols in order to attain a robust, reproducible method that achieves as much as a 20-fold increase in the number of consecutive runs before capillary degradation. Not only is it a concern for the rudimentary analysis of acidic and basic components of the isoform profile for monoclonal antibodies, but a comprehensive identification of each individual isoform to obtain a characteristic fingerprint is necessary for minor distinguishable properties between multiple proteins in unambiguous identification. In order to maintain the integrity of these modifications, extensive studies were conducted on an implemented system suitability standard protein with specifically defined parameters indicating either sufficient or poor separation performance.

  4. Technique for the efficient and reproducible fabrication of electromagnetic levitation coils

    NASA Technical Reports Server (NTRS)

    Ethridge, E. C.; Curreri, P. A.; Theiss, J.; Abbaschian, G. J.

    1984-01-01

    A technique has been developed for fabricating electromagnetic induction coils in a reproducible manner. The process utilizes a split mandrel that can be disassembled to remove the mandrel from the coil. The technique has increased coil production rates by a factor of 8 over the freehand winding method. The success rate for producing a functional levitation coil has been increased from 50 percent to 95 percent. The levitation coil designed during this work has successfully levitated and melted a variety of alloys including Cu, Ag, Ag-Ni, Cu-Fe, Fe-C, and Nb-Ge. W was also levitated but not melted at temperatures as high as 2700 C. The highest sample melt temperature achieved was 2400 C for the Nb-Ge samples.

  5. Regional cerebral blood flow utilizing the gamma camera and xenon inhalation: reproducibility and clinical applications

    SciTech Connect

    Fox, R.A.; Knuckey, N.W.; Fleay, R.F.; Stokes, B.A.; Van der Schaaf, A.; Surveyor, I.

    1985-11-01

    A modified collimator and standard gamma camera have been used to measure regional cerebral blood flow following inhalation of radioactive xenon. The collimator and a simplified analysis technique enables excellent statistical accuracy to be achieved with acceptable precision in the measurement of grey matter blood flow. The validity of the analysis was supported by computer modelling and patient measurements. Sixty-one patients with subarachnoid hemorrhage, cerebrovascular disease or dementia were retested to determine the reproducibility of our method. The measured coefficient of variation was 6.5%. Of forty-six patients who had a proven subarachnoid hemorrhage, 15 subsequently developed cerebral ischaemia. These showed a CBF of 42 +/- 6 ml X minute-1 X 100 g brain-1 compared with 49 +/- 11 ml X minute-1 X 100 g brain-1 for the remainder. There is evidence that decreasing blood flow and low initial flow correlate with the subsequent onset of cerebral ischemia.

  6. Dimensional stability of polyvinyl siloxane impression material reproducing the sulcular area.

    PubMed

    Levartovsky, Shifra; Levy, Guy; Brosh, Tamar; Harel, Noga; Ganor, Yehuda; Pilo, Raphael

    2013-01-01

    The dimensional stability of a thin intra sulcular impression material reproducing the preparation finish line was evaluated. Impressions were taken of a stainless-steel master model of a simulated abutment with a 'gingival sulcus' using Express regular, Express fast and Aquasil. The putty-wash two-step technique was applied with spacer thicknesses of 0.5, 1 and 1.5 mm. Mid mesiodistal and bucco-lingual measurements were taken directly from the sulcular impression material after 0.5, 2, 24, 48 and 72 h via a Toolmaker's microscope. The discrepancies between the measurements of the impression material and the master model were calculated. The discrepancies changed significantly over time (p<0.001). The use of a 0.5 mm spacer resulted in a negative deviation from the model (2-46 µm), minimally after 2 h. The use of 1 and 1.5 mm spacers showed a positive deviation from the model (21-52 µm) and both are equally recommended. Investment can be postponed until 72 h.

  7. Development of an air-knife system for highly reproducible fabrication of polydimethylsiloxane microstencils

    NASA Astrophysics Data System (ADS)

    Choi, Jin Ho; Kim, Gyu Man

    2015-08-01

    In this study, an air-knife system was developed for the automated fabrication of polymer microstencils with microscale perforated patterns. Blowing compressed N2 gas through the air knife provided a uniform laminar gas flow of high intensity suitable for perforating holes in the stencil. The polydimethylsiloxane (PDMS) stencil was replicated from a master mold prepared by photolithography. When the prepolymer of PDMS was spin-coated onto the master mold, a thin layer of the prepolymer remained on top of the master's structure and consequently prevented the formation of the perforated patterns. This residual layer was easily removed by the presented air knife. The air-knife system controlled the flow rate of N2 gas and the conveying speed of the master mold; therefore, the system possessed high reproducibility compared to manual gas blowing. Its use reduced the fabrication time for perforated biocompatible polymer microstencils, allowing for their mass production via an automated system. The validity of this suggested method was proven through experiments and was evaluated by application in various fields.

  8. Optimization of laser scribing for thin-film PV modules. Annual technical progress report, 12 April 1995--11 April 1996

    SciTech Connect

    Compaan, A.D.; Jayamaha, U.; Matulionis, I.; Miller, M.J.

    1996-10-01

    One of the most important aspects in moving from the cell level to the integrated module level in thin-film photovoltaics is to achieve reliable and reproducible cell interconnects having low series resistance and high shunt resistance, and to do this with a minimum of dead area between cells. It is known that mechanical scribing often produces considerable damage (e.g., film tearing) surrounding the scribe. Laser scribing has shown the potential for superior scribe widths and profiles for many of the materials involved with thin-film PV. However, problems arc also known to occur with a heat-affected zone around the scribe, and for some materials and some focus conditions high positive ridges or collars are left along the scribe line. The commercially-available scribing systems have been optimized typically for other applications and other materials such as scribing of crystalline Si. Optimum operation for thin-film PV materials has been investigated by several PV manufacturers but there has been limited discussion of problems or of optimum parameters in the open literature. Furthermore, to our knowledge, there has been little investigation of the applicability, for thin-film PV, of laser systems other than the traditional cw lamp-pumped, Q-switched Nd:YAG.

  9. Charge multiplication effect in thin diamond films

    NASA Astrophysics Data System (ADS)

    Skukan, N.; Grilj, V.; Sudić, I.; Pomorski, M.; Kada, W.; Makino, T.; Kambayashi, Y.; Andoh, Y.; Onoda, S.; Sato, S.; Ohshima, T.; Kamiya, T.; Jakšić, M.

    2016-07-01

    Herein, we report on the enhanced sensitivity for the detection of charged particles in single crystal chemical vapour deposition (scCVD) diamond radiation detectors. The experimental results demonstrate charge multiplication in thin planar diamond membrane detectors, upon impact of 18 MeV O ions, under high electric field conditions. Avalanche multiplication is widely exploited in devices such as avalanche photo diodes, but has never before been reproducibly observed in intrinsic CVD diamond. Because enhanced sensitivity for charged particle detection is obtained for short charge drift lengths without dark counts, this effect could be further exploited in the development of sensors based on avalanche multiplication and radiation detectors with extreme radiation hardness.

  10. Iowa Women of Achievement.

    ERIC Educational Resources Information Center

    Ohrn, Deborah Gore, Ed.

    1993-01-01

    This issue of the Goldfinch highlights some of Iowa's 20th century women of achievement. These women have devoted their lives to working for human rights, education, equality, and individual rights. They come from the worlds of politics, art, music, education, sports, business, entertainment, and social work. They represent Native Americans,…

  11. Achieving Peace through Education.

    ERIC Educational Resources Information Center

    Clarken, Rodney H.

    While it is generally agreed that peace is desirable, there are barriers to achieving a peaceful world. These barriers are classified into three major areas: (1) an erroneous view of human nature; (2) injustice; and (3) fear of world unity. In a discussion of these barriers, it is noted that although the consciousness and conscience of the world…

  12. Increasing Male Academic Achievement

    ERIC Educational Resources Information Center

    Jackson, Barbara Talbert

    2008-01-01

    The No Child Left Behind legislation has brought greater attention to the academic performance of American youth. Its emphasis on student achievement requires a closer analysis of assessment data by school districts. To address the findings, educators must seek strategies to remedy failing results. In a mid-Atlantic district of the Unites States,…

  13. Leadership Issues: Raising Achievement.

    ERIC Educational Resources Information Center

    Horsfall, Chris, Ed.

    This document contains five papers examining the meaning and operation of leadership as a variable affecting student achievement in further education colleges in the United Kingdom. "Introduction" (Chris Horsfall) discusses school effectiveness studies' findings regarding the relationship between leadership and effective schools, distinguishes…

  14. Achievements or Disasters?

    ERIC Educational Resources Information Center

    Goodwin, MacArthur

    2000-01-01

    Focuses on policy issues that have affected arts education in the twentieth century, such as: interest in discipline-based arts education, influence of national arts associations, and national standards and coordinated assessment. States that whether the policy decisions are viewed as achievements or disasters are for future determination. (CMK)

  15. Achieving True Consensus.

    ERIC Educational Resources Information Center

    Napier, Rod; Sanaghan, Patrick

    2002-01-01

    Uses the example of Vermont's Middlebury College to explore the challenges and possibilities of achieving consensus about institutional change. Discusses why, unlike in this example, consensus usually fails, and presents four demands of an effective consensus process. Includes a list of "test" questions on successful collaboration. (EV)

  16. School Students' Science Achievement

    ERIC Educational Resources Information Center

    Shymansky, James; Wang, Tzu-Ling; Annetta, Leonard; Everett, Susan; Yore, Larry D.

    2013-01-01

    This paper is a report of the impact of an externally funded, multiyear systemic reform project on students' science achievement on a modified version of the Third International Mathematics and Science Study (TIMSS) test in 33 small, rural school districts in two Midwest states. The systemic reform effort utilized a cascading leadership strategy…

  17. Essays on Educational Achievement

    ERIC Educational Resources Information Center

    Ampaabeng, Samuel Kofi

    2013-01-01

    This dissertation examines the determinants of student outcomes--achievement, attainment, occupational choices and earnings--in three different contexts. The first two chapters focus on Ghana while the final chapter focuses on the US state of Massachusetts. In the first chapter, I exploit the incidence of famine and malnutrition that resulted to…

  18. Assessing Handwriting Achievement.

    ERIC Educational Resources Information Center

    Ediger, Marlow

    Teachers in the school setting need to emphasize quality handwriting across the curriculum. Quality handwriting means that the written content is easy to read in either manuscript or cursive form. Handwriting achievement can be assessed, but not compared to the precision of assessing basic addition, subtraction, multiplication, and division facts.…

  19. Intelligence and Educational Achievement

    ERIC Educational Resources Information Center

    Deary, Ian J.; Strand, Steve; Smith, Pauline; Fernandes, Cres

    2007-01-01

    This 5-year prospective longitudinal study of 70,000+ English children examined the association between psychometric intelligence at age 11 years and educational achievement in national examinations in 25 academic subjects at age 16. The correlation between a latent intelligence trait (Spearman's "g"from CAT2E) and a latent trait of educational…

  20. Explorations in achievement motivation

    NASA Technical Reports Server (NTRS)

    Helmreich, Robert L.

    1982-01-01

    Recent research on the nature of achievement motivation is reviewed. A three-factor model of intrinsic motives is presented and related to various criteria of performance, job satisfaction and leisure activities. The relationships between intrinsic and extrinsic motives are discussed. Needed areas for future research are described.

  1. NCLB: Achievement Robin Hood?

    ERIC Educational Resources Information Center

    Bracey, Gerald W.

    2008-01-01

    In his "Wall Street Journal" op-ed on the 25th of anniversary of "A Nation At Risk", former assistant secretary of education Chester E. Finn Jr. applauded the report for turning U.S. education away from equality and toward achievement. It was not surprising, then, that in mid-2008, Finn arranged a conference to examine the potential "Robin Hood…

  2. Achieving All Our Ambitions

    ERIC Educational Resources Information Center

    Hartley, Tricia

    2009-01-01

    National learning and skills policy aims both to build economic prosperity and to achieve social justice. Participation in higher education (HE) has the potential to contribute substantially to both aims. That is why the Campaign for Learning has supported the ambition to increase the proportion of the working-age population with a Level 4…

  3. INTELLIGENCE, PERSONALITY AND ACHIEVEMENT.

    ERIC Educational Resources Information Center

    MUIR, R.C.; AND OTHERS

    A LONGITUDINAL DEVELOPMENTAL STUDY OF A GROUP OF MIDDLE CLASS CHILDREN IS DESCRIBED, WITH EMPHASIS ON A SEGMENT OF THE RESEARCH INVESTIGATING THE RELATIONSHIP OF ACHIEVEMENT, INTELLIGENCE, AND EMOTIONAL DISTURBANCE. THE SUBJECTS WERE 105 CHILDREN AGED FIVE TO 6.3 ATTENDING TWO SCHOOLS IN MONTREAL. EACH CHILD WAS ASSESSED IN THE AREAS OF…

  4. SALT and Spelling Achievement.

    ERIC Educational Resources Information Center

    Nelson, Joan

    A study investigated the effects of suggestopedic accelerative learning and teaching (SALT) on the spelling achievement, attitudes toward school, and memory skills of fourth-grade students. Subjects were 20 male and 28 female students from two self-contained classrooms at Kennedy Elementary School in Rexburg, Idaho. The control classroom and the…

  5. Appraising Reading Achievement.

    ERIC Educational Resources Information Center

    Ediger, Marlow

    To determine quality sequence in pupil progress, evaluation approaches need to be used which guide the teacher to assist learners to attain optimally. Teachers must use a variety of procedures to appraise student achievement in reading, because no one approach is adequate. Appraisal approaches might include: (1) observation and subsequent…

  6. Thin EFG octagons

    NASA Astrophysics Data System (ADS)

    Kalejs, J. P.

    1994-01-01

    Mobil Solar Energy Corporation currently practices a unique crystal growth technology for producing crystalline silicon sheet, which is then cut with lasers into wafers. The wafers are processed into solar cells and incorporated into modules for photovoltaic applications. The silicon sheet is produced using a method known as Edge-defined Film-fed growth (EFG), in the form of hollow eight-sided polygons (octagons) with 10 cm faces. These are grown to lengths of 5 meters and thickness of 300 microns, with continuous melt replenishment, in compact furnaces designed to operate at a high sheet area production area of 135 sq cm/min. The present Photovoltaic Manufacturing Technology (PVMaT) three-year program seeks to advance the manufacturing line capabilities of the Mobil Solar crystal growth and cutting technologies. If successful, these advancements will provide significant reductions in already low silicon raw material usage, improve process productivity, laser cutting throughput and yield, and so lower both individual wafer cost and the cost of module production. This report summarizes the significant technical improvements in EFG technology achieved in Phase 1 of this program. Technical results are reported for each of the three main program areas: (1) thin octagon growth (crystal growth) -- to reduce the thickness of the octagon to an interim goal of 250 microns during Phase 1, with an ultimate goal of achieving 200 micron thicknesses; (2) laser cutting -- to improve the laser cutting process, so as to produce wafers with decreased laser cutting damage at increased wafer throughput rates; and (3) process control and product specification -- to implement advanced strategies in crystal growth process control and productivity designed to increase wafer yields.

  7. Transparent conductive oxides for thin-film silicon solar cells

    NASA Astrophysics Data System (ADS)

    Löffler, J.

    2005-04-01

    This thesis describes research on thin-film silicon solar cells with focus on the transparent conductive oxide (TCO) for such devices. In addition to the formation of a transparent and electrically conductive front electrode for the solar cell allowing photocurrent collection with low ohmic losses, the front TCO plays an important role for the light enhancement of thin-film silicon pin type solar cells. If the TCO is rough, light scattering at rough interfaces in the solar cell in combination with a highly reflective back contact leads to an increase in optical path length of the light. Multiple (total) internal reflectance leads to virtual 'trapping' of the light in the solar cell structure, allowing a further decrease in absorber thickness and thus thin-film silicon solar cell devices with higher and more stable efficiency. Here, the optical mechanisms involved in the light trapping in thin-film silicon solar cells have been studied, and two types of front TCO materials have been investigated with respect to their suitability as front TCO in thin-film silicon pin type solar cells. Undoped and aluminum doped zinc oxide layers have been fabricated for the first time by the expanding thermal plasma chemical vapour deposition (ETP CVD) technique at substrate temperatures between 150 º C and 350 º C, and successfully implemented as a front electrode material for amorphous silicon pin superstrate type solar cells. Solar cells with efficiencies comparable to cells on Asahi U-type reference TCO have been reproducibly obtained. A higher haze is needed for the ZnO samples studied here than for Asahi U-type TCO in order to achieve comparable long wavelength response of the solar cells. This is attributed to the different angular distribution of the scattered light, showing higher scattering intensities at large angles for the Asahi U-type TCO. A barrier at the TCO/p interface and minor collection problems may explain the slightly lower fill factors obtained for the cells

  8. Magnetization reversal in ferromagnetic thin films induced by spin-orbit interaction with Slonczewski-like spin transfer torque

    SciTech Connect

    Li, Jia

    2014-10-07

    We theoretically investigate the dynamics of magnetization in ferromagnetic thin films induced by spin-orbit interaction with Slonczewski-like spin transfer torque. We reproduce the experimental results of perpendicular magnetic anisotropy films by micromagnetic simulation. Due to the spin-orbit interaction, the magnetization can be switched by changing the direction of the current with the assistant of magnetic field. By increasing the current amplitude, wider range of switching events can be achieved. Time evolution of magnetization has provided us a clear view of the process, and explained the role of minimum external field. Slonczewski-like spin transfer torque modifies the magnetization when current is present. The magnitude of the minimum external field is determined by the strength of the Slonczewski-like spin transfer torque. The investigations may provide potential applications in magnetic memories.

  9. Project ACHIEVE final report

    SciTech Connect

    1997-06-13

    Project ACHIEVE was a math/science academic enhancement program aimed at first year high school Hispanic American students. Four high schools -- two in El Paso, Texas and two in Bakersfield, California -- participated in this Department of Energy-funded program during the spring and summer of 1996. Over 50 students, many of whom felt they were facing a nightmare future, were given the opportunity to work closely with personal computers and software, sophisticated calculators, and computer-based laboratories -- an experience which their regular academic curriculum did not provide. Math and science projects, exercises, and experiments were completed that emphasized independent and creative applications of scientific and mathematical theories to real world problems. The most important outcome was the exposure Project ACHIEVE provided to students concerning the college and technical-field career possibilities available to them.

  10. Developmental pesticide exposure reproduces features of attention deficit hyperactivity disorder

    PubMed Central

    Richardson, Jason R.; Taylor, Michele M.; Shalat, Stuart L.; Guillot, Thomas S.; Caudle, W. Michael; Hossain, Muhammad M.; Mathews, Tiffany A.; Jones, Sara R.; Cory-Slechta, Deborah A.; Miller, Gary W.

    2015-01-01

    Attention-deficit hyperactivity disorder (ADHD) is estimated to affect 8–12% of school-age children worldwide. ADHD is a complex disorder with significant genetic contributions. However, no single gene has been linked to a significant percentage of cases, suggesting that environmental factors may contribute to ADHD. Here, we used behavioral, molecular, and neurochemical techniques to characterize the effects of developmental exposure to the pyrethroid pesticide deltamethrin. We also used epidemiologic methods to determine whether there is an association between pyrethroid exposure and diagnosis of ADHD. Mice exposed to the pyrethroid pesticide deltamethrin during development exhibit several features reminiscent of ADHD, including elevated dopamine transporter (DAT) levels, hyperactivity, working memory and attention deficits, and impulsive-like behavior. Increased DAT and D1 dopamine receptor levels appear to be responsible for the behavioral deficits. Epidemiologic data reveal that children aged 6–15 with detectable levels of pyrethroid metabolites in their urine were more than twice as likely to be diagnosed with ADHD. Our epidemiologic finding, combined with the recapitulation of ADHD behavior in pesticide-treated mice, provides a mechanistic basis to suggest that developmental pyrethroid exposure is a risk factor for ADHD.—Richardson, J. R., Taylor, M. M., Shalat, S. L., Guillot III, T. S., Caudle, W. M., Hossain, M. M., Mathews, T. A., Jones, S. R., Cory-Slechta, D. A., Miller, G. W. Developmental pesticide exposure reproduces features of attention deficit hyperactivity disorder. PMID:25630971

  11. Reproducibility and reliability of fetal cardiac time intervals using magnetocardiography.

    PubMed

    van Leeuwen, P; Lange, S; Klein, A; Geue, D; Zhang, Y; Krause, H J; Grönemeyer, D

    2004-04-01

    We investigated several factors which may affect the accuracy of fetal cardiac time intervals (CTI) determined in magnetocardiographic (MCG) recordings: observer differences, the number of available recording sites and the type of sensor used in acquisition. In 253 fetal MCG recordings, acquired using different biomagnetometer devices between the 15th and 42nd weeks of gestation, P-wave, QRS complex and T-wave onsets and ends were identified in signal averaged data sets independently by different observers. Using a defined procedure for setting signal events, interobserver reliability was high. Increasing the number of registration sites led to more accurate identification of the events. The differences in wave morphology between magnetometer and gradiometer configurations led to deviations in timing whereas the differences between low and high temperature devices seemed to be primarily due to noise. Signal-to-noise ratio played an important overall role in the accurate determination of CTI and changes in signal amplitude associated with fetal maturation may largely explain the effects of gestational age on reproducibility. As fetal CTI may be of value in the identification of pathologies such as intrauterine growth retardation or fetal cardiac hypertrophy, their reliable estimation will be enhanced by strategies which take these factors into account.

  12. The rapid reproducers paradox: population control and individual procreative rights.

    PubMed

    Wissenburg, M

    1998-01-01

    This article argues that population policies need to be evaluated from macro and micro perspectives and to consider individual rights. Ecological arguments that are stringent conditions of liberal democracy are assessed against a moral standard. The moral standard is applied to a series of reasons for limiting procreative rights in the cause of sustainability. The focus is directly on legally enforced antinatalist measures and not on indirect policies with incentives and disincentives. The explicit assumption is that population policy violates the fairness to individuals for societal gain and that population policies are incompatible with stringent conditions of liberal democracy. The author identifies the individual-societal tradeoff as the "rapid reproducers paradox." The perfect sustainable population level is either not possible or is a repugnant alternative. 12 ecological arguments are presented, and none are found compatible with notions of a liberal democracy. Three alternative antinatalist options are the acceptance of less rigid and still coercive policies, amendments to the conception of liberal democracy, or loss of hope and choice of noncoercive solutions to sustainability, none of which is found viable. If voluntary abstinence and distributive solutions fail, then frugal demand options and technological supply options both will be necessary.

  13. A silicon retina that reproduces signals in the optic nerve.

    PubMed

    Zaghloul, Kareem A; Boahen, Kwabena

    2006-12-01

    Prosthetic devices may someday be used to treat lesions of the central nervous system. Similar to neural circuits, these prosthetic devices should adapt their properties over time, independent of external control. Here we describe an artificial retina, constructed in silicon using single-transistor synaptic primitives, with two forms of locally controlled adaptation: luminance adaptation and contrast gain control. Both forms of adaptation rely on local modulation of synaptic strength, thus meeting the criteria of internal control. Our device is the first to reproduce the responses of the four major ganglion cell types that drive visual cortex, producing 3600 spiking outputs in total. We demonstrate how the responses of our device's ganglion cells compare to those measured from the mammalian retina. Replicating the retina's synaptic organization in our chip made it possible to perform these computations using a hundred times less energy than a microprocessor-and to match the mammalian retina in size and weight. With this level of efficiency and autonomy, it is now possible to develop fully implantable intraocular prostheses.

  14. High Reproducibility of ELISPOT Counts from Nine Different Laboratories.

    PubMed

    Sundararaman, Srividya; Karulin, Alexey Y; Ansari, Tameem; BenHamouda, Nadine; Gottwein, Judith; Laxmanan, Sreenivas; Levine, Steven M; Loffredo, John T; McArdle, Stephanie; Neudoerfl, Christine; Roen, Diana; Silina, Karina; Welch, Mackenzie; Lehmann, Paul V

    2015-01-01

    The primary goal of immune monitoring with ELISPOT is to measure the number of T cells, specific for any antigen, accurately and reproducibly between different laboratories. In ELISPOT assays, antigen-specific T cells secrete cytokines, forming spots of different sizes on a membrane with variable background intensities. Due to the subjective nature of judging maximal and minimal spot sizes, different investigators come up with different numbers. This study aims to determine whether statistics-based, automated size-gating can harmonize the number of spot counts calculated between different laboratories. We plated PBMC at four different concentrations, 24 replicates each, in an IFN-γ ELISPOT assay with HCMV pp65 antigen. The ELISPOT plate, and an image file of the plate was counted in nine different laboratories using ImmunoSpot® Analyzers by (A) Basic Count™ relying on subjective counting parameters set by the respective investigators and (B) SmartCount™, an automated counting protocol by the ImmunoSpot® Software that uses statistics-based spot size auto-gating with spot intensity auto-thresholding. The average coefficient of variation (CV) for the mean values between independent laboratories was 26.7% when counting with Basic Count™, and 6.7% when counting with SmartCount™. Our data indicates that SmartCount™ allows harmonization of counting ELISPOT results between different laboratories and investigators. PMID:25585297

  15. Reproducing Natural Spider Silks’ Copolymer Behavior in Synthetic Silk Mimics

    PubMed Central

    An, Bo; Jenkins, Janelle E.; Sampath, Sujatha; Holland, Gregory P.; Hinman, Mike; Yarger, Jeffery L.; Lewis, Randolph

    2012-01-01

    Dragline silk from orb-weaving spiders is a copolymer of two large proteins, major ampullate spidroin 1 (MaSp1) and 2 (MaSp2). The ratio of these proteins is known to have a large variation across different species of orb-weaving spiders. NMR results from gland material of two different species of spiders, N. clavipes and A. aurantia, indicates that MaSp1 proteins are more easily formed into β-sheet nanostructures, while MaSp2 proteins form random coil and helical structures. To test if this behavior of natural silk proteins could be reproduced by recombinantly produced spider silk mimic protein, recombinant MaSp1/MaSp2 mixed fibers as well as chimeric silk fibers from MaSp1 and MaSp2 sequences in a single protein were produced based on the variable ratio and conserved motifs of MaSp1 and MaSp2 in native silk fiber. Mechanical properties, solid-state NMR, and XRD results of tested synthetic fibers indicate the differing roles of MaSp1 and MaSp2 in the fiber and verify the importance of postspin stretching treatment in helping the fiber to form the proper spatial structure. PMID:23110450

  16. Repeatability and reproducibility of aquatic testing with zinc dithiophosphate

    SciTech Connect

    Hooter, D.L.; Hoke, D.I.; Kraska, R.C.; Wojewodka, R.A.

    1994-12-31

    This testing program was designed to characterize the repeatability and reproducibility of aquatic screening studies with a water insoluble chemical substance. Zinc dithiophosphate was selected for its limited water solubility and moderate aquatic toxicity. Acute tests were conducted using fathead minnows and Daphnia magna, according to guidelines developed to minimize random sources of non-repeatability. Zinc dithiosphosphate was exposed to the organisms in static tests using an oil-water dispersion method for the fathead minnows, and a water-accommodated-fraction method for the Daphnia magna. Testing was conducted in moderately hard water with pre-determined nominal concentrations of 0. 1, 1.0, 10.0, 100.00, and 1000.0 ppm or ppm WAF. 24 studies were contracted among 3 separate commercial contract laboratories. The program results demonstrate the diverse range of intralaboratory and interlaboratory variability based on the organism type, and emphasize the need for further study and caution in the design, and implementation of aquatic testing for insoluble materials.

  17. Diet rapidly and reproducibly alters the human gut microbiome.

    PubMed

    David, Lawrence A; Maurice, Corinne F; Carmody, Rachel N; Gootenberg, David B; Button, Julie E; Wolfe, Benjamin E; Ling, Alisha V; Devlin, A Sloan; Varma, Yug; Fischbach, Michael A; Biddinger, Sudha B; Dutton, Rachel J; Turnbaugh, Peter J

    2014-01-23

    Long-term dietary intake influences the structure and activity of the trillions of microorganisms residing in the human gut, but it remains unclear how rapidly and reproducibly the human gut microbiome responds to short-term macronutrient change. Here we show that the short-term consumption of diets composed entirely of animal or plant products alters microbial community structure and overwhelms inter-individual differences in microbial gene expression. The animal-based diet increased the abundance of bile-tolerant microorganisms (Alistipes, Bilophila and Bacteroides) and decreased the levels of Firmicutes that metabolize dietary plant polysaccharides (Roseburia, Eubacterium rectale and Ruminococcus bromii). Microbial activity mirrored differences between herbivorous and carnivorous mammals, reflecting trade-offs between carbohydrate and protein fermentation. Foodborne microbes from both diets transiently colonized the gut, including bacteria, fungi and even viruses. Finally, increases in the abundance and activity of Bilophila wadsworthia on the animal-based diet support a link between dietary fat, bile acids and the outgrowth of microorganisms capable of triggering inflammatory bowel disease. In concert, these results demonstrate that the gut microbiome can rapidly respond to altered diet, potentially facilitating the diversity of human dietary lifestyles.

  18. Virtual Raters for Reproducible and Objective Assessments in Radiology.

    PubMed

    Kleesiek, Jens; Petersen, Jens; Döring, Markus; Maier-Hein, Klaus; Köthe, Ullrich; Wick, Wolfgang; Hamprecht, Fred A; Bendszus, Martin; Biller, Armin

    2016-04-27

    Volumetric measurements in radiologic images are important for monitoring tumor growth and treatment response. To make these more reproducible and objective we introduce the concept of virtual raters (VRs). A virtual rater is obtained by combining knowledge of machine-learning algorithms trained with past annotations of multiple human raters with the instantaneous rating of one human expert. Thus, he is virtually guided by several experts. To evaluate the approach we perform experiments with multi-channel magnetic resonance imaging (MRI) data sets. Next to gross tumor volume (GTV) we also investigate subcategories like edema, contrast-enhancing and non-enhancing tumor. The first data set consists of N = 71 longitudinal follow-up scans of 15 patients suffering from glioblastoma (GB). The second data set comprises N = 30 scans of low- and high-grade gliomas. For comparison we computed Pearson Correlation, Intra-class Correlation Coefficient (ICC) and Dice score. Virtual raters always lead to an improvement w.r.t. inter- and intra-rater agreement. Comparing the 2D Response Assessment in Neuro-Oncology (RANO) measurements to the volumetric measurements of the virtual raters results in one-third of the cases in a deviating rating. Hence, we believe that our approach will have an impact on the evaluation of clinical studies as well as on routine imaging diagnostics.

  19. Accurate measurements of dynamics and reproducibility in small genetic networks

    PubMed Central

    Dubuis, Julien O; Samanta, Reba; Gregor, Thomas

    2013-01-01

    Quantification of gene expression has become a central tool for understanding genetic networks. In many systems, the only viable way to measure protein levels is by immunofluorescence, which is notorious for its limited accuracy. Using the early Drosophila embryo as an example, we show that careful identification and control of experimental error allows for highly accurate gene expression measurements. We generated antibodies in different host species, allowing for simultaneous staining of four Drosophila gap genes in individual embryos. Careful error analysis of hundreds of expression profiles reveals that less than ∼20% of the observed embryo-to-embryo fluctuations stem from experimental error. These measurements make it possible to extract not only very accurate mean gene expression profiles but also their naturally occurring fluctuations of biological origin and corresponding cross-correlations. We use this analysis to extract gap gene profile dynamics with ∼1 min accuracy. The combination of these new measurements and analysis techniques reveals a twofold increase in profile reproducibility owing to a collective network dynamics that relays positional accuracy from the maternal gradients to the pair-rule genes. PMID:23340845

  20. Reproducibility of tactile assessments for children with unilateral cerebral palsy.

    PubMed

    Auld, Megan Louise; Ware, Robert S; Boyd, Roslyn Nancy; Moseley, G Lorimer; Johnston, Leanne Marie

    2012-05-01

    A systematic review identified tactile assessments used in children with cerebral palsy (CP), but their reproducibility is unknown. Sixteen children with unilateral CP and 31 typically developing children (TDC) were assessed 2-4 weeks apart. Test-retest percent agreements within one point for children with unilateral CP (and TDC) were Semmes-Weinstein monofilaments: 75% (90%); single-point localization: 69% (97%); static two-point discrimination: 93% (97%); and moving two-point discrimination: 87% (97%). Test-retest reliability for registration and unilateral spatial tactile perception tests was high in children with CP (intraclass correlation coefficient [ICC] = 0.79-0.96). Two tests demonstrated a learning effect for children with CP, double simultaneous and tactile texture perception. Stereognosis had a ceiling effect for TDC (ICC = 0) and variability for children with CP (% exact agreement = 47%-50%). The Semmes-Weinstein monofilaments, single-point localization, and both static and moving two-point discrimination are recommended for use in practice and research. Although recommended to provide a comprehensive assessment, the measures of double simultaneous, stereognosis, and tactile texture perception may not be responsive to change over time in children with unilateral CP.

  1. Reproducibility of Vibrionaceae population structure in coastal bacterioplankton

    PubMed Central

    Szabo, Gitta; Preheim, Sarah P; Kauffman, Kathryn M; David, Lawrence A; Shapiro, Jesse; Alm, Eric J; Polz, Martin F

    2013-01-01

    How reproducibly microbial populations assemble in the wild remains poorly understood. Here, we assess evidence for ecological specialization and predictability of fine-scale population structure and habitat association in coastal ocean Vibrionaceae across years. We compare Vibrionaceae lifestyles in the bacterioplankton (combinations of free-living, particle, or zooplankton associations) measured using the same sampling scheme in 2006 and 2009 to assess whether the same groups show the same environmental association year after year. This reveals complex dynamics with populations falling primarily into two categories: (i) nearly equally represented in each of the two samplings and (ii) highly skewed, often to an extent that they appear exclusive to one or the other sampling times. Importantly, populations recovered at the same abundance in both samplings occupied highly similar habitats suggesting predictable and robust environmental association while skewed abundances of some populations may be triggered by shifts in ecological conditions. The latter is supported by difference in the composition of large eukaryotic plankton between years, with samples in 2006 being dominated by copepods, and those in 2009 by diatoms. Overall, the comparison supports highly predictable population-habitat linkage but highlights the fact that complex, and often unmeasured, environmental dynamics in habitat occurrence may have strong effects on population dynamics. PMID:23178668

  2. Reproducibility of cold provocation in patients with Raynaud's phenomenon.

    PubMed

    Wigley, F M; Malamet, R; Wise, R A

    1987-08-01

    Twenty-five patients with Raynaud's phenomenon had serial cold challenges during a double blinded drug trial. The data were analyzed to determine the reproducibility of cold provocation in the induction of critical closure of the digital artery in patients with Raynaud's phenomenon. Finger systolic pressure (FSP) was measured after local digital cooling using a digital strain gauge placed around the distal phalanx. Nineteen of 25 patients completed the study. The prevalence of inducing a Raynaud's attack decreased with each successive cold challenge from 74% of patients at initial challenge to 42% at the 3rd challenge. A lower temperature was required to induce a Raynaud's attack at last challenge (10.6 +/- 0.6 degrees C) compared to the first cold challenge (13.2 +/- 1.0 degrees C). Our data demonstrate adaptation to a laboratory cold challenge through the winter months in patients with Raynaud's phenomenon and show it is an important factor in objectively assessing drug efficacy in the treatment of Raynaud's phenomenon.

  3. Reproducing natural spider silks' copolymer behavior in synthetic silk mimics.

    PubMed

    An, Bo; Jenkins, Janelle E; Sampath, Sujatha; Holland, Gregory P; Hinman, Mike; Yarger, Jeffery L; Lewis, Randolph

    2012-12-10

    Dragline silk from orb-weaving spiders is a copolymer of two large proteins, major ampullate spidroin 1 (MaSp1) and 2 (MaSp2). The ratio of these proteins is known to have a large variation across different species of orb-weaving spiders. NMR results from gland material of two different species of spiders, N. clavipes and A. aurantia , indicates that MaSp1 proteins are more easily formed into β-sheet nanostructures, while MaSp2 proteins form random coil and helical structures. To test if this behavior of natural silk proteins could be reproduced by recombinantly produced spider silk mimic protein, recombinant MaSp1/MaSp2 mixed fibers as well as chimeric silk fibers from MaSp1 and MaSp2 sequences in a single protein were produced based on the variable ratio and conserved motifs of MaSp1 and MaSp2 in native silk fiber. Mechanical properties, solid-state NMR, and XRD results of tested synthetic fibers indicate the differing roles of MaSp1 and MaSp2 in the fiber and verify the importance of postspin stretching treatment in helping the fiber to form the proper spatial structure. PMID:23110450

  4. Reproducing Natural Spider Silks' Copolymer Behavior in Synthetic Silk Mimics

    SciTech Connect

    An, Bo; Jenkins, Janelle E; Sampath, Sujatha; Holland, Gregory P; Hinman, Mike; Yarger, Jeffery L; Lewis, Randolph

    2012-10-30

    Dragline silk from orb-weaving spiders is a copolymer of two large proteins, major ampullate spidroin 1 (MaSp1) and 2 (MaSp2). The ratio of these proteins is known to have a large variation across different species of orb-weaving spiders. NMR results from gland material of two different species of spiders, N. clavipes and A. aurantia, indicates that MaSp1 proteins are more easily formed into β-sheet nanostructures, while MaSp2 proteins form random coil and helical structures. To test if this behavior of natural silk proteins could be reproduced by recombinantly produced spider silk mimic protein, recombinant MaSp1/MaSp2 mixed fibers as well as chimeric silk fibers from MaSp1 and MaSp2 sequences in a single protein were produced based on the variable ratio and conserved motifs of MaSp1 and MaSp2 in native silk fiber. Mechanical properties, solid-state NMR, and XRD results of tested synthetic fibers indicate the differing roles of MaSp1 and MaSp2 in the fiber and verify the importance of postspin stretching treatment in helping the fiber to form the proper spatial structure.

  5. A silicon retina that reproduces signals in the optic nerve

    NASA Astrophysics Data System (ADS)

    Zaghloul, Kareem A.; Boahen, Kwabena

    2006-12-01

    Prosthetic devices may someday be used to treat lesions of the central nervous system. Similar to neural circuits, these prosthetic devices should adapt their properties over time, independent of external control. Here we describe an artificial retina, constructed in silicon using single-transistor synaptic primitives, with two forms of locally controlled adaptation: luminance adaptation and contrast gain control. Both forms of adaptation rely on local modulation of synaptic strength, thus meeting the criteria of internal control. Our device is the first to reproduce the responses of the four major ganglion cell types that drive visual cortex, producing 3600 spiking outputs in total. We demonstrate how the responses of our device's ganglion cells compare to those measured from the mammalian retina. Replicating the retina's synaptic organization in our chip made it possible to perform these computations using a hundred times less energy than a microprocessor—and to match the mammalian retina in size and weight. With this level of efficiency and autonomy, it is now possible to develop fully implantable intraocular prostheses.

  6. Stochastic simulations of minimal self-reproducing cellular systems.

    PubMed

    Mavelli, Fabio; Ruiz-Mirazo, Kepa

    2007-10-29

    This paper is a theoretical attempt to gain insight into the problem of how self-assembling vesicles (closed bilayer structures) could progressively turn into minimal self-producing and self-reproducing cells, i.e. into interesting candidates for (proto)biological systems. With this aim, we make use of a recently developed object-oriented platform to carry out stochastic simulations of chemical reaction networks that take place in dynamic cellular compartments. We apply this new tool to study the behaviour of different minimal cell models, making realistic assumptions about the physico-chemical processes and conditions involved (e.g. thermodynamic equilibrium/non-equilibrium, variable volume-to-surface relationship, osmotic pressure, solute diffusion across the membrane due to concentration gradients, buffering effect). The new programming platform has been designed to analyse not only how a single protometabolic cell could maintain itself, grow or divide, but also how a collection of these cells could 'evolve' as a result of their mutual interactions in a common environment. PMID:17510021

  7. Virtual Raters for Reproducible and Objective Assessments in Radiology.

    PubMed

    Kleesiek, Jens; Petersen, Jens; Döring, Markus; Maier-Hein, Klaus; Köthe, Ullrich; Wick, Wolfgang; Hamprecht, Fred A; Bendszus, Martin; Biller, Armin

    2016-01-01

    Volumetric measurements in radiologic images are important for monitoring tumor growth and treatment response. To make these more reproducible and objective we introduce the concept of virtual raters (VRs). A virtual rater is obtained by combining knowledge of machine-learning algorithms trained with past annotations of multiple human raters with the instantaneous rating of one human expert. Thus, he is virtually guided by several experts. To evaluate the approach we perform experiments with multi-channel magnetic resonance imaging (MRI) data sets. Next to gross tumor volume (GTV) we also investigate subcategories like edema, contrast-enhancing and non-enhancing tumor. The first data set consists of N = 71 longitudinal follow-up scans of 15 patients suffering from glioblastoma (GB). The second data set comprises N = 30 scans of low- and high-grade gliomas. For comparison we computed Pearson Correlation, Intra-class Correlation Coefficient (ICC) and Dice score. Virtual raters always lead to an improvement w.r.t. inter- and intra-rater agreement. Comparing the 2D Response Assessment in Neuro-Oncology (RANO) measurements to the volumetric measurements of the virtual raters results in one-third of the cases in a deviating rating. Hence, we believe that our approach will have an impact on the evaluation of clinical studies as well as on routine imaging diagnostics. PMID:27118379

  8. Resting Functional Connectivity of Language Networks: Characterization and Reproducibility

    PubMed Central

    Tomasi, Dardo; Volkow, Nora D.

    2011-01-01

    The neural basis of language comprehension and production has been associated with superior temporal (Wernicke’s) and inferior frontal (Broca’s) cortical areas respectively. However, recent resting state functional connectivity (RSFC) and lesion studies implicate a more extended network in language processing. Using a large RSFC dataset from 970 healthy subjects and seed regions in Broca’s and Wernicke’s we recapitulate this extended network that includes adjoining prefrontal, temporal and parietal regions but also bilateral caudate and left putamen/globus pallidus and subthalamic nucleus. We also show that the language network has predominance of short-range functional connectivity (except posterior Wernicke’s area that exhibited predominant long-range connectivity), which is consistent with reliance on local processing. Predominantly, the long-range connectivity was left lateralized (except anterior Wernicke’s area that exhibited rightward lateralization). The language network also exhibited anticorrelated activity with auditory (only for Wernickes’s area) and visual cortices that suggests integrated sequential activity with regions involved with listening or reading words. Assessment of the intra subject’s reproducibility of this network and its characterization in individuals with language dysfunction is needed to determine its potential as a biomarker for language disorders. PMID:22212597

  9. Optimizing reproducibility evaluation for random amplified polymorphic DNA markers.

    PubMed

    Ramos, J R; Telles, M P C; Diniz-Filho, J A F; Soares, T N; Melo, D B; Oliveira, G

    2008-01-01

    The random amplified polymorphic DNA (RAPD) technique is often criticized because it usually shows low levels of repeatability; thus it can generate spurious bands. These problems can be partially overcome by rigid laboratory protocols and by performing repeatability tests. However, because it is expensive and time-consuming to obtain genetic data twice for all individuals, a few randomly chosen individuals are usually selected for a priori repeatability analysis, introducing a potential bias in genetic parameter estimates. We developed a procedure to optimize repeatability analysis based on RAPD data, which was applied to evaluate genetic variability in three local populations of Tibochina papyrus, an endemic Cerrado plant found in elevated rocky fields in Brazil. We used a simulated annealing procedure to select the smallest number of individuals that contain all bands and repeated the analyses only for those bands that were reproduced in these individuals. We compared genetic parameter estimates using HICKORY and POPGENE softwares on an unreduced data set and on data sets in which we eliminated bands based on repeatability of individuals selected by simulated annealing and based on three randomly selected individuals. Genetic parameter estimates were very similar when we used the optimization procedure to reduce the number of bands analyzed, but as expected, selecting only three individuals to evaluate the repeatability of bands produced very different estimates. We conclude that the problems of repeatability attributed to RAPD markers could be due to bias in the selection of loci and primers and not necessarily to the RAPD technique per se. PMID:19065774

  10. Diet rapidly and reproducibly alters the human gut microbiome.

    PubMed

    David, Lawrence A; Maurice, Corinne F; Carmody, Rachel N; Gootenberg, David B; Button, Julie E; Wolfe, Benjamin E; Ling, Alisha V; Devlin, A Sloan; Varma, Yug; Fischbach, Michael A; Biddinger, Sudha B; Dutton, Rachel J; Turnbaugh, Peter J

    2014-01-23

    Long-term dietary intake influences the structure and activity of the trillions of microorganisms residing in the human gut, but it remains unclear how rapidly and reproducibly the human gut microbiome responds to short-term macronutrient change. Here we show that the short-term consumption of diets composed entirely of animal or plant products alters microbial community structure and overwhelms inter-individual differences in microbial gene expression. The animal-based diet increased the abundance of bile-tolerant microorganisms (Alistipes, Bilophila and Bacteroides) and decreased the levels of Firmicutes that metabolize dietary plant polysaccharides (Roseburia, Eubacterium rectale and Ruminococcus bromii). Microbial activity mirrored differences between herbivorous and carnivorous mammals, reflecting trade-offs between carbohydrate and protein fermentation. Foodborne microbes from both diets transiently colonized the gut, including bacteria, fungi and even viruses. Finally, increases in the abundance and activity of Bilophila wadsworthia on the animal-based diet support a link between dietary fat, bile acids and the outgrowth of microorganisms capable of triggering inflammatory bowel disease. In concert, these results demonstrate that the gut microbiome can rapidly respond to altered diet, potentially facilitating the diversity of human dietary lifestyles. PMID:24336217

  11. Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts

    PubMed Central

    2015-01-01

    The NCI Clinical Proteomic Tumor Analysis Consortium (CPTAC) employed a pair of reference xenograft proteomes for initial platform validation and ongoing quality control of its data collection for The Cancer Genome Atlas (TCGA) tumors. These two xenografts, representing basal and luminal-B human breast cancer, were fractionated and analyzed on six mass spectrometers in a total of 46 replicates divided between iTRAQ and label-free technologies, spanning a total of 1095 LC–MS/MS experiments. These data represent a unique opportunity to evaluate the stability of proteomic differentiation by mass spectrometry over many months of time for individual instruments or across instruments running dissimilar workflows. We evaluated iTRAQ reporter ions, label-free spectral counts, and label-free extracted ion chromatograms as strategies for data interpretation (source code is available from http://homepages.uc.edu/~wang2x7/Research.htm). From these assessments, we found that differential genes from a single replicate were confirmed by other replicates on the same instrument from 61 to 93% of the time. When comparing across different instruments and quantitative technologies, using multiple replicates, differential genes were reproduced by other data sets from 67 to 99% of the time. Projecting gene differences to biological pathways and networks increased the degree of similarity. These overlaps send an encouraging message about the maturity of technologies for proteomic differentiation. PMID:26653538

  12. Diet rapidly and reproducibly alters the human gut microbiome

    PubMed Central

    David, Lawrence A.; Maurice, Corinne F.; Carmody, Rachel N.; Gootenberg, David B.; Button, Julie E.; Wolfe, Benjamin E.; Ling, Alisha V.; Devlin, A. Sloan; Varma, Yug; Fischbach, Michael A.; Biddinger, Sudha B.; Dutton, Rachel J.; Turnbaugh, Peter J.

    2013-01-01

    Long-term diet influences the structure and activity of the trillions of microorganisms residing in the human gut1–5, but it remains unclear how rapidly and reproducibly the human gut microbiome responds to short-term macronutrient change. Here, we show that the short-term consumption of diets composed entirely of animal or plant products alters microbial community structure and overwhelms inter-individual differences in microbial gene expression. The animal-based diet increased the abundance of bile-tolerant microorganisms (Alistipes, Bilophila, and Bacteroides) and decreased the levels of Firmicutes that metabolize dietary plant polysaccharides (Roseburia, Eubacterium rectale, and Ruminococcus bromii). Microbial activity mirrored differences between herbivorous and carnivorous mammals2, reflecting trade-offs between carbohydrate and protein fermentation. Foodborne microbes from both diets transiently colonized the gut, including bacteria, fungi, and even viruses. Finally, increases in the abundance and activity of Bilophila wadsworthia on the animal-based diet support a link between dietary fat, bile acids, and the outgrowth of microorganisms capable of triggering inflammatory bowel disease6. In concert, these results demonstrate that the gut microbiome can rapidly respond to altered diet, potentially facilitating the diversity of human dietary lifestyles. PMID:24336217

  13. Periotest values: Its reproducibility, accuracy, and variability with hormonal influence

    PubMed Central

    Chakrapani, Swarna; Goutham, Madireddy; Krishnamohan, Thota; Anuparthy, Sujitha; Tadiboina, Nagarjuna; Rambha, Somasekhar

    2015-01-01

    Tooth mobility can be assessed by both subjective and objective means. The use of subjective measures may lead to bias and hence it becomes imperative to use objective means to assess tooth mobility. It has also been observed that hormonal fluctuations may have significantly influence tooth mobility. Aims: The study was undertaken to assess the reproducibility of periotest in the assessment of tooth mobility and, to unravel the obscurity associated with the hormonal influence on tooth mobility. Materials and Methods: 100 subjects were included in the study and were divided equally into two groups based on their age, group I (11-14 years) and group II(16-22 years). Results: There was no statistical significant difference between the periotest values (PTV) taken at two different time periods with a time difference of 20 minutes. PTV of group I was found to have a statistical significant greater PTV than group II. Conclusion: Periotest can reliably measure tooth mobility. Tooth mobility is greater during puberty as compared to adolescence and during adolescence mobility was slightly greater in males. PMID:25684904

  14. Virtual Raters for Reproducible and Objective Assessments in Radiology

    PubMed Central

    Kleesiek, Jens; Petersen, Jens; Döring, Markus; Maier-Hein, Klaus; Köthe, Ullrich; Wick, Wolfgang; Hamprecht, Fred A.; Bendszus, Martin; Biller, Armin

    2016-01-01

    Volumetric measurements in radiologic images are important for monitoring tumor growth and treatment response. To make these more reproducible and objective we introduce the concept of virtual raters (VRs). A virtual rater is obtained by combining knowledge of machine-learning algorithms trained with past annotations of multiple human raters with the instantaneous rating of one human expert. Thus, he is virtually guided by several experts. To evaluate the approach we perform experiments with multi-channel magnetic resonance imaging (MRI) data sets. Next to gross tumor volume (GTV) we also investigate subcategories like edema, contrast-enhancing and non-enhancing tumor. The first data set consists of N = 71 longitudinal follow-up scans of 15 patients suffering from glioblastoma (GB). The second data set comprises N = 30 scans of low- and high-grade gliomas. For comparison we computed Pearson Correlation, Intra-class Correlation Coefficient (ICC) and Dice score. Virtual raters always lead to an improvement w.r.t. inter- and intra-rater agreement. Comparing the 2D Response Assessment in Neuro-Oncology (RANO) measurements to the volumetric measurements of the virtual raters results in one-third of the cases in a deviating rating. Hence, we believe that our approach will have an impact on the evaluation of clinical studies as well as on routine imaging diagnostics. PMID:27118379

  15. Reproducing stone monument photosynthetic-based colonization under laboratory conditions.

    PubMed

    Miller, Ana Zélia; Laiz, Leonila; Gonzalez, Juan Miguel; Dionísio, Amélia; Macedo, Maria Filomena; Saiz-Jimenez, Cesareo

    2008-11-01

    In order to understand the biodeterioration process occurring on stone monuments, we analyzed the microbial communities involved in these processes and studied their ability to colonize stones under controlled laboratory experiments. In this study, a natural green biofilm from a limestone monument was cultivated, inoculated on stone probes of the same lithotype and incubated in a laboratory chamber. This incubation system, which exposes stone samples to intermittently sprinkling water, allowed the development of photosynthetic biofilms similar to those occurring on stone monuments. Denaturing gradient gel electrophoresis (DGGE) analysis was used to evaluate the major microbial components of the laboratory biofilms. Cyanobacteria, green microalgae, bacteria and fungi were identified by DNA-based molecular analysis targeting the 16S and 18S ribosomal RNA genes. The natural green biofilm was mainly composed by the Chlorophyta Chlorella, Stichococcus, and Trebouxia, and by Cyanobacteria belonging to the genera Leptolyngbya and Pleurocapsa. A number of bacteria belonging to Alphaproteobacteria, Bacteroidetes and Verrucomicrobia were identified, as well as fungi from the Ascomycota. The laboratory colonization experiment on stone probes showed a colonization pattern similar to that occurring on stone monuments. The methodology described in this paper allowed to reproduce a colonization equivalent to the natural biodeteriorating process.

  16. Achieving effective supervision.

    PubMed

    Kavanagh, David J; Spence, Susan H; Wilson, Jill; Crow, Natasha

    2002-09-01

    Supervision probably does have benefits both for the maintenance and improvement of clinical skills and for job satisfaction, but the data are very thin and almost non-existent in the area of alcohol and other drugs services. Because of the potential complexity of objectives and roles in supervision, a structured agreement appears to be an important part of the effective supervision relationship. Because sessions can degenerate easily into unstructured socialization, agendas and session objectives may also be important. While a working alliance based on mutual respect and trust is an essential base for the supervision relationship, procedures for direct observation of clinical skills, demonstration of new procedures and skills practice with detailed feedback appear critical to supervision's impact on practice. To ensure effective supervision, there needs not only to be a minimum of personnel and resources, but also a compatibility with the values and procedures of management and staff, access to supervision training and consultation and sufficient incentives to ensure it continues. PMID:12270075

  17. Reproducible preparation of nanospray tips for capillary electrophoresis coupled to mass spectrometry using 3D printed grinding device.

    PubMed

    Tycova, Anna; Prikryl, Jan; Foret, Frantisek

    2016-04-01

    The use of high quality fused silica capillary nanospray tips is critical for obtaining reliable and reproducible electrospray/MS data; however, reproducible laboratory preparation of such tips is a challenging task. In this work, we report on the design and construction of low-cost grinding device assembled from 3D printed and commercially easily available components. Detailed description and characterization of the grinding device is complemented by freely accessible files in stl and skp format allowing easy laboratory replication of the device. The process of sharpening is aimed at achieving maximal symmetricity, surface smoothness and repeatability of the conus shape. Moreover, the presented grinding device brings possibility to fabricate the nanospray tips of desired dimensions regardless of the commercial availability. On several samples of biological nature (reserpine, rabbit plasma, and the mixture of three aminoacids), performance of fabricated tips is shown on CE coupled to MS analysis. The special interest is paid to the effect of tip sharpness. PMID:26626777

  18. An Overview of Experimental Studies on H/Pd Over-Loading with Thin pd Wires and Different Electrolytic Solutions

    NASA Astrophysics Data System (ADS)

    Spallone, A.; Celani, F.; Marini, P.; di Stefano, V.

    2006-02-01

    Hundreds of electrolytic loading tests of thin Pd wires in different experimental conditions have been performed in order to find out the best procedures for stable, high hydrogen overloading into the palladium lattice. In a very dilute acid solution thin Pd cathodes (50 or 100 μm in diameter) and thick Pt anodes (0.5 mm in diameter) were used in a parallel or coaxial geometry. Normalised resistance (R/R0) of the Pd cathode was on-line and continuously measured in order to determine the actual H/Pd values. Different electrolytic solutions have been tested by adding to the acid solution very low amounts of Ca, Sr, Li, and Hg ions; high loading H/Pd ratios have been achieved with a satisfactory grade of reproducibility. Several loading procedures have been performed in a wide range of electrolysis current (from a few mA up to 100 mA) and at different Hg ion concentrations. The obtained results allowed for the definition of a loading protocol that ensures very high H/Pd over-loading. Stable R/R0 ≤ 1.2 values (corresponding to H/Pd ratios ≥ 1) can be currently achieved with an extremely low power electrolytic supply (10 V, 5 mA).

  19. Robust estimation of fractal measures for characterizing the structural complexity of the human brain: optimization and reproducibility.

    PubMed

    Goñi, Joaquín; Sporns, Olaf; Cheng, Hu; Aznárez-Sanado, Maite; Wang, Yang; Josa, Santiago; Arrondo, Gonzalo; Mathews, Vincent P; Hummer, Tom A; Kronenberger, William G; Avena-Koenigsberger, Andrea; Saykin, Andrew J; Pastor, María A

    2013-12-01

    High-resolution isotropic three-dimensional reconstructions of human brain gray and white matter structures can be characterized to quantify aspects of their shape, volume and topological complexity. In particular, methods based on fractal analysis have been applied in neuroimaging studies to quantify the structural complexity of the brain in both healthy and impaired conditions. The usefulness of such measures for characterizing individual differences in brain structure critically depends on their within-subject reproducibility in order to allow the robust detection of between-subject differences. This study analyzes key analytic parameters of three fractal-based methods that rely on the box-counting algorithm with the aim to maximize within-subject reproducibility of the fractal characterizations of different brain objects, including the pial surface, the cortical ribbon volume, the white matter volume and the gray matter/white matter boundary. Two separate datasets originating from different imaging centers were analyzed, comprising 50 subjects with three and 24 subjects with four successive scanning sessions per subject, respectively. The reproducibility of fractal measures was statistically assessed by computing their intra-class correlations. Results reveal differences between different fractal estimators and allow the identification of several parameters that are critical for high reproducibility. Highest reproducibility with intra-class correlations in the range of 0.9-0.95 is achieved with the correlation dimension. Further analyses of the fractal dimensions of parcellated cortical and subcortical gray matter regions suggest robustly estimated and region-specific patterns of individual variability. These results are valuable for defining appropriate parameter configurations when studying changes in fractal descriptors of human brain structure, for instance in studies of neurological diseases that do not allow repeated measurements or for disease

  20. Structural characterization of impurified zinc oxide thin films

    SciTech Connect

    Trinca, L. M.; Galca, A. C. Stancu, V. Chirila, C. Pintilie, L.

    2014-11-05

    Europium doped zinc oxide (Eu:ZnO) thin films have been obtained by pulsed laser deposition (PLD). 002 textured thin films were achieved on glass and silicon substrates, while hetero-epilayers and homo-epilayers have been attained on single crystal SrTiO{sub 3} and ZnO, respectively. X-ray Diffraction (XRD) was employed to characterize the Eu:ZnO thin films. Extended XRD studies confirmed the different thin film structural properties as function of chosen substrates.

  1. Does achievement motivation mediate the semantic achievement priming effect?

    PubMed

    Engeser, Stefan; Baumann, Nicola

    2014-10-01

    The aim of our research was to understand the processes of the prime-to-behavior effects with semantic achievement primes. We extended existing models with a perspective from achievement motivation theory and additionally used achievement primes embedded in the running text of excerpts of school textbooks to simulate a more natural priming condition. Specifically, we proposed that achievement primes affect implicit achievement motivation and conducted pilot experiments and 3 main experiments to explore this proposition. We found no reliable positive effect of achievement primes on implicit achievement motivation. In light of these findings, we tested whether explicit (instead of implicit) achievement motivation is affected by achievement primes and found this to be the case. In the final experiment, we found support for the assumption that higher explicit achievement motivation implies that achievement priming affects the outcome expectations. The implications of the results are discussed, and we conclude that primes affect achievement behavior by heightening explicit achievement motivation and outcome expectancies. PMID:24820250

  2. Scan-rescan reproducibility of CT densitometric measures of emphysema

    NASA Astrophysics Data System (ADS)

    Chong, D.; van Rikxoort, E. M.; Kim, H. J.; Goldin, J. G.; Brown, M. S.

    2011-03-01

    This study investigated the reproducibility of HRCT densitometric measures of emphysema in patients scanned twice one week apart. 24 emphysema patients from a multicenter study were scanned at full inspiration (TLC) and expiration (RV), then again a week later for four scans total. Scans for each patient used the same scanner and protocol, except for tube current in three patients. Lung segmentation with gross airway removal was performed on the scans. Volume, weight, mean lung density (MLD), relative area under -950HU (RA-950), and 15th percentile (PD-15) were calculated for TLC, and volume and an airtrapping mask (RA-air) between -950 and -850HU for RV. For each measure, absolute differences were computed for each scan pair, and linear regression was performed against volume difference in a subgroup with volume difference <500mL. Two TLC scan pairs were excluded due to segmentation failure. The mean lung volumes were 5802 +/- 1420mL for TLC, 3878 +/- 1077mL for RV. The mean absolute differences were 169mL for TLC volume, 316mL for RV volume, 14.5g for weight, 5.0HU for MLD, 0.66p.p. for RA-950, 2.4HU for PD-15, and 3.1p.p. for RA-air. The <500mL subgroup had 20 scan pairs for TLC and RV. The R2 values were 0.8 for weight, 0.60 for MLD, 0.29 for RA-950, 0.31 for PD-15, and 0.64 for RA-air. Our results indicate that considerable variability exists in densitometric measures over one week that cannot be attributed to breathhold or physiology. This has implications for clinical trials relying on these measures to assess emphysema treatment efficacy.

  3. Reproducibility and intraindividual variability of the pattern electroretinogram.

    PubMed

    Jacobi, P C; Walter, P; Brunner, R; Krieglstein, G K

    1994-08-01

    The human pattern electroretinogram (PERG) is a contrast-specific potential presumedly reflecting the functional integrity of ganglion cells. Many studies have devised criteria that enable PERG measurements to distinguish established glaucomatous (hypertonic) eyes from normal controls. As there are relatively few reports concerning the reproducibility and reliability of the PERG, we studied the intraindividual variability of the PERG in 20 healthy subjects. Both transient and steady-state responses were recorded using a high-contrast (98%), black-and-white, counterphasing checkerboard pattern (average luminance, 80 cd/m2) generated by a television monitor (subtending angle, 13.8 degrees x 10.8 degrees) using three different check sizes (15', 30', and 60'). Recordings were performed in both eyes simultaneously at a 7-day interval under test-retest conditions. Responses of 30' spatial frequency were most consistent and resulted in a mean amplitude (+/- SD) of 2.18 +/- 0.95 microV (P50) and 4.00 +/- 1.69 microV (N95) for transient patterns and 1.84 +/- 1.25 microV for steady-state patterns. No statistically significant difference was observed between either right and left eyes, test and retest conditions or 1st- and 7th-day recording sessions for PERG parameters. In linear correlation analysis there was an adequate, positive correlation between the right and left eyes (r = 0.78); a weak correlation between test and retest conditions (r = 0.58); and no correlation between measurements made at a 7-day interval. As a consequence, we conclude that the follow-up of patients (e.g., glaucoma, ocular hypertension) by means of PERG is critical, especially when therapeutic consequences may be based on the physiological variability of a weak retinal signal.(ABSTRACT TRUNCATED AT 250 WORDS) PMID:7804106

  4. A reproducible method to determine the meteoroid mass index

    NASA Astrophysics Data System (ADS)

    Pokorný, P.; Brown, P. G.

    2016-08-01

    Context. The determination of meteoroid mass indices is central to flux measurements and evolutionary studies of meteoroid populations. However, different authors use different approaches to fit observed data, making results difficult to reproduce and the resulting uncertainties difficult to justify. The real, physical, uncertainties are usually an order of magnitude higher than the reported values. Aims: We aim to develop a fully automated method that will measure meteoroid mass indices and associated uncertainty. We validate our method on large radar and optical datasets and compare results to obtain a best estimate of the true meteoroid mass index. Methods: Using MultiNest, a Bayesian inference tool that calculates the evidence and explores the parameter space, we search for the best fit of cumulative number vs. mass distributions in a four-dimensional space of variables (a,b,X1,X2). We explore biases in meteor echo distributions using optical meteor data as a calibration dataset to establish the systematic offset in measured mass index values. Results: Our best estimate for the average de-biased mass index for the sporadic meteoroid complex, as measured by radar appropriate to the mass range 10-3 > m > 10-5 g, was s = -2.10 ± 0.08. Optical data in the 10-1 > m > 10-3 g range, with the shower meteors removed, produced s = -2.08 ± 0.08. We find the mass index used by Grün et al. (1985) is substantially larger than we measure in the 10-4 < m < 10-1 g range. Our own code with a simple manual and a sample dataset can be found here: http://ftp://aquarid.physics.uwo.ca/pub/peter/MassIndexCode/

  5. Can atmospheric reanalysis datasets be used to reproduce flood characteristics?

    NASA Astrophysics Data System (ADS)

    Andreadis, K.; Schumann, G.; Stampoulis, D.

    2014-12-01

    Floods are one of the costliest natural disasters and the ability to understand their characteristics and their interactions with population, land cover and climate changes is of paramount importance. In order to accurately reproduce flood characteristics such as water inundation and heights both in the river channels and floodplains, hydrodynamic models are required. Most of these models operate at very high resolutions and are computationally very expensive, making their application over large areas very difficult. However, a need exists for such models to be applied at regional to global scales so that the effects of climate change with regards to flood risk can be examined. We use the LISFLOOD-FP hydrodynamic model to simulate a 40-year history of flood characteristics at the continental scale, particularly over Australia. LISFLOOD-FP is a 2-D hydrodynamic model that solves the approximate Saint-Venant equations at large scales (on the order of 1 km) using a sub-grid representation of the river channel. This implementation is part of an effort towards a global 1-km flood modeling framework that will allow the reconstruction of a long-term flood climatology. The components of this framework include a hydrologic model (the widely-used Variable Infiltration Capacity model) and a meteorological dataset that forces it. In order to extend the simulated flood climatology to 50-100 years in a consistent manner, reanalysis datasets have to be used. The objective of this study is the evaluation of multiple atmospheric reanalysis datasets (ERA, NCEP, MERRA, JRA) as inputs to the VIC/LISFLOOD-FP model. Comparisons of the simulated flood characteristics are made with both satellite observations of inundation and a benchmark simulation of LISFLOOD-FP being forced by observed flows. Finally, the implications of the availability of a global flood modeling framework for producing flood hazard maps and disseminating disaster information are discussed.

  6. Development of a Consistent and Reproducible Porcine Scald Burn Model

    PubMed Central

    Kempf, Margit; Kimble, Roy; Cuttle, Leila

    2016-01-01

    There are very few porcine burn models that replicate scald injuries similar to those encountered by children. We have developed a robust porcine burn model capable of creating reproducible scald burns for a wide range of burn conditions. The study was conducted with juvenile Large White pigs, creating replicates of burn combinations; 50°C for 1, 2, 5 and 10 minutes and 60°C, 70°C, 80°C and 90°C for 5 seconds. Visual wound examination, biopsies and Laser Doppler Imaging were performed at 1, 24 hours and at 3 and 7 days post-burn. A consistent water temperature was maintained within the scald device for long durations (49.8 ± 0.1°C when set at 50°C). The macroscopic and histologic appearance was consistent between replicates of burn conditions. For 50°C water, 10 minute duration burns showed significantly deeper tissue injury than all shorter durations at 24 hours post-burn (p ≤ 0.0001), with damage seen to increase until day 3 post-burn. For 5 second duration burns, by day 7 post-burn the 80°C and 90°C scalds had damage detected significantly deeper in the tissue than the 70°C scalds (p ≤ 0.001). A reliable and safe model of porcine scald burn injury has been successfully developed. The novel apparatus with continually refreshed water improves consistency of scald creation for long exposure times. This model allows the pathophysiology of scald burn wound creation and progression to be examined. PMID:27612153

  7. Crowdsourcing reproducible seizure forecasting in human and canine epilepsy.

    PubMed

    Brinkmann, Benjamin H; Wagenaar, Joost; Abbot, Drew; Adkins, Phillip; Bosshard, Simone C; Chen, Min; Tieng, Quang M; He, Jialune; Muñoz-Almaraz, F J; Botella-Rocamora, Paloma; Pardo, Juan; Zamora-Martinez, Francisco; Hills, Michael; Wu, Wei; Korshunova, Iryna; Cukierski, Will; Vite, Charles; Patterson, Edward E; Litt, Brian; Worrell, Gregory A

    2016-06-01

    SEE MORMANN AND ANDRZEJAK DOI101093/BRAIN/AWW091 FOR A SCIENTIFIC COMMENTARY ON THIS ARTICLE  : Accurate forecasting of epileptic seizures has the potential to transform clinical epilepsy care. However, progress toward reliable seizure forecasting has been hampered by lack of open access to long duration recordings with an adequate number of seizures for investigators to rigorously compare algorithms and results. A seizure forecasting competition was conducted on kaggle.com using open access chronic ambulatory intracranial electroencephalography from five canines with naturally occurring epilepsy and two humans undergoing prolonged wide bandwidth intracranial electroencephalographic monitoring. Data were provided to participants as 10-min interictal and preictal clips, with approximately half of the 60 GB data bundle labelled (interictal/preictal) for algorithm training and half unlabelled for evaluation. The contestants developed custom algorithms and uploaded their classifications (interictal/preictal) for the unknown testing data, and a randomly selected 40% of data segments were scored and results broadcasted on a public leader board. The contest ran from August to November 2014, and 654 participants submitted 17 856 classifications of the unlabelled test data. The top performing entry scored 0.84 area under the classification curve. Following the contest, additional held-out unlabelled data clips were provided to the top 10 participants and they submitted classifications for the new unseen data. The resulting area under the classification curves were well above chance forecasting, but did show a mean 6.54 ± 2.45% (min, max: 0.30, 20.2) decline in performance. The kaggle.com model using open access data and algorithms generated reproducible research that advanced seizure forecasting. The overall performance from multiple contestants on unseen data was better than a random predictor, and demonstrates the feasibility of seizure forecasting in canine and human

  8. Reproducing American Sign Language sentences: cognitive scaffolding in working memory.

    PubMed

    Supalla, Ted; Hauser, Peter C; Bavelier, Daphne

    2014-01-01

    The American Sign Language Sentence Reproduction Test (ASL-SRT) requires the precise reproduction of a series of ASL sentences increasing in complexity and length. Error analyses of such tasks provides insight into working memory and scaffolding processes. Data was collected from three groups expected to differ in fluency: deaf children, deaf adults and hearing adults, all users of ASL. Quantitative (correct/incorrect recall) and qualitative error analyses were performed. Percent correct on the reproduction task supports its sensitivity to fluency as test performance clearly differed across the three groups studied. A linguistic analysis of errors further documented differing strategies and bias across groups. Subjects' recall projected the affordance and constraints of deep linguistic representations to differing degrees, with subjects resorting to alternate processing strategies when they failed to recall the sentence correctly. A qualitative error analysis allows us to capture generalizations about the relationship between error pattern and the cognitive scaffolding, which governs the sentence reproduction process. Highly fluent signers and less-fluent signers share common chokepoints on particular words in sentences. However, they diverge in heuristic strategy. Fluent signers, when they make an error, tend to preserve semantic details while altering morpho-syntactic domains. They produce syntactically correct sentences with equivalent meaning to the to-be-reproduced one, but these are not verbatim reproductions of the original sentence. In contrast, less-fluent signers tend to use a more linear strategy, preserving lexical status and word ordering while omitting local inflections, and occasionally resorting to visuo-motoric imitation. Thus, whereas fluent signers readily use top-down scaffolding in their working memory, less fluent signers fail to do so. Implications for current models of working memory across spoken and signed modalities are considered. PMID

  9. Engineering preliminaries to obtain reproducible mixtures of atelocollagen and polysaccharides.

    PubMed

    Lefter, Cristina-Mihaela; Maier, Stelian Sergiu; Maier, Vasilica; Popa, Marcel; Desbrieres, Jacques

    2013-05-01

    The critical stage in producing blends of biomacromolecules consists in the mixing of component solutions to generate homogenous diluted colloidal systems. Simple experimental investigations allow the establishment of the design rules of recipes and the procedures for preparing homogenous and compositionally reproducible mixtures. Starting from purified solutions of atelocollagen, hyaluronan and native gellan, having as low as possible inorganic salts content, initial binary and ternary mixtures can be prepared up to a total dry matter content of 0.150 g/dL, in no co-precipitating conditions. Two pH manipulation ways are feasible for homogenous mixing: (i) unbuffered prior correction at pH 5.5, and (ii) "rigid" buffering at pH 9.0, using organic species. Atelocollagen including co-precipitates can be obtained in the presence of one or both polysaccharides, preferably in pH domains far from the isoelectric point of scleroprotein. A critical behavior has been observed in mixtures containing gellan, due to its macromolecular dissimilarities compared with atelocollagen. In optimal binary mixtures, the coordinates of threshold points on the phase diagrams are 0.028% w/w atelocollagen/0.025% w/w hyaluronan, and 0.022% w/w atelocollagen/0.020% w/w gellan. Uni- or bi-phasic ternary systems having equilibrated ratios of co-precipitated components can be prepared starting from initial mixtures containing up to 0.032 g/dL atelocollagen, associated with, for example, 0.040 g/dL hyaluronan and 0.008 g/dL gellan, following the first pH manipulation way.

  10. Soft and hard classification by reproducing kernel Hilbert space methods.

    PubMed

    Wahba, Grace

    2002-12-24

    Reproducing kernel Hilbert space (RKHS) methods provide a unified context for solving a wide variety of statistical modelling and function estimation problems. We consider two such problems: We are given a training set [yi, ti, i = 1, em leader, n], where yi is the response for the ith subject, and ti is a vector of attributes for this subject. The value of y(i) is a label that indicates which category it came from. For the first problem, we wish to build a model from the training set that assigns to each t in an attribute domain of interest an estimate of the probability pj(t) that a (future) subject with attribute vector t is in category j. The second problem is in some sense less ambitious; it is to build a model that assigns to each t a label, which classifies a future subject with that t into one of the categories or possibly "none of the above." The approach to the first of these two problems discussed here is a special case of what is known as penalized likelihood estimation. The approach to the second problem is known as the support vector machine. We also note some alternate but closely related approaches to the second problem. These approaches are all obtained as solutions to optimization problems in RKHS. Many other problems, in particular the solution of ill-posed inverse problems, can be obtained as solutions to optimization problems in RKHS and are mentioned in passing. We caution the reader that although a large literature exists in all of these topics, in this inaugural article we are selectively highlighting work of the author, former students, and other collaborators.

  11. Modelling soil erosion at European scale: towards harmonization and reproducibility

    NASA Astrophysics Data System (ADS)

    Bosco, C.; de Rigo, D.; Dewitte, O.; Poesen, J.; Panagos, P.

    2015-02-01

    Soil erosion by water is one of the most widespread forms of soil degradation. The loss of soil as a result of erosion can lead to decline in organic matter and nutrient contents, breakdown of soil structure and reduction of the water-holding capacity. Measuring soil loss across the whole landscape is impractical and thus research is needed to improve methods of estimating soil erosion with computational modelling, upon which integrated assessment and mitigation strategies may be based. Despite the efforts, the prediction value of existing models is still limited, especially at regional and continental scale, because a systematic knowledge of local climatological and soil parameters is often unavailable. A new approach for modelling soil erosion at regional scale is here proposed. It is based on the joint use of low-data-demanding models and innovative techniques for better estimating model inputs. The proposed modelling architecture has at its basis the semantic array programming paradigm and a strong effort towards computational reproducibility. An extended version of the Revised Universal Soil Loss Equation (RUSLE) has been implemented merging different empirical rainfall-erosivity equations within a climatic ensemble model and adding a new factor for a better consideration of soil stoniness within the model. Pan-European soil erosion rates by water have been estimated through the use of publicly available data sets and locally reliable empirical relationships. The accuracy of the results is corroborated by a visual plausibility check (63% of a random sample of grid cells are accurate, 83% at least moderately accurate, bootstrap p ≤ 0.05). A comparison with country-level statistics of pre-existing European soil erosion maps is also provided.

  12. Modelling soil erosion at European scale: towards harmonization and reproducibility

    NASA Astrophysics Data System (ADS)

    Bosco, C.; de Rigo, D.; Dewitte, O.; Poesen, J.; Panagos, P.

    2014-04-01

    Soil erosion by water is one of the most widespread forms of soil degradation. The loss of soil as a result of erosion can lead to decline in organic matter and nutrient contents, breakdown of soil structure and reduction of the water holding capacity. Measuring soil loss across the whole landscape is impractical and thus research is needed to improve methods of estimating soil erosion with computational modelling, upon which integrated assessment and mitigation strategies may be based. Despite the efforts, the prediction value of existing models is still limited, especially at regional and continental scale. A new approach for modelling soil erosion at large spatial scale is here proposed. It is based on the joint use of low data demanding models and innovative techniques for better estimating model inputs. The proposed modelling architecture has at its basis the semantic array programming paradigm and a strong effort towards computational reproducibility. An extended version of the Revised Universal Soil Loss Equation (RUSLE) has been implemented merging different empirical rainfall-erosivity equations within a climatic ensemble model and adding a new factor for a better consideration of soil stoniness within the model. Pan-European soil erosion rates by water have been estimated through the use of publicly available datasets and locally reliable empirical relationships. The accuracy of the results is corroborated by a visual plausibility check (63% of a random sample of grid cells are accurate, 83% at least moderately accurate, bootstrap p ≤ 0.05). A comparison with country level statistics of pre-existing European maps of soil erosion by water is also provided.

  13. Reproducibility of urinary phthalate metabolites in first morning urine samples.

    PubMed Central

    Hoppin, Jane A; Brock, John W; Davis, Barbara J; Baird, Donna D

    2002-01-01

    Phthalates are ubiquitous in our modern environment because of their use in plastics and cosmetic products. Phthalate monoesters--primarily monoethylhexyl phthalate and monobutyl phthalate--are reproductive and developmental toxicants in animals. Accurate measures of phthalate exposure are needed to assess their human health effects. Phthalate monoesters have a biologic half-life of approximately 12 hr, and little is known about the temporal variability and daily reproducibility of urinary measures in humans. To explore these aspects, we measured seven phthalate monoesters and creatinine concentration in two consecutive first-morning urine specimens from 46 African-American women, ages 35-49 years, residing in the Washington, DC, area in 1996-1997. We measured phthalate monoesters using high-pressure liquid chromatography followed by tandem mass spectrometry on a triple quadrupole instrument using atmospheric pressure chemical ionization. We detected four phthalate monoesters in all subjects, with median levels of 31 ng/mL for monobenzyl phthalate (mBzP), 53 ng/mL for monobutyl phthalate (mBP), 211 ng/mL for monoethyl phthalate (mEP), and 7.3 ng/mL for monoethylhexyl phthalate (mEHP). These were similar to concentrations reported for other populations using spot urine specimens. Phthalate levels did not differ between the two sampling days. The Pearson correlation coefficient between the concentrations on the 2 days was 0.8 for mBP, 0.7 for mEHP, 0.6 for mEP, and 0.5 for mBzP. These results suggest that even with the short half-lives of phthalates, women's patterns of exposure may be sufficiently stable to assign an exposure level based on a single first morning void urine measurement. PMID:12003755

  14. Crowdsourcing reproducible seizure forecasting in human and canine epilepsy

    PubMed Central

    Wagenaar, Joost; Abbot, Drew; Adkins, Phillip; Bosshard, Simone C.; Chen, Min; Tieng, Quang M.; He, Jialune; Muñoz-Almaraz, F. J.; Botella-Rocamora, Paloma; Pardo, Juan; Zamora-Martinez, Francisco; Hills, Michael; Wu, Wei; Korshunova, Iryna; Cukierski, Will; Vite, Charles; Patterson, Edward E.; Litt, Brian; Worrell, Gregory A.

    2016-01-01

    See Mormann and Andrzejak (doi:10.1093/brain/aww091) for a scientific commentary on this article.   Accurate forecasting of epileptic seizures has the potential to transform clinical epilepsy care. However, progress toward reliable seizure forecasting has been hampered by lack of open access to long duration recordings with an adequate number of seizures for investigators to rigorously compare algorithms and results. A seizure forecasting competition was conducted on kaggle.com using open access chronic ambulatory intracranial electroencephalography from five canines with naturally occurring epilepsy and two humans undergoing prolonged wide bandwidth intracranial electroencephalographic monitoring. Data were provided to participants as 10-min interictal and preictal clips, with approximately half of the 60 GB data bundle labelled (interictal/preictal) for algorithm training and half unlabelled for evaluation. The contestants developed custom algorithms and uploaded their classifications (interictal/preictal) for the unknown testing data, and a randomly selected 40% of data segments were scored and results broadcasted on a public leader board. The contest ran from August to November 2014, and 654 participants submitted 17 856 classifications of the unlabelled test data. The top performing entry scored 0.84 area under the classification curve. Following the contest, additional held-out unlabelled data clips were provided to the top 10 participants and they submitted classifications for the new unseen data. The resulting area under the classification curves were well above chance forecasting, but did show a mean 6.54 ± 2.45% (min, max: 0.30, 20.2) decline in performance. The kaggle.com model using open access data and algorithms generated reproducible research that advanced seizure forecasting. The overall performance from multiple contestants on unseen data was better than a random predictor, and demonstrates the feasibility of seizure forecasting in canine and

  15. Color accuracy and reproducibility in whole slide imaging scanners

    PubMed Central

    Shrestha, Prarthana; Hulsken, Bas

    2014-01-01

    Abstract We propose a workflow for color reproduction in whole slide imaging (WSI) scanners, such that the colors in the scanned images match to the actual slide color and the inter-scanner variation is minimum. We describe a new method of preparation and verification of the color phantom slide, consisting of a standard IT8-target transmissive film, which is used in color calibrating and profiling the WSI scanner. We explore several International Color Consortium (ICC) compliant techniques in color calibration/profiling and rendering intents for translating the scanner specific colors to the standard display (sRGB) color space. Based on the quality of the color reproduction in histopathology slides, we propose the matrix-based calibration/profiling and absolute colorimetric rendering approach. The main advantage of the proposed workflow is that it is compliant to the ICC standard, applicable to color management systems in different platforms, and involves no external color measurement devices. We quantify color difference using the CIE-DeltaE2000 metric, where DeltaE values below 1 are considered imperceptible. Our evaluation on 14 phantom slides, manufactured according to the proposed method, shows an average inter-slide color difference below 1 DeltaE. The proposed workflow is implemented and evaluated in 35 WSI scanners developed at Philips, called the Ultra Fast Scanners (UFS). The color accuracy, measured as DeltaE between the scanner reproduced colors and the reference colorimetric values of the phantom patches, is improved on average to 3.5 DeltaE in calibrated scanners from 10 DeltaE in uncalibrated scanners. The average inter-scanner color difference is found to be 1.2 DeltaE. The improvement in color performance upon using the proposed method is apparent with the visual color quality of the tissue scans. PMID:26158041

  16. Development of a Consistent and Reproducible Porcine Scald Burn Model.

    PubMed

    Andrews, Christine J; Kempf, Margit; Kimble, Roy; Cuttle, Leila

    2016-01-01

    There are very few porcine burn models that replicate scald injuries similar to those encountered by children. We have developed a robust porcine burn model capable of creating reproducible scald burns for a wide range of burn conditions. The study was conducted with juvenile Large White pigs, creating replicates of burn combinations; 50°C for 1, 2, 5 and 10 minutes and 60°C, 70°C, 80°C and 90°C for 5 seconds. Visual wound examination, biopsies and Laser Doppler Imaging were performed at 1, 24 hours and at 3 and 7 days post-burn. A consistent water temperature was maintained within the scald device for long durations (49.8 ± 0.1°C when set at 50°C). The macroscopic and histologic appearance was consistent between replicates of burn conditions. For 50°C water, 10 minute duration burns showed significantly deeper tissue injury than all shorter durations at 24 hours post-burn (p ≤ 0.0001), with damage seen to increase until day 3 post-burn. For 5 second duration burns, by day 7 post-burn the 80°C and 90°C scalds had damage detected significantly deeper in the tissue than the 70°C scalds (p ≤ 0.001). A reliable and safe model of porcine scald burn injury has been successfully developed. The novel apparatus with continually refreshed water improves consistency of scald creation for long exposure times. This model allows the pathophysiology of scald burn wound creation and progression to be examined. PMID:27612153

  17. Crowdsourcing reproducible seizure forecasting in human and canine epilepsy

    PubMed Central

    Wagenaar, Joost; Abbot, Drew; Adkins, Phillip; Bosshard, Simone C.; Chen, Min; Tieng, Quang M.; He, Jialune; Muñoz-Almaraz, F. J.; Botella-Rocamora, Paloma; Pardo, Juan; Zamora-Martinez, Francisco; Hills, Michael; Wu, Wei; Korshunova, Iryna; Cukierski, Will; Vite, Charles; Patterson, Edward E.; Litt, Brian; Worrell, Gregory A.

    2016-01-01

    See Mormann and Andrzejak (doi:10.1093/brain/aww091) for a scientific commentary on this article.   Accurate forecasting of epileptic seizures has the potential to transform clinical epilepsy care. However, progress toward reliable seizure forecasting has been hampered by lack of open access to long duration recordings with an adequate number of seizures for investigators to rigorously compare algorithms and results. A seizure forecasting competition was conducted on kaggle.com using open access chronic ambulatory intracranial electroencephalography from five canines with naturally occurring epilepsy and two humans undergoing prolonged wide bandwidth intracranial electroencephalographic monitoring. Data were provided to participants as 10-min interictal and preictal clips, with approximately half of the 60 GB data bundle labelled (interictal/preictal) for algorithm training and half unlabelled for evaluation. The contestants developed custom algorithms and uploaded their classifications (interictal/preictal) for the unknown testing data, and a randomly selected 40% of data segments were scored and results broadcasted on a public leader board. The contest ran from August to November 2014, and 654 participants submitted 17 856 classifications of the unlabelled test data. The top performing entry scored 0.84 area under the classification curve. Following the contest, additional held-out unlabelled data clips were provided to the top 10 participants and they submitted classifications for the new unseen data. The resulting area under the classification curves were well above chance forecasting, but did show a mean 6.54 ± 2.45% (min, max: 0.30, 20.2) decline in performance. The kaggle.com model using open access data and algorithms generated reproducible research that advanced seizure forecasting. The overall performance from multiple contestants on unseen data was better than a random predictor, and demonstrates the feasibility of seizure forecasting in canine and

  18. Enhancing reproducibility of ultrasonic measurements by new users

    NASA Astrophysics Data System (ADS)

    Pramanik, Manojit; Gupta, Madhumita; Krishnan, Kajoli Banerjee

    2013-03-01

    Perception of operator influences ultrasound image acquisition and processing. Lower costs are attracting new users to medical ultrasound. Anticipating an increase in this trend, we conducted a study to quantify the variability in ultrasonic measurements made by novice users and identify methods to reduce it. We designed a protocol with four presets and trained four new users to scan and manually measure the head circumference of a fetal phantom with an ultrasound scanner. In the first phase, the users followed this protocol in seven distinct sessions. They then received feedback on the quality of the scans from an expert. In the second phase, two of the users repeated the entire protocol aided by visual cues provided to them during scanning. We performed off-line measurements on all the images using a fully automated algorithm capable of measuring the head circumference from fetal phantom images. The ground truth (198.1±1.6 mm) was based on sixteen scans and measurements made by an expert. Our analysis shows that: (1) the inter-observer variability of manual measurements was 5.5 mm, whereas the inter-observer variability of automated measurements was only 0.6 mm in the first phase (2) consistency of image appearance improved and mean manual measurements was 4-5 mm closer to the ground truth in the second phase (3) automated measurements were more precise, accurate and less sensitive to different presets compared to manual measurements in both phases. Our results show that visual aids and automation can bring more reproducibility to ultrasonic measurements made by new users.

  19. Is the Sciatic Functional Index always reliable and reproducible?

    PubMed

    Monte-Raso, Vanessa Vilela; Barbieri, Cláudio Henrique; Mazzer, Nilton; Yamasita, Alexandre Calura; Barbieri, Giuliano

    2008-05-30

    The Sciatic Functional Index (SFI) is a quite useful tool for the evaluation of functional recovery of the sciatic nerve of rats in a number of experimental injuries and treatments. Although it is an objective method, it depends on the examiner's ability to adequately recognize and mark the previously established footprint key points, which is an entirely subjective step, thus potentially interfering with the calculations according to the mathematical formulae proposed by different authors. Thus, an interpersonal evaluation of the reproducibility of an SFI computer-aided method was carried out here to study data variability. A severe crush injury was produced on a 5 mm-long segment of the right sciatic nerve of 20 Wistar rats (a 5000 g load directly applied for 10 min) and the SFI was measured by four different examiners (an experienced one and three newcomers) preoperatively and at weekly intervals from the 1st to the 8th postoperative week. Three measurements were made for each print and the average was calculated and used for statistical analysis. The results showed that interpersonal correlation was high (0.82) in the 3rd, 4th, 5th, 7th and 8th weeks, with an unexpected but significant (p<0.01) drop in the 6th week. There was virtually no interpersonal correlation (correlation index close to 0) on the 1st and 2nd weeks, a period during which the variability between animals and examiners (p=0.24 and 0.32, respectively) was similar, certainly due to a poor definition of the footprints. The authors conclude that the SFI method studied here is only reliable from the 3rd week on after a severe lesion of the sciatic nerve of rats.

  20. Carbon Nanotube Thin-Film Antennas.

    PubMed

    Puchades, Ivan; Rossi, Jamie E; Cress, Cory D; Naglich, Eric; Landi, Brian J

    2016-08-17

    Multiwalled carbon nanotube (MWCNT) and single-walled carbon nanotube (SWCNT) dipole antennas have been successfully designed, fabricated, and tested. Antennas of varying lengths were fabricated using flexible bulk MWCNT sheet material and evaluated to confirm the validity of a full-wave antenna design equation. The ∼20× improvement in electrical conductivity provided by chemically doped SWCNT thin films over MWCNT sheets presents an opportunity for the fabrication of thin-film antennas, leading to potentially simplified system integration and optical transparency. The resonance characteristics of a fabricated chlorosulfonic acid-doped SWCNT thin-film antenna demonstrate the feasibility of the technology and indicate that when the sheet resistance of the thin film is >40 ohm/sq no power is absorbed by the antenna and that a sheet resistance of <10 ohm/sq is needed to achieve a 10 dB return loss in the unbalanced antenna. The dependence of the return loss performance on the SWCNT sheet resistance is consistent with unbalanced metal, metal oxide, and other CNT-based thin-film antennas, and it provides a framework for which other thin-film antennas can be designed. PMID:27454334

  1. Carbon Nanotube Thin-Film Antennas.

    PubMed

    Puchades, Ivan; Rossi, Jamie E; Cress, Cory D; Naglich, Eric; Landi, Brian J

    2016-08-17

    Multiwalled carbon nanotube (MWCNT) and single-walled carbon nanotube (SWCNT) dipole antennas have been successfully designed, fabricated, and tested. Antennas of varying lengths were fabricated using flexible bulk MWCNT sheet material and evaluated to confirm the validity of a full-wave antenna design equation. The ∼20× improvement in electrical conductivity provided by chemically doped SWCNT thin films over MWCNT sheets presents an opportunity for the fabrication of thin-film antennas, leading to potentially simplified system integration and optical transparency. The resonance characteristics of a fabricated chlorosulfonic acid-doped SWCNT thin-film antenna demonstrate the feasibility of the technology and indicate that when the sheet resistance of the thin film is >40 ohm/sq no power is absorbed by the antenna and that a sheet resistance of <10 ohm/sq is needed to achieve a 10 dB return loss in the unbalanced antenna. The dependence of the return loss performance on the SWCNT sheet resistance is consistent with unbalanced metal, metal oxide, and other CNT-based thin-film antennas, and it provides a framework for which other thin-film antennas can be designed.

  2. Controlled round-window stimulation in human temporal bones yielding reproducible and functionally relevant stapedial responses.

    PubMed

    Schraven, Sebastian P; Hirt, Bernhard; Gummer, Anthony W; Zenner, Hans-Peter; Dalhoff, Ernst

    2011-12-01

    Stimulation of the round window (RW) has gained increasing clinical importance. Clinical, as well as human temporal bone and in-vivo animal studies show considerable variability. The influence of RW stimulation on the cochlea remains unclear. We designed a human temporal-bone study with controlled direct mechanical stimulation of the RW membrane to identify conditions for successful RW stimulation. Eight human temporal bones were stimulated on the RW by piezoelectric stack actuators with cylindrical aluminium rods of diameter 0.5 mm and with either flat or 30° inclined top surface. Using a dedicated two-stage positioning protocol for the actuator, we achieved highly reproducible measurements of the stimulus vibration at the RW and of the resultant vibration of the stapes footplate. The reverse transmission, characterized by the displacement ratio of the stapes-footplate relative to the actuator tip on the RW membrane, yielded an average displacement ratio of 0.089 up to 1.2 kHz when the actuator was coupled without angular misalignment to the RW membrane. The results suggest that 90-μm pretension of the RW membrane is essential for optimum and reproducible RW stimulation. The displacements are shown to be roughly consistent with the equal-volume displacement hypothesis under specific assumptions about the displacement mode of the RW membrane. It is further suggested that the large inter-patient variability in the effectiveness of RW stimulation might be due primarily to the success of coupling, rather than to the variability of functionally relevant anatomical parameters.

  3. A Multilayered Thin Film Insulator for Harsh Environments

    NASA Technical Reports Server (NTRS)

    Wrbanek, John D.; Fralick, Gustave C.; Blaha, Charles A.; Busfield, A. Rachel; Thomas, Valarie D.

    2002-01-01

    The status of work to develop a reliable high temperature dielectric thin film for use with thin film sensors is presented. The use of thin films to electrically insulate thin film sensors on engine components minimizes the intrusiveness of the sensor and allows a more accurate measurement of the environment. A variety of insulating films were investigated for preventing electrical shorting caused by insulator failure between the sensor and the component. By alternating layers of sputtered high temperature ceramics, a sequence of insulating layers was devised that prevents pinholes from forming completely through the insulator and maintains high electrical resistivity at high temperatures. The major technical challenge remaining is to optimize the fabrication of the insulator with respect to composition to achieve a reliable high temperature insulating film. Data from the testing of various potentially insulating thin film systems is presented and their application to thin film sensors is also discussed.

  4. Sharing meanings: developing interoperable semantic technologies to enhance reproducibility in earth and environmental science research

    NASA Astrophysics Data System (ADS)

    Schildhauer, M.

    2015-12-01

    Earth and environmental scientists are familiar with the entities, processes, and theories germane to their field of study, and comfortable collecting and analyzing data in their area of interest. Yet, while there appears to be consistency and agreement as to the scientific "terms" used to describe features in their data and analyses, aside from a few fundamental physical characteristics—such as mass or velocity-- there can be broad tolerances, if not considerable ambiguity, in how many earth science "terms" map to the underlying "concepts" that they actually represent. This ambiguity in meanings, or "semantics", creates major problems for scientific reproducibility. It greatly impedes the ability to replicate results—by making it difficult to determine the specifics of the intended meanings of terms such as deforestation or carbon flux -- as to scope, composition, magnitude, etc. In addition, semantic ambiguity complicates assemblage of comparable data for reproducing results, due to ambiguous or idiosyncratic labels for measurements, such as percent cover of forest, where the term "forest" is undefined; or where a reported output of "total carbon-emissions" might just include CO2 emissions, but not methane emissions. In this talk, we describe how the NSF-funded DataONE repository for earth and environmental science data (http://dataone.org), is using W3C-standard languages (RDF/OWL) to build an ontology for clarifying concepts embodied in heterogeneous data and model outputs. With an initial focus on carbon cycling concepts using terrestrial biospheric model outputs and LTER productivity data, we describe how we are achieving interoperability with "semantic vocabularies" (or ontologies) from aligned earth and life science domains, including OBO-foundry ontologies such as ENVO and BCO; the ISO/OGC O&M; and the NSF Earthcube GeoLink project. Our talk will also discuss best practices that may be helpful for other groups interested in constructing their own

  5. Thin film photovoltaics -- Strategy of Eurec Agency

    SciTech Connect

    Bloss, W.H.

    1994-12-31

    European activities in the field of thin film photovoltaics are coordinated in a network by Eurec Agency (European Renewable Energy Centres Agency). Main emphasis lies in the development of an appropriate production technology of CIS and CdTe based photovoltaic modules in an industrial scale. These efforts are supported by a research program on relevant materials, structures and processes for thin film photovoltaics. Substantial progress has been achieved during the last years which opens new perspectives for future trends. Joint efforts in research and development based on CIS are coordinated by the network EUROCIS. A screening program on natural minerals with relevance to photovoltaic performance provides the basis for further strategic steps.

  6. Research Reproducibility in Longitudinal Multi-Center Studies Using Data from Electronic Health Records

    PubMed Central

    Zozus, Meredith N.; Richesson, Rachel L.; Walden, Anita; Tenenbaum, Jessie D.; Hammond, W.E.

    2016-01-01

    A fundamental premise of scientific research is that it should be reproducible. However, the specific requirements for reproducibility of research using electronic health record (EHR) data have not been sufficiently articulated. There is no guidance for researchers about how to assess a given project and identify provisions for reproducibility. We analyze three different clinical research initiatives that use EHR data in order to define a set of requirements to reproduce the research using the original or other datasets. We identify specific project features that drive these requirements. The resulting framework will support the much-needed discussion of strategies to ensure the reproducibility of research that uses data from EHRs. PMID:27570682

  7. Research Reproducibility in Longitudinal Multi-Center Studies Using Data from Electronic Health Records.

    PubMed

    Zozus, Meredith N; Richesson, Rachel L; Walden, Anita; Tenenbaum, Jessie D; Hammond, W E

    2016-01-01

    A fundamental premise of scientific research is that it should be reproducible. However, the specific requirements for reproducibility of research using electronic health record (EHR) data have not been sufficiently articulated. There is no guidance for researchers about how to assess a given project and identify provisions for reproducibility. We analyze three different clinical research initiatives that use EHR data in order to define a set of requirements to reproduce the research using the original or other datasets. We identify specific project features that drive these requirements. The resulting framework will support the much-needed discussion of strategies to ensure the reproducibility of research that uses data from EHRs. PMID:27570682

  8. Solutions able to reproduce in vivo surface-structure changes in bioactive glass-ceramic A-W.

    PubMed

    Kokubo, T; Kushitani, H; Sakka, S; Kitsugi, T; Yamamuro, T

    1990-06-01

    High-strength bioactive glass-ceramic A-W was soaked in various acellular aqueous solutions different in ion concentrations and pH. After soaking for 7 and 30 days, surface structural changes of the glass-ceramic were investigated by means of Fourier transform infrared reflection spectroscopy, thin-film x-ray diffraction, and scanning electronmicroscopic observations, in comparison with in vivo surface structural changes. So-called Tris buffer solution, pure water buffered with trishydroxymethyl-aminomethane, which had been used by various workers as a "simulated body fluid," did not reproduce the in vivo surface structural changes, i.e., apatite formation on the surface. A solution, ion concentrations and pH of which are almost equal to those of the human blood plasma--i.e., Na+ 142.0, K+ 5.0, Mg2+ 1.5, Ca2+ 2.5, Cl- 148.8, HCO3- 4.2 and PO4(2-) 1.0 mM and buffered at pH 7.25 with the trishydroxymethyl-aminomethane--most precisely reproduced in vivo surface structure change. This shows that careful selection of simulated body fluid is required for in vitro experiments. The results also support the concept that the apatite phase on the surface of glass-ceramic A-W is formed by a chemical reaction of the glass-ceramic with the Ca2+, HPO4(2-), and OH- ions in the body fluid.

  9. Achieving closure at Fernald

    SciTech Connect

    Bradburne, John; Patton, Tisha C.

    2001-02-25

    When Fluor Fernald took over the management of the Fernald Environmental Management Project in 1992, the estimated closure date of the site was more than 25 years into the future. Fluor Fernald, in conjunction with DOE-Fernald, introduced the Accelerated Cleanup Plan, which was designed to substantially shorten that schedule and save taxpayers more than $3 billion. The management of Fluor Fernald believes there are three fundamental concerns that must be addressed by any contractor hoping to achieve closure of a site within the DOE complex. They are relationship management, resource management and contract management. Relationship management refers to the interaction between the site and local residents, regulators, union leadership, the workforce at large, the media, and any other interested stakeholder groups. Resource management is of course related to the effective administration of the site knowledge base and the skills of the workforce, the attraction and retention of qualified a nd competent technical personnel, and the best recognition and use of appropriate new technologies. Perhaps most importantly, resource management must also include a plan for survival in a flat-funding environment. Lastly, creative and disciplined contract management will be essential to effecting the closure of any DOE site. Fluor Fernald, together with DOE-Fernald, is breaking new ground in the closure arena, and ''business as usual'' has become a thing of the past. How Fluor Fernald has managed its work at the site over the last eight years, and how it will manage the new site closure contract in the future, will be an integral part of achieving successful closure at Fernald.

  10. Pressurization and centralization enhance the quality and reproducibility of cement mantles.

    PubMed

    Noble, P C; Collier, M B; Maltry, J A; Kamaric, E; Tullos, H S

    1998-10-01

    Cementing technique has a profound influence on the incidence of aseptic loosening of total hip replacements. Two specific measures that seem to have the greatest impact on the longevity of cemented femoral stems are pressurization of cement and control of mantle thickness, typically through the use of modular centralizing devices attached to the tip of the prosthesis. Two laboratory studies are presented that examine the success of these measures in clinical practice. In the first study, the performance of five designs of intramedullary plugs in resisting migration during pressurization of cement was evaluated in human anatomic specimen femurs. Profound differences were observed between the performance of the different plug designs. In canals larger than 12 to 14 mm, most commercial devices failed to resist pressures greater than 30 to 40 pounds per square inch. Overall, it was estimated that between 6% to 76% of these devices would fail to resist cement pressures of 50 pounds per square inch in clinical practice. The second study examined the role of distal centralizers in the accumulation of air bubbles around the distal tip of the prosthesis during insertion of the stem into the femur. Acrylic replicas of a femoral stem were implanted in cavities simulating the femoral canal. Colored dyes, present within the cement, revealed the complex patterns of cement flow. It was shown that cement, dragged from the top of the femur, forms a thin layer that covers the entire surface of the prosthesis and the distal centralizer. Significant voids were present behind the trailing edges of the distal centralizer in 42% of the cases examined. These studies show that improvements in intramedullary plugs and stem centralizers are needed to increase the reproducibility of cement technique in total hip replacement.

  11. Achievement Goals and Achievement Emotions: A Meta-Analysis

    ERIC Educational Resources Information Center

    Huang, Chiungjung

    2011-01-01

    This meta-analysis synthesized 93 independent samples (N = 30,003) in 77 studies that reported in 78 articles examining correlations between achievement goals and achievement emotions. Achievement goals were meaningfully associated with different achievement emotions. The correlations of mastery and mastery approach goals with positive achievement…

  12. Reproducible Ultrahigh SERS Enhancement in Single Deterministic Hotspots Using Nanosphere-Plane Antennas Under Radially Polarized Excitation.

    PubMed

    Long, Jing; Yi, Hui; Li, Hongquan; Lei, Zeyu; Yang, Tian

    2016-01-01

    Surface enhanced Raman scattering (SERS) in a nanometer size hotspot has empowered the investigation of chemical structures and dynamic behaviors of one and a few molecules. However, further advancement is hindered by lack of large enough yet reproducible enhancement in single deterministic hotspots. To resolve this problem, here we introduce a nanosphere-plane antenna under radially polarized laser excitation experiment, which provides an electromagnetic enhancement of 10(9~10) at the gap of each individual nanosphere-plane antenna and a root-mean-square error down to 10(0.08) between them. The experiment also reveals a nonlinear SERS behavior with less than one plasmon, which is also observed within a single hotspot. The unprecedented simultaneous achievement of ultrahigh enhancement and reproducibility in deterministic individual hotspots is attributed to the combination of a well-controlled hotspot geometry, the efficient coupling between vertical antenna and laser which produces orders of magnitude higher enhancement than previous excitation methods, and low power operation which is critical for high reproducibility. Our method opens a path for systematic studies on single and few molecule SERS and their surface chemistry in an in-situ and well-controlled manner. PMID:27621109

  13. Reproducible Ultrahigh SERS Enhancement in Single Deterministic Hotspots Using Nanosphere-Plane Antennas Under Radially Polarized Excitation.

    PubMed

    Long, Jing; Yi, Hui; Li, Hongquan; Lei, Zeyu; Yang, Tian

    2016-09-13

    Surface enhanced Raman scattering (SERS) in a nanometer size hotspot has empowered the investigation of chemical structures and dynamic behaviors of one and a few molecules. However, further advancement is hindered by lack of large enough yet reproducible enhancement in single deterministic hotspots. To resolve this problem, here we introduce a nanosphere-plane antenna under radially polarized laser excitation experiment, which provides an electromagnetic enhancement of 10(9~10) at the gap of each individual nanosphere-plane antenna and a root-mean-square error down to 10(0.08) between them. The experiment also reveals a nonlinear SERS behavior with less than one plasmon, which is also observed within a single hotspot. The unprecedented simultaneous achievement of ultrahigh enhancement and reproducibility in deterministic individual hotspots is attributed to the combination of a well-controlled hotspot geometry, the efficient coupling between vertical antenna and laser which produces orders of magnitude higher enhancement than previous excitation methods, and low power operation which is critical for high reproducibility. Our method opens a path for systematic studies on single and few molecule SERS and their surface chemistry in an in-situ and well-controlled manner.

  14. Reproducible Ultrahigh SERS Enhancement in Single Deterministic Hotspots Using Nanosphere-Plane Antennas Under Radially Polarized Excitation

    PubMed Central

    Long, Jing; Yi, Hui; Li, Hongquan; Lei, Zeyu; Yang, Tian

    2016-01-01

    Surface enhanced Raman scattering (SERS) in a nanometer size hotspot has empowered the investigation of chemical structures and dynamic behaviors of one and a few molecules. However, further advancement is hindered by lack of large enough yet reproducible enhancement in single deterministic hotspots. To resolve this problem, here we introduce a nanosphere-plane antenna under radially polarized laser excitation experiment, which provides an electromagnetic enhancement of 109~10 at the gap of each individual nanosphere-plane antenna and a root-mean-square error down to 100.08 between them. The experiment also reveals a nonlinear SERS behavior with less than one plasmon, which is also observed within a single hotspot. The unprecedented simultaneous achievement of ultrahigh enhancement and reproducibility in deterministic individual hotspots is attributed to the combination of a well-controlled hotspot geometry, the efficient coupling between vertical antenna and laser which produces orders of magnitude higher enhancement than previous excitation methods, and low power operation which is critical for high reproducibility. Our method opens a path for systematic studies on single and few molecule SERS and their surface chemistry in an in-situ and well-controlled manner. PMID:27621109

  15. Reproducible Ultrahigh SERS Enhancement in Single Deterministic Hotspots Using Nanosphere-Plane Antennas Under Radially Polarized Excitation

    NASA Astrophysics Data System (ADS)

    Long, Jing; Yi, Hui; Li, Hongquan; Lei, Zeyu; Yang, Tian

    2016-09-01

    Surface enhanced Raman scattering (SERS) in a nanometer size hotspot has empowered the investigation of chemical structures and dynamic behaviors of one and a few molecules. However, further advancement is hindered by lack of large enough yet reproducible enhancement in single deterministic hotspots. To resolve this problem, here we introduce a nanosphere-plane antenna under radially polarized laser excitation experiment, which provides an electromagnetic enhancement of 109~10 at the gap of each individual nanosphere-plane antenna and a root-mean-square error down to 100.08 between them. The experiment also reveals a nonlinear SERS behavior with less than one plasmon, which is also observed within a single hotspot. The unprecedented simultaneous achievement of ultrahigh enhancement and reproducibility in deterministic individual hotspots is attributed to the combination of a well-controlled hotspot geometry, the efficient coupling between vertical antenna and laser which produces orders of magnitude higher enhancement than previous excitation methods, and low power operation which is critical for high reproducibility. Our method opens a path for systematic studies on single and few molecule SERS and their surface chemistry in an in-situ and well-controlled manner.

  16. Entrepreneur achievement. Liaoning province.

    PubMed

    Zhao, R

    1994-03-01

    This paper reports the successful entrepreneurial endeavors of members of a 20-person women's group in Liaoning Province, China. Jing Yuhong, a member of the Family Planning Association at Shileizi Village, Dalian City, provided the basis for their achievements by first building an entertainment/study room in her home to encourage married women to learn family planning. Once stocked with books, magazines, pamphlets, and other materials on family planning and agricultural technology, dozens of married women in the neighborhood flocked voluntarily to the room. Yuhong also set out to give these women a way to earn their own income as a means of helping then gain greater equality with their husbands and exert greater control over their personal reproductive and social lives. She gave a section of her farming land to the women's group, loaned approximately US$5200 to group members to help them generate income from small business initiatives, built a livestock shed in her garden for the group to raise marmots, and erected an awning behind her house under which mushrooms could be grown. The investment yielded $12,000 in the first year, allowing each woman to keep more than $520 in dividends. Members then soon began going to fairs in the capital and other places to learn about the outside world, and have successfully ventured out on their own to generate individual incomes. Ten out of twenty women engaged in these income-generating activities asked for and got the one-child certificate.

  17. Method for synthesizing thin film electrodes

    DOEpatents

    Boyle, Timothy J.

    2007-03-13

    A method for making a thin-film electrode, either an anode or a cathode, by preparing a precursor solution using an alkoxide reactant, depositing multiple thin film layers with each layer approximately 500 1000 .ANG. in thickness, and heating the layers to above 600.degree. C. to achieve a material with electrochemical properties suitable for use in a thin film battery. The preparation of the anode precursor solution uses Sn(OCH.sub.2C(CH.sub.3).sub.3).sub.2 dissolved in a solvent in the presence of HO.sub.2CCH.sub.3 and the cathode precursor solution is formed by dissolving a mixture of (Li(OCH.sub.2C(CH.sub.3).sub.3)).sub.8 and Co(O.sub.2CCH.sub.3).H.sub.2O in at least one polar solvent.

  18. Prognostic Value and Reproducibility of Pretreatment CT Texture Features in Stage III Non-Small Cell Lung Cancer

    SciTech Connect

    Fried, David V.; Tucker, Susan L.; Zhou, Shouhao; Liao, Zhongxing; Mawlawi, Osama; Ibbott, Geoffrey; Court, Laurence E.

    2014-11-15

    .8% (±3.9% SD) classification reproducibility in terms of OS, LRC, and FFDM, respectively. Conclusions: Pretreatment tumor texture may provide prognostic information beyond that obtained from CPFs. Models incorporating feature reproducibility achieved classification rates of ∼80%. External validation would be required to establish texture as a prognostic factor.

  19. On the Possibility to Combine the Order Effect with Sequential Reproducibility for Quantum Measurements

    NASA Astrophysics Data System (ADS)

    Basieva, Irina; Khrennikov, Andrei

    2015-10-01

    In this paper we study the problem of a possibility to use quantum observables to describe a possible combination of the order effect with sequential reproducibility for quantum measurements. By the order effect we mean a dependence of probability distributions (of measurement results) on the order of measurements. We consider two types of the sequential reproducibility: adjacent reproducibility (A-A) (the standard perfect repeatability) and separated reproducibility(A-B-A). The first one is reproducibility with probability 1 of a result of measurement of some observable A measured twice, one A measurement after the other. The second one, A-B-A, is reproducibility with probability 1 of a result of A measurement when another quantum observable B is measured between two A's. Heuristically, it is clear that the second type of reproducibility is complementary to the order effect. We show that, surprisingly, this may not be the case. The order effect can coexist with a separated reproducibility as well as adjacent reproducibility for both observables A and B. However, the additional constraint in the form of separated reproducibility of the B-A-B type makes this coexistence impossible. The problem under consideration was motivated by attempts to apply the quantum formalism outside of physics, especially, in cognitive psychology and psychophysics. However, it is also important for foundations of quantum physics as a part of the problem about the structure of sequential quantum measurements.

  20. Reproducibility of 24-h post-exercise changes in energy intake in overweight and obese women using current methodology.

    PubMed

    Brown, Gemma L; Lean, Michael E; Hankey, Catherine R

    2012-07-01

    Direct observation(s) of energy intake (EI) via buffet meals served in the laboratory are often carried out within short-term exercise intervention studies. The reproducibility of values obtained has not been assessed either under resting control conditions or post-exercise, in overweight and obese females. A total of fourteen sedentary, pre-menopausal females (BMI 30.0 (SD 5.1) kg/m²) completed four trials; two exercise and two control. Each trial lasted 24 h spanning over 2 d; conducted from afternoon on day 1 and morning on day 2. An exercise session to expend 1.65 MJ was completed on day 1 of exercise trials, and three buffet meals were served during each trial. Reproducibility of post-exercise changes in energy and macronutrient intakes was assessed at each individual buffet meal by intraclass correlation coefficient (r(i)). Only the r(i) values for post-exercise changes in energy (r(i) 0.44 (95 % CI - 0.03, 0.77), P = 0.03) and fat intake (r(i) 0.51 (95 % CI 0.04, 0.81), P = 0.02) at the lunch buffet meal achieved statistical significance; however, these r i values were weak and had large associated 95 % CI, which indicates a large degree of variability associated with these measurements. Energy and macronutrient intakes at the breakfast and evening buffet meals were not reproducible. This study concludes that the frequently used laboratory-based buffet meal method of assessing EI does not produce reliable, reproducible post-exercise changes in EI in overweight and obese women.

  1. HEPEX - achievements and challenges!

    NASA Astrophysics Data System (ADS)

    Pappenberger, Florian; Ramos, Maria-Helena; Thielen, Jutta; Wood, Andy; Wang, Qj; Duan, Qingyun; Collischonn, Walter; Verkade, Jan; Voisin, Nathalie; Wetterhall, Fredrik; Vuillaume, Jean-Francois Emmanuel; Lucatero Villasenor, Diana; Cloke, Hannah L.; Schaake, John; van Andel, Schalk-Jan

    2014-05-01

    HEPEX is an international initiative bringing together hydrologists, meteorologists, researchers and end-users to develop advanced probabilistic hydrological forecast techniques for improved flood, drought and water management. HEPEX was launched in 2004 as an independent, cooperative international scientific activity. During the first meeting, the overarching goal was defined as: "to develop and test procedures to produce reliable hydrological ensemble forecasts, and to demonstrate their utility in decision making related to the water, environmental and emergency management sectors." The applications of hydrological ensemble predictions span across large spatio-temporal scales, ranging from short-term and localized predictions to global climate change and regional modeling. Within the HEPEX community, information is shared through its blog (www.hepex.org), meetings, testbeds and intercompaison experiments, as well as project reportings. Key questions of HEPEX are: * What adaptations are required for meteorological ensemble systems to be coupled with hydrological ensemble systems? * How should the existing hydrological ensemble prediction systems be modified to account for all sources of uncertainty within a forecast? * What is the best way for the user community to take advantage of ensemble forecasts and to make better decisions based on them? This year HEPEX celebrates its 10th year anniversary and this poster will present a review of the main operational and research achievements and challenges prepared by Hepex contributors on data assimilation, post-processing of hydrologic predictions, forecast verification, communication and use of probabilistic forecasts in decision-making. Additionally, we will present the most recent activities implemented by Hepex and illustrate how everyone can join the community and participate to the development of new approaches in hydrologic ensemble prediction.

  2. The Homogeneity of School Achievement.

    ERIC Educational Resources Information Center

    Cahan, Sorel

    Since the measurement of school achievement involves the administration of achievement tests to various grades on various subjects, both grade level and subject matter contribute to within-school achievement variations. To determine whether achievement test scores vary most among different fields within a grade level, or within fields among…

  3. Thin film hydrogen sensor

    DOEpatents

    Cheng, Y.T.; Poli, A.A.; Meltser, M.A.

    1999-03-23

    A thin film hydrogen sensor includes a substantially flat ceramic substrate with first and second planar sides and a first substrate end opposite a second substrate end; a thin film temperature responsive resistor on the first planar side of the substrate proximate to the first substrate end; a thin film hydrogen responsive metal resistor on the first planar side of the substrate proximate to the fist substrate end and proximate to the temperature responsive resistor; and a heater on the second planar side of the substrate proximate to the first end. 5 figs.

  4. Premelting of thin wires

    NASA Astrophysics Data System (ADS)

    Gülseren, O.; Ercolessi, F.; Tosatti, E.

    1995-03-01

    We have investigated the melting behavior of thin lead wires using molecular dynamics. We find that-in analogy with cluster melting-the melting temperature Tm(R) of a wire with radius R is lower than that of a bulk solid Tbm by Tm(R)=Tbm-c/R. Surface melting effects, with formation of a thin skin of highly diffusive atoms at the wire surface, are observed. The diffusivity is lower over (111)-oriented faces, and higher at (110) and (100) rounded areas. The possible relevance to recent results on nonrupturing thin necks between a scanning tunnel microscope tip and a warm surface is addressed.

  5. Thin film hydrogen sensor

    DOEpatents

    Cheng, Yang-Tse; Poli, Andrea A.; Meltser, Mark Alexander

    1999-01-01

    A thin film hydrogen sensor, includes: a substantially flat ceramic substrate with first and second planar sides and a first substrate end opposite a second substrate end; a thin film temperature responsive resistor on the first planar side of the substrate proximate to the first substrate end; a thin film hydrogen responsive metal resistor on the first planar side of the substrate proximate to the fist substrate end and proximate to the temperature responsive resistor; and a heater on the second planar side of the substrate proximate to the first end.

  6. Electrochemical thinning of silicon

    DOEpatents

    Medernach, John W.

    1994-01-01

    Porous semiconducting material, e.g. silicon, is formed by electrochemical treatment of a specimen in hydrofluoric acid, using the specimen as anode. Before the treatment, the specimen can be masked. The porous material is then etched with a caustic solution or is oxidized, depending of the kind of structure desired, e.g. a thinned specimen, a specimen, a patterned thinned specimen, a specimen with insulated electrical conduits, and so on. Thinned silicon specimen can be subjected to tests, such as measurement of interstitial oxygen by Fourier transform infra-red spectroscopy (FTIR).

  7. Electrochemical thinning of silicon

    DOEpatents

    Medernach, J.W.

    1994-01-11

    Porous semiconducting material, e.g. silicon, is formed by electrochemical treatment of a specimen in hydrofluoric acid, using the specimen as anode. Before the treatment, the specimen can be masked. The porous material is then etched with a caustic solution or is oxidized, depending of the kind of structure desired, e.g. a thinned specimen, a specimen, a patterned thinned specimen, a specimen with insulated electrical conduits, and so on. Thinned silicon specimen can be subjected to tests, such as measurement of interstitial oxygen by Fourier transform infra-red spectroscopy (FTIR). 14 figures.

  8. Biomimetic thin film synthesis

    SciTech Connect

    Graff, G.L.; Campbell, A.A.; Gordon, N.R.

    1995-05-01

    The purpose of this program is to develop a new process for forming thin film coatings and to demonstrate that the biomimetic thin film technology developed at PNL is useful for industrial applications. In the biomimetic process, mineral deposition from aqueous solution is controlled by organic functional groups attached to the underlying substrate surface. The coatings process is simple, benign, inexpensive, energy efficient, and particularly suited for temperature sensitive substrate materials (such as polymers). In addition, biomimetic thin films can be deposited uniformly on complex shaped and porous substrates providing a unique capability over more traditional line-of-sight methods.

  9. Automated Tissue Classification Framework for Reproducible Chronic Wound Assessment

    PubMed Central

    Mukherjee, Rashmi; Manohar, Dhiraj Dhane; Das, Dev Kumar; Achar, Arun; Mitra, Analava; Chakraborty, Chandan

    2014-01-01

    The aim of this paper was to develop a computer assisted tissue classification (granulation, necrotic, and slough) scheme for chronic wound (CW) evaluation using medical image processing and statistical machine learning techniques. The red-green-blue (RGB) wound images grabbed by normal digital camera were first transformed into HSI (hue, saturation, and intensity) color space and subsequently the “S” component of HSI color channels was selected as it provided higher contrast. Wound areas from 6 different types of CW were segmented from whole images using fuzzy divergence based thresholding by minimizing edge ambiguity. A set of color and textural features describing granulation, necrotic, and slough tissues in the segmented wound area were extracted using various mathematical techniques. Finally, statistical learning algorithms, namely, Bayesian classification and support vector machine (SVM), were trained and tested for wound tissue classification in different CW images. The performance of the wound area segmentation protocol was further validated by ground truth images labeled by clinical experts. It was observed that SVM with 3rd order polynomial kernel provided the highest accuracies, that is, 86.94%, 90.47%, and 75.53%, for classifying granulation, slough, and necrotic tissues, respectively. The proposed automated tissue classification technique achieved the highest overall accuracy, that is, 87.61%, with highest kappa statistic value (0.793). PMID:25114925

  10. Automated tissue classification framework for reproducible chronic wound assessment.

    PubMed

    Mukherjee, Rashmi; Manohar, Dhiraj Dhane; Das, Dev Kumar; Achar, Arun; Mitra, Analava; Chakraborty, Chandan

    2014-01-01

    The aim of this paper was to develop a computer assisted tissue classification (granulation, necrotic, and slough) scheme for chronic wound (CW) evaluation using medical image processing and statistical machine learning techniques. The red-green-blue (RGB) wound images grabbed by normal digital camera were first transformed into HSI (hue, saturation, and intensity) color space and subsequently the "S" component of HSI color channels was selected as it provided higher contrast. Wound areas from 6 different types of CW were segmented from whole images using fuzzy divergence based thresholding by minimizing edge ambiguity. A set of color and textural features describing granulation, necrotic, and slough tissues in the segmented wound area were extracted using various mathematical techniques. Finally, statistical learning algorithms, namely, Bayesian classification and support vector machine (SVM), were trained and tested for wound tissue classification in different CW images. The performance of the wound area segmentation protocol was further validated by ground truth images labeled by clinical experts. It was observed that SVM with 3rd order polynomial kernel provided the highest accuracies, that is, 86.94%, 90.47%, and 75.53%, for classifying granulation, slough, and necrotic tissues, respectively. The proposed automated tissue classification technique achieved the highest overall accuracy, that is, 87.61%, with highest kappa statistic value (0.793).

  11. Quantum theory as the most robust description of reproducible experiments

    NASA Astrophysics Data System (ADS)

    De Raedt, Hans; Katsnelson, Mikhail I.; Michielsen, Kristel

    2014-08-01

    knowledge always starts from the middle, that is, from the world of macroscopic objects. According to Bohr, the quantum theoretical description crucially depends on the existence of macroscopic objects which can be used as measuring devices. For an extensive analysis of the quantum measurement process from a dynamical point of view see Ref. [51]. Most importantly, the description of the macroscopic level is robust, that is, essentially independent of the underlying "more fundamental" picture [2]. As will be seen later, formalizing the notion of "robustness" is key to derive the basic equations of quantum theory from the general framework of logical inference.Key assumptions of the deductive approach are that the mathematical description is a complete description of the experiment under consideration and that there is no uncertainty about the conditions under which the experiment is carried out. If the theory does not fully account for all the relevant aspects of the phenomenon that we wish to describe, the general rules by which we deduce whether a proposition is true or false can no longer be used. However, in these circumstances, we can still resort to logical inference [37-41] to find useful answers to unambiguous questions. Of course, in general it will no longer be possible to say whether a proposition is true or false, hence there will always remain a residue of doubt. However, as will be shown, the description obtained through logical inference may also be unambiguous and independent of the individual.In the present paper, we demonstrate that the basic equations of quantum theory directly follow from logical inference applied to experiments in which there is uncertainty about individual events, the stringent condition that certain properties of the collection of events are reproducible, meaning that they are robust with respect to small changes in the conditions under which the experiments are carried out.

  12. Quantitative analysis of relationships between irradiation parameters and the reproducibility of cyclotron-produced 99mTc yields

    NASA Astrophysics Data System (ADS)

    Tanguay, J.; Hou, X.; Buckley, K.; Schaffer, P.; Bénard, F.; Ruth, T. J.; Celler, A.

    2015-05-01

    Cyclotron production of 99mTc through the 100Mo(p,2n) 99mTc reaction channel is actively being investigated as an alternative to reactor-based 99Mo generation by nuclear fission of 235U. An exciting aspect of this approach is that it can be implemented using currently-existing cyclotron infrastructure to supplement, or potentially replace, conventional 99mTc production methods that are based on aging and increasingly unreliable nuclear reactors. Successful implementation will require consistent production of large quantities of high-radionuclidic-purity 99mTc. However, variations in proton beam currents and the thickness and isotopic composition of enriched 100Mo targets, in addition to other irradiation parameters, may degrade reproducibility of both radionuclidic purity and absolute 99mTc yields. The purpose of this article is to present a method for quantifying relationships between random variations in production parameters, including 100Mo target thicknesses and proton beam currents, and reproducibility of absolute 99mTc yields (defined as the end of bombardment (EOB) 99mTc activity). Using the concepts of linear error propagation and the theory of stochastic point processes, we derive a mathematical expression that quantifies the influence of variations in various irradiation parameters on yield reproducibility, quantified in terms of the coefficient of variation of the EOB 99mTc activity. The utility of the developed formalism is demonstrated with an example. We show that achieving less than 20% variability in 99mTc yields will require highly-reproducible target thicknesses and proton currents. These results are related to the service rate which is defined as the percentage of 99mTc production runs that meet the minimum daily requirement of one (or many) nuclear medicine departments. For example, we show that achieving service rates of 84.0%, 97.5% and 99.9% with 20% variations in target thicknesses requires producing on average 1.2, 1.5 and 1.9 times the

  13. Quantitative analysis of relationships between irradiation parameters and the reproducibility of cyclotron-produced (99m)Tc yields.

    PubMed

    Tanguay, J; Hou, X; Buckley, K; Schaffer, P; Bénard, F; Ruth, T J; Celler, A

    2015-05-21

    Cyclotron production of (99m)Tc through the (100)Mo(p,2n) (99m)Tc reaction channel is actively being investigated as an alternative to reactor-based (99)Mo generation by nuclear fission of (235)U. An exciting aspect of this approach is that it can be implemented using currently-existing cyclotron infrastructure to supplement, or potentially replace, conventional (99m)Tc production methods that are based on aging and increasingly unreliable nuclear reactors. Successful implementation will require consistent production of large quantities of high-radionuclidic-purity (99m)Tc. However, variations in proton beam currents and the thickness and isotopic composition of enriched (100)Mo targets, in addition to other irradiation parameters, may degrade reproducibility of both radionuclidic purity and absolute (99m)Tc yields. The purpose of this article is to present a method for quantifying relationships between random variations in production parameters, including (100)Mo target thicknesses and proton beam currents, and reproducibility of absolute (99m)Tc yields (defined as the end of bombardment (EOB) (99m)Tc activity). Using the concepts of linear error propagation and the theory of stochastic point processes, we derive a mathematical expression that quantifies the influence of variations in various irradiation parameters on yield reproducibility, quantified in terms of the coefficient of variation of the EOB (99m)Tc activity. The utility of the developed formalism is demonstrated with an example. We show that achieving less than 20% variability in (99m)Tc yields will require highly-reproducible target thicknesses and proton currents. These results are related to the service rate which is defined as the percentage of (99m)Tc production runs that meet the minimum daily requirement of one (or many) nuclear medicine departments. For example, we show that achieving service rates of 84.0%, 97.5% and 99.9% with 20% variations in target thicknesses requires producing on average

  14. Quantitative analysis of relationships between irradiation parameters and the reproducibility of cyclotron-produced (99m)Tc yields.

    PubMed

    Tanguay, J; Hou, X; Buckley, K; Schaffer, P; Bénard, F; Ruth, T J; Celler, A

    2015-05-21

    Cyclotron production of (99m)Tc through the (100)Mo(p,2n) (99m)Tc reaction channel is actively being investigated as an alternative to reactor-based (99)Mo generation by nuclear fission of (235)U. An exciting aspect of this approach is that it can be implemented using currently-existing cyclotron infrastructure to supplement, or potentially replace, conventional (99m)Tc production methods that are based on aging and increasingly unreliable nuclear reactors. Successful implementation will require consistent production of large quantities of high-radionuclidic-purity (99m)Tc. However, variations in proton beam currents and the thickness and isotopic composition of enriched (100)Mo targets, in addition to other irradiation parameters, may degrade reproducibility of both radionuclidic purity and absolute (99m)Tc yields. The purpose of this article is to present a method for quantifying relationships between random variations in production parameters, including (100)Mo target thicknesses and proton beam currents, and reproducibility of absolute (99m)Tc yields (defined as the end of bombardment (EOB) (99m)Tc activity). Using the concepts of linear error propagation and the theory of stochastic point processes, we derive a mathematical expression that quantifies the influence of variations in various irradiation parameters on yield reproducibility, quantified in terms of the coefficient of variation of the EOB (99m)Tc activity. The utility of the developed formalism is demonstrated with an example. We show that achieving less than 20% variability in (99m)Tc yields will require highly-reproducible target thicknesses and proton currents. These results are related to the service rate which is defined as the percentage of (99m)Tc production runs that meet the minimum daily requirement of one (or many) nuclear medicine departments. For example, we show that achieving service rates of 84.0%, 97.5% and 99.9% with 20% variations in target thicknesses requires producing on average

  15. Repeatability and reproducibility of intracellular molar concentration assessed by synchrotron-based x-ray fluorescence microscopy

    NASA Astrophysics Data System (ADS)

    Merolle, L.; Malucelli, E.; Fratini, M.; Gianoncelli, A.; Notargiacomo, A.; Cappadone, C.; Farruggia, G.; Sargenti, A.; Procopio, A.; Lombardo, M.; Lagomarsino, S.; Iotti, S.

    2016-01-01

    Elemental analysis of biological sample can give information about content and distribution of elements essential for human life or trace elements whose absence is the cause of abnormal biological function or development. However, biological systems contain an ensemble of cells with heterogeneous chemistry and elemental content; therefore, accurate characterization of samples with high cellular heterogeneity may only be achieved by analyzing single cells. Powerful methods in molecular biology are abundant, among them X-Ray microscopy based on synchrotron light source has gaining increasing attention thanks to its extremely sensitivity. However, reproducibility and repeatability of these measurements is one of the major obstacles in achieving a statistical significance in single cells population analysis. In this study, we compared the elemental content of human colon adenocarcinoma cells obtained by three distinct accesses to synchrotron radiation light.

  16. Flexible, Ultra-Thin, Embedded Die Packaging

    NASA Astrophysics Data System (ADS)

    McPherson, Ryan J.

    As thin, flexible electronics solutions become more robust, their integration into everyday life becomes more likely. With possible applications in wearable electronics, biomedical sensors, or 'peel and stick' sensors, the reliability of these ultra-thin packages becomes paramount. Likewise, the density achievable with stacked packages benefits greatly from thinner die stacks. To this end, techniques previously developed have demonstrated packages with die thinned to approximately 20mum. Covered in this work are methods for thinning and packaging silicon die, as well as information on common materials used in these processes. The author's contribution is a fabrication process for embedding ultra-thin (approximately 10mum) silicon die in polyimide substrates. This method is fully illustrated in Chapter 3 and enumerated in the Appendix as a quick reference. Additionally, thermal cycle testing of passive daisy chain assemblies has shown promising reliability data. Packages were mounted in three alignments: flat, concave, and convex, and placed into thermal shock testing. Finally, the author discusses possible applications for this fabrication process, including the fabrication of multi-chip-modules.

  17. On Quantile Regression in Reproducing Kernel Hilbert Spaces with Data Sparsity Constraint

    PubMed Central

    Zhang, Chong; Liu, Yufeng; Wu, Yichao

    2015-01-01

    For spline regressions, it is well known that the choice of knots is crucial for the performance of the estimator. As a general learning framework covering the smoothing splines, learning in a Reproducing Kernel Hilbert Space (RKHS) has a similar issue. However, the selection of training data points for kernel functions in the RKHS representation has not been carefully studied in the literature. In this paper we study quantile regression as an example of learning in a RKHS. In this case, the regular squared norm penalty does not perform training data selection. We propose a data sparsity constraint that imposes thresholding on the kernel function coefficients to achieve a sparse kernel function representation. We demonstrate that the proposed data sparsity method can have competitive prediction performance for certain situations, and have comparable performance in other cases compared to that of the traditional squared norm penalty. Therefore, the data sparsity method can serve as a competitive alternative to the squared norm penalty method. Some theoretical properties of our proposed method using the data sparsity constraint are obtained. Both simulated and real data sets are used to demonstrate the usefulness of our data sparsity constraint. PMID:27134575

  18. Highly sensitive and reproducible silicon-based surface-enhanced Raman scattering sensors for real applications.

    PubMed

    Wang, Houyu; Jiang, Xiangxu; He, Yao

    2016-08-15

    During the past few decades, thanks to silicon nanomaterials' outstanding electronic/optical/mechanical properties, large surface-to-volume ratio, abundant surface chemistry, facile tailorability and good compatibility with modern semiconductor industry, different dimensional silicon nanostructures have been widely employed for rationally designing and fabricating high-performance surface-enhanced Raman scattering (SERS) sensors for the detection of various chemical and biological species. Among these, two-dimensional silicon nanostructures made of metal nanoparticle-modified silicon wafers and three-dimensional silicon nanostructures made of metal nanoparticle-decorated SiNW arrays are of particular interest, and have been extensively exploited as promising silicon-based SERS-active substrates for the construction of high-performance SERS sensors. With an aim to retrospect these important and exciting achievements, we herein focus on reviewing recent representative studies on silicon-based SERS sensors for sensing applications from a broad perspective and possible future direction, promoting readers' awareness of these novel powerful silicon-based SERS sensing technologies. Firstly, we summarize the two unique merits of silicon-based SERS sensors, and those are high sensitivity and good reproducibility. Next, we present recent advances of two- and three-dimensional silicon-based SERS sensors, especially for real applications. Finally, we discuss the major challenges and prospects for the development of silicon-based SERS sensors.

  19. Reproducible fabrication of stable small nano Pt with high activity for sensor applications.

    PubMed

    Ye, Pingping; Guo, Xiaoyu; Liu, Guiting; Chen, Huifen; Pan, Yuxia; Wen, Ying; Yang, Haifeng

    2013-07-26

    Pt nanoparticles with an average size of 2-3 nm in diameter were reproducibly synthesized by reduction of H₂PtCl₆ solution containing inositol hexaphosphate (IP₆) as the stabilizing agent. Single crystals with Pt(111) faces of the resulting cubic nanoparticles were revealed by the electron diffraction pattern. The PtNPs-IP₆ nanoparticles were used to modify an electrode as a nonenzymatic sensor for H₂O₂ detection, exhibiting a fast response and high sensitivity. A low detection limit of 2.0 × 10⁻⁷ M (S/N = 3) with two linear ranges between 2.4 × 10⁻⁷ and 1.3 × 10⁻³ M (R² = 0.9987) and between 1.3 × 10⁻³ and 1.3 × 10⁻² M (R² = 0.9980) was achieved. The attractive electrochemical performance of PtNPs-IP₆ enables it to be employed as a promising material for the development of Pt-based analytical systems and other applications.

  20. Accuracy and reproducibility of bending stiffness measurements by mechanical response tissue analysis in artificial human ulnas.

    PubMed

    Arnold, Patricia A; Ellerbrock, Emily R; Bowman, Lyn; Loucks, Anne B

    2014-11-01

    Osteoporosis is characterized by reduced bone strength, but no FDA-approved medical device measures bone strength. Bone strength is strongly associated with bone stiffness, but no FDA-approved medical device measures bone stiffness either. Mechanical Response Tissue Analysis (MRTA) is a non-significant risk, non-invasive, radiation-free, vibration analysis technique for making immediate, direct functional measurements of the bending stiffness of long bones in humans in vivo. MRTA has been used for research purposes for more than 20 years, but little has been published about its accuracy. To begin to investigate its accuracy, we compared MRTA measurements of bending stiffness in 39 artificial human ulna bones to measurements made by Quasistatic Mechanical Testing (QMT). In the process, we also quantified the reproducibility (i.e., precision and repeatability) of both methods. MRTA precision (1.0±1.0%) and repeatability (3.1 ± 3.1%) were not as high as those of QMT (0.2 ± 0.2% and 1.3+1.7%, respectively; both p<10(-4)). The relationship between MRTA and QMT measurements of ulna bending stiffness was indistinguishable from the identity line (p=0.44) and paired measurements by the two methods agreed within a 95% confidence interval of ± 5%. If such accuracy can be achieved on real human ulnas in situ, and if the ulna is representative of the appendicular skeleton, MRTA may prove clinically useful.

  1. Highly sensitive and reproducible silicon-based surface-enhanced Raman scattering sensors for real applications.

    PubMed

    Wang, Houyu; Jiang, Xiangxu; He, Yao

    2016-08-15

    During the past few decades, thanks to silicon nanomaterials' outstanding electronic/optical/mechanical properties, large surface-to-volume ratio, abundant surface chemistry, facile tailorability and good compatibility with modern semiconductor industry, different dimensional silicon nanostructures have been widely employed for rationally designing and fabricating high-performance surface-enhanced Raman scattering (SERS) sensors for the detection of various chemical and biological species. Among these, two-dimensional silicon nanostructures made of metal nanoparticle-modified silicon wafers and three-dimensional silicon nanostructures made of metal nanoparticle-decorated SiNW arrays are of particular interest, and have been extensively exploited as promising silicon-based SERS-active substrates for the construction of high-performance SERS sensors. With an aim to retrospect these important and exciting achievements, we herein focus on reviewing recent representative studies on silicon-based SERS sensors for sensing applications from a broad perspective and possible future direction, promoting readers' awareness of these novel powerful silicon-based SERS sensing technologies. Firstly, we summarize the two unique merits of silicon-based SERS sensors, and those are high sensitivity and good reproducibility. Next, we present recent advances of two- and three-dimensional silicon-based SERS sensors, especially for real applications. Finally, we discuss the major challenges and prospects for the development of silicon-based SERS sensors. PMID:27414500

  2. Reproducibility study for the detection of Staphylococcal enterotoxins in dairy products between official Italian national laboratories.

    PubMed

    Bianchi, D M; Ingravalle, F; Adriano, D; Gallina, S; Gramaglia, M; Zuccon, F; Astegiano, S; Bellio, A; Macori, G; Ru, G; Decastelli, L

    2014-06-01

    Staphylococcal food poisoning is a common foodborne disease caused by the ingestion of staphylococcal enterotoxins (SEs) produced mainly by enterotoxigenic strains of Staphylococcus aureus. To date, 21 SEs and/or enterotoxin-like types have been identified, several of which represent a potential hazard for consumers. To protect consumer health and to reduce the amount of SE-contaminated food entering the market, European Union legislation regulating food safety requires testing for SEs. The Italian National Reference Laboratory organized a ring trial to test technical and analytical proficiency in the national network of official food laboratories. Twenty-four laboratories took part, and each received and analyzed 24 blind dairy samples. Reproducibility of the results from the laboratories was assessed by the Cohen k index, and accuracy (sensitivity and specificity) was evaluated according to the International Organization for Standardization definition (ISO 16140:2003). Trial results revealed partially satisfactory agreement: 254 of 276 possible paired participants (92%) reached a k value >0.60, which is conventionally recognized as satisfactory. Accuracy was deemed satisfactory; 100% sensitivity and 100% specificity were achieved by 22 and 18 of the 24 laboratories, respectively.

  3. Reproducing normative and marginalized masculinities: adolescent male popularity and the outcast.

    PubMed

    Phillips, Debby A

    2005-09-01

    Every day, in professional work and in our personal lives, we reproduce by words and behaviors particular understandings of life and how it works. This includes understandings about what is 'normal' and 'not normal' masculinity and who are 'normal' and 'not normal' boys and men. Being marginalized or outcast from the norm is rarely a free choice. The language that constructs normal and abnormal is not innocent and does not simply arrive in our minds transparently reflected in our behavior or in our client advice or student education. Examining words and behaviors from adolescent boys and from media sources, this research explores the role of cultural discourses in producing normative and marginalized masculinities. It builds upon recent scholarship that questions cultural prescriptions for masculinity and traditional male norms. Feminist, poststructural, psychoanalytic discourse analysis and multiple methods were used to explore links between cultural discourses of masculinity and performativity of masculinity. Practices of heterosexuality, homophobia, athleticism, economic privilege, toughness, and violence provided pathways toward achieving and/or maintaining status as the hegemonic masculine norm in adolescence. 'Popularity' signified the norm and 'outcasts' from the norm signified marginalized masculinities. PMID:16083473

  4. Design Procedure and Fabrication of Reproducible Silicon Vernier Devices for High-Performance Refractive Index Sensing

    PubMed Central

    Troia, Benedetto; Khokhar, Ali Z.; Nedeljkovic, Milos; Reynolds, Scott A.; Hu, Youfang; Mashanovich, Goran Z.; Passaro, Vittorio M. N.

    2015-01-01

    In this paper, we propose a generalized procedure for the design of integrated Vernier devices for high performance chemical and biochemical sensing. In particular, we demonstrate the accurate control of the most critical design and fabrication parameters of silicon-on-insulator cascade-coupled racetrack resonators operating in the second regime of the Vernier effect, around 1.55 μm. The experimental implementation of our design strategies has allowed a rigorous and reliable investigation of the influence of racetrack resonator and directional coupler dimensions as well as of waveguide process variability on the operation of Vernier devices. Figures of merit of our Vernier architectures have been measured experimentally, evidencing a high reproducibility and a very good agreement with the theoretical predictions, as also confirmed by relative errors even lower than 1%. Finally, a Vernier gain as high as 30.3, average insertion loss of 2.1 dB and extinction ratio up to 30 dB have been achieved. PMID:26067193

  5. Using Make for Reproducible and Parallel Neuroimaging Workflow and Quality-Assurance

    PubMed Central

    Askren, Mary K.; McAllister-Day, Trevor K.; Koh, Natalie; Mestre, Zoé; Dines, Jennifer N.; Korman, Benjamin A.; Melhorn, Susan J.; Peterson, Daniel J.; Peverill, Matthew; Qin, Xiaoyan; Rane, Swati D.; Reilly, Melissa A.; Reiter, Maya A.; Sambrook, Kelly A.; Woelfer, Karl A.; Grabowski, Thomas J.; Madhyastha, Tara M.

    2016-01-01

    The contribution of this paper is to describe how we can program neuroimaging workflow using Make, a software development tool designed for describing how to build executables from source files. A makefile (or a file of instructions for Make) consists of a set of rules that create or update target files if they have not been modified since their dependencies were last modified. These rules are processed to create a directed acyclic dependency graph that allows multiple entry points from which to execute the workflow. We show that using Make we can achieve many of the features of more sophisticated neuroimaging pipeline systems, including reproducibility, parallelization, fault tolerance, and quality assurance reports. We suggest that Make permits a large step toward these features with only a modest increase in programming demands over shell scripts. This approach reduces the technical skill and time required to write, debug, and maintain neuroimaging workflows in a dynamic environment, where pipelines are often modified to accommodate new best practices or to study the effect of alternative preprocessing steps, and where the underlying packages change frequently. This paper has a comprehensive accompanying manual with lab practicals and examples (see Supplemental Materials) and all data, scripts, and makefiles necessary to run the practicals and examples are available in the “makepipelines” project at NITRC. PMID:26869916

  6. Inexpensive and Highly Reproducible Cloud-Based Variant Calling of 2,535 Human Genomes

    PubMed Central

    Shringarpure, Suyash S.; Carroll, Andrew; De La Vega, Francisco M.; Bustamante, Carlos D.

    2015-01-01

    Population scale sequencing of whole human genomes is becoming economically feasible; however, data management and analysis remains a formidable challenge for many research groups. Large sequencing studies, like the 1000 Genomes Project, have improved our understanding of human demography and the effect of rare genetic variation in disease. Variant calling on datasets of hundreds or thousands of genomes is time-consuming, expensive, and not easily reproducible given the myriad components of a variant calling pipeline. Here, we describe a cloud-based pipeline for joint variant calling in large samples using the Real Time Genomics population caller. We deployed the population caller on the Amazon cloud with the DNAnexus platform in order to achieve low-cost variant calling. Using our pipeline, we were able to identify 68.3 million variants in 2,535 samples from Phase 3 of the 1000 Genomes Project. By performing the variant calling in a parallel manner, the data was processed within 5 days at a compute cost of $7.33 per sample (a total cost of $18,590 for completed jobs and $21,805 for all jobs). Analysis of cost dependence and running time on the data size suggests that, given near linear scalability, cloud computing can be a cheap and efficient platform for analyzing even larger sequencing studies in the future. PMID:26110529

  7. Accuracy and reproducibility of bending stiffness measurements by mechanical response tissue analysis in artificial human ulnas.

    PubMed

    Arnold, Patricia A; Ellerbrock, Emily R; Bowman, Lyn; Loucks, Anne B

    2014-11-01

    Osteoporosis is characterized by reduced bone strength, but no FDA-approved medical device measures bone strength. Bone strength is strongly associated with bone stiffness, but no FDA-approved medical device measures bone stiffness either. Mechanical Response Tissue Analysis (MRTA) is a non-significant risk, non-invasive, radiation-free, vibration analysis technique for making immediate, direct functional measurements of the bending stiffness of long bones in humans in vivo. MRTA has been used for research purposes for more than 20 years, but little has been published about its accuracy. To begin to investigate its accuracy, we compared MRTA measurements of bending stiffness in 39 artificial human ulna bones to measurements made by Quasistatic Mechanical Testing (QMT). In the process, we also quantified the reproducibility (i.e., precision and repeatability) of both methods. MRTA precision (1.0±1.0%) and repeatability (3.1 ± 3.1%) were not as high as those of QMT (0.2 ± 0.2% and 1.3+1.7%, respectively; both p<10(-4)). The relationship between MRTA and QMT measurements of ulna bending stiffness was indistinguishable from the identity line (p=0.44) and paired measurements by the two methods agreed within a 95% confidence interval of ± 5%. If such accuracy can be achieved on real human ulnas in situ, and if the ulna is representative of the appendicular skeleton, MRTA may prove clinically useful. PMID:25261885

  8. Efficient and reproducible generation of tumour-infiltrating lymphocytes for renal cell carcinoma

    PubMed Central

    Baldan, V; Griffiths, R; Hawkins, R E; Gilham, D E

    2015-01-01

    Background: Tumour-infiltrating lymphocyte (TIL) therapy is showing great promise in the treatment of patients with advanced malignant melanoma. However, the translation of TIL therapy to non-melanoma tumours such as renal cell carcinoma has been less successful with a major constraint being the inability to reproducibly generate TILs from primary and metastatic tumour tissue. Methods: Primary and metastatic renal cell carcinoma biopsies were subjected to differential tumour disaggregation methods and procedures that stimulate the specific expansion of TILs tested to determine which reliably generated TIL maintained antitumour specificity. Results: Enzymatic or combined enzymatic/mechanical disaggregation resulted in equivalent numbers of TILs being liberated from renal cell carcinoma biopsies. Following mitogenic activation of the isolated TILs with anti-CD3/anti-CD28-coated paramagnetic beads, successful TIL expansion was achieved in 90% of initiated cultures. The frequency of T-cell recognition of autologous tumours was enhanced when tumours were disaggregated using the GentleMACS enzymatic/mechanical system. Conclusion: TILs can be consistently produced from renal cell carcinoma biopsies maintaining autologous tumour recognition after expansion in vitro. While the method of disaggregation has little impact on the success of TIL growth, methods that preserve the cell surface architecture facilitate TIL recognition of an autologous tumour, which is important in terms of characterising the functionality of the expanded TIL population. PMID:25867267

  9. Reproducing normative and marginalized masculinities: adolescent male popularity and the outcast.

    PubMed

    Phillips, Debby A

    2005-09-01

    Every day, in professional work and in our personal lives, we reproduce by words and behaviors particular understandings of life and how it works. This includes understandings about what is 'normal' and 'not normal' masculinity and who are 'normal' and 'not normal' boys and men. Being marginalized or outcast from the norm is rarely a free choice. The language that constructs normal and abnormal is not innocent and does not simply arrive in our minds transparently reflected in our behavior or in our client advice or student education. Examining words and behaviors from adolescent boys and from media sources, this research explores the role of cultural discourses in producing normative and marginalized masculinities. It builds upon recent scholarship that questions cultural prescriptions for masculinity and traditional male norms. Feminist, poststructural, psychoanalytic discourse analysis and multiple methods were used to explore links between cultural discourses of masculinity and performativity of masculinity. Practices of heterosexuality, homophobia, athleticism, economic privilege, toughness, and violence provided pathways toward achieving and/or maintaining status as the hegemonic masculine norm in adolescence. 'Popularity' signified the norm and 'outcasts' from the norm signified marginalized masculinities.

  10. Ceramic Composite Thin Films

    NASA Technical Reports Server (NTRS)

    Ruoff, Rodney S. (Inventor); Stankovich, Sasha (Inventor); Dikin, Dmitriy A. (Inventor); Nguyen, SonBinh T. (Inventor)

    2013-01-01

    A ceramic composite thin film or layer includes individual graphene oxide and/or electrically conductive graphene sheets dispersed in a ceramic (e.g. silica) matrix. The thin film or layer can be electrically conductive film or layer depending the amount of graphene sheets present. The composite films or layers are transparent, chemically inert and compatible with both glass and hydrophilic SiOx/silicon substrates. The composite film or layer can be produced by making a suspension of graphene oxide sheet fragments, introducing a silica-precursor or silica to the suspension to form a sol, depositing the sol on a substrate as thin film or layer, at least partially reducing the graphene oxide sheets to conductive graphene sheets, and thermally consolidating the thin film or layer to form a silica matrix in which the graphene oxide and/or graphene sheets are dispersed.

  11. Super Thin Ceramic Coatings

    NASA Video Gallery

    New technology being developed at NASA's Glenn Research Center creates super thin ceramic coatings on engine components. The Plasma Spray – Physical Vapor Deposition (PS-PVD) rig uses a powerful ...

  12. Multifunctional thin film surface

    DOEpatents

    Brozik, Susan M.; Harper, Jason C.; Polsky, Ronen; Wheeler, David R.; Arango, Dulce C.; Dirk, Shawn M.

    2015-10-13

    A thin film with multiple binding functionality can be prepared on an electrode surface via consecutive electroreduction of two or more aryl-onium salts with different functional groups. This versatile and simple method for forming multifunctional surfaces provides an effective means for immobilization of diverse molecules at close proximities. The multifunctional thin film has applications in bioelectronics, molecular electronics, clinical diagnostics, and chemical and biological sensing.

  13. Preparation and characterization of nanoporous gold thin films

    NASA Astrophysics Data System (ADS)

    Dixon, Matthew Curran

    In the first chapter, methods for preparing different types of nanoporous Au (nPG) are described, along with a wide variety of applications and uses in the scientific and engineering community. Of particular interest, though, is the nanoporous structure that arises from dealloying Ag from AgAu. Details about the formation of AgAu alloys and the different methods for dealloying AgAu alloys are discussed, including a brief history of the dealloying mechanism for a binary alloy. The chapter concludes with a brief overview of the thesis' subsequent chapters. The second chapter focuses on the preparation and characterization of nPG thin films of varying thickness and etch times. We adapted the approach of dealloying Ag from AgAu due to its widespread application, well understood mechanism, uniformity in pore size, and reproducible structure formation. The atomic percentage of Ag70Au30 was chosen for this work since an initial collaboration and previous studies have used this particular ratio, and demonstrated pore sizes on the order of tens of nanometers were achievable upon dealloying. We designed a new technique to deposit AgAu alloys onto surfaces. Specifically, the technique entailed argon ion sputtering a premade ingot containing Ag70Au30 onto a substrate. The third chapter describes the functionaliztion and subsequent characterization of organic films chemisorbed onto a variety of nPG films. Self-assembled monolayers of thiol containing molecules were made using typical literature procedures. The coverage of a variety of molecules were estimated using depth profiling XPS, solid state nuclear magnetic resonance, adsorption measurements and redox electrochemistry. Film quality was estimated using electrochemical tunneling measurements and reflection infrared spectroscopy; these showed that film quality on nPG was comparable to that on flat Au. The macroscopic wetting properties of functionalized nPG, as measured using contact angles, were found to reflect the

  14. Reproducibility of biofilm processes and the meaning of steady state in biofilm reactors.

    PubMed

    Lewandowski, Z; Beyenal, H; Stookey, D

    2004-01-01

    The need for reproducing biofilm processes is undisputable - the quality of biofilm research depends on this reproducibility. However, as many biofilm researchers know, long-term biofilm processes are notoriously difficult to reproduce. To avoid problems related to biofilm reproducibility two strategies are used: (1) to study very young biofilms that have accumulated for a few hours to a few days only, and (2) to run biofilm experiments only once. The first approach trades reproducibility for relevance because natural biofilms are usually older, often much older than a few days. This approach can be applied to answer questions relevant to initial events of biofilm formation but not questions relevant to long-term biofilm accumulation. The second approach conceals the problem of biofilm reproducibility. To assure reproducibility of biofilm processes, we methodically followed a procedure for growing biofilms in terms of microbial makeup, media composition, temperature, surface preparation, etc. Despite all this effort the reproducibility of our results for long term growth is unimpressive. Consequently, the question had to be asked: Are biofilm processes reproducible? The experiments described in this paper address this question. Biofilms grown in two identical and identically operated biofilm reactors had comparable structure only until the first sloughing event. After that, biofilms had different patterns of accumulation.

  15. Achieving High Performance Perovskite Solar Cells

    NASA Astrophysics Data System (ADS)

    Yang, Yang

    2015-03-01

    Recently, metal halide perovskite based solar cell with the characteristics of rather low raw materials cost, great potential for simple process and scalable production, and extreme high power conversion efficiency (PCE), have been highlighted as one of the most competitive technologies for next generation thin film photovoltaic (PV). In UCLA, we have realized an efficient pathway to achieve high performance pervoskite solar cells, where the findings are beneficial to this unique materials/devices system. Our recent progress lies in perovskite film formation, defect passivation, transport materials design, interface engineering with respect to high performance solar cell, as well as the exploration of its applications beyond photovoltaics. These achievements include: 1) development of vapor assisted solution process (VASP) and moisture assisted solution process, which produces perovskite film with improved conformity, high crystallinity, reduced recombination rate, and the resulting high performance; 2) examination of the defects property of perovskite materials, and demonstration of a self-induced passivation approach to reduce carrier recombination; 3) interface engineering based on design of the carrier transport materials and the electrodes, in combination with high quality perovskite film, which delivers 15 ~ 20% PCEs; 4) a novel integration of bulk heterojunction to perovskite solar cell to achieve better light harvest; 5) fabrication of inverted solar cell device with high efficiency and flexibility and 6) exploration the application of perovskite materials to photodetector. Further development in film, device architecture, and interfaces will lead to continuous improved perovskite solar cells and other organic-inorganic hybrid optoelectronics.

  16. Thin-Film Selective Emitter

    NASA Technical Reports Server (NTRS)

    Chubb, Donald L.; Lowe, Roland A.

    1993-01-01

    Direct conversion of thermal energy into electrical energy using a photovoltaic cell is called thermophotovoltaic energy conversion. One way to make this an efficient process is to have the thermal energy source be an efficient selective emitter of radiation. The emission must be near the band-gap energy of the photovoltaic cell. One possible method to achieve an efficient selective emitter is the use of a thin film of rare-earth oxides. The determination of the efficiency of such an emitter requires analysis of the spectral emittance of the thin film including scattering and reflectance at the vacuum-film and film-substrate interfaces. Emitter efficiencies (power emitted in emission band/total emitted power) in the range 0.35-0.7 are predicted. There is an optimum optical depth to obtain maximum efficiency. High emitter efficiencies are attained only for low (less than 0.05) substrate emittance values, both with and without scattering. The low substrate emittance required for high efficiency limits the choice of substrate materials to highly reflective metals or high-transmission materials such as sapphire.

  17. Attitude Towards Physics and Additional Mathematics Achievement Towards Physics Achievement

    ERIC Educational Resources Information Center

    Veloo, Arsaythamby; Nor, Rahimah; Khalid, Rozalina

    2015-01-01

    The purpose of this research is to identify the difference in students' attitude towards Physics and Additional Mathematics achievement based on gender and relationship between attitudinal variables towards Physics and Additional Mathematics achievement with achievement in Physics. This research focused on six variables, which is attitude towards…

  18. The Impact of Reading Achievement on Overall Academic Achievement

    ERIC Educational Resources Information Center

    Churchwell, Dawn Earheart

    2009-01-01

    This study examined the relationship between reading achievement and achievement in other subject areas. The purpose of this study was to determine if there was a correlation between reading scores as measured by the Standardized Test for the Assessment of Reading (STAR) and academic achievement in language arts, math, science, and social studies…

  19. Structures for dense, crack free thin films

    DOEpatents

    Jacobson, Craig P.; Visco, Steven J.; De Jonghe, Lutgard C.

    2011-03-08

    The process described herein provides a simple and cost effective method for making crack free, high density thin ceramic film. The steps involve depositing a layer of a ceramic material on a porous or dense substrate. The deposited layer is compacted and then the resultant laminate is sintered to achieve a higher density than would have been possible without the pre-firing compaction step.

  20. Room temperature ferroelectricity in continuous croconic acid thin films

    NASA Astrophysics Data System (ADS)

    Jiang, Xuanyuan; Lu, Haidong; Yin, Yuewei; Zhang, Xiaozhe; Wang, Xiao; Yu, Le; Ahmadi, Zahra; Costa, Paulo S.; DiChiara, Anthony D.; Cheng, Xuemei; Gruverman, Alexei; Enders, Axel; Xu, Xiaoshan

    2016-09-01

    Ferroelectricity at room temperature has been demonstrated in nanometer-thin quasi 2D croconic acid thin films, by the polarization hysteresis loop measurements in macroscopic capacitor geometry, along with observation and manipulation of the nanoscale domain structure by piezoresponse force microscopy. The fabrication of continuous thin films of the hydrogen-bonded croconic acid was achieved by the suppression of the thermal decomposition using low evaporation temperatures in high vacuum, combined with growth conditions far from thermal equilibrium. For nominal coverages ≥20 nm, quasi 2D and polycrystalline films, with an average grain size of 50-100 nm and 3.5 nm roughness, can be obtained. Spontaneous ferroelectric domain structures of the thin films have been observed and appear to correlate with the grain patterns. The application of this solvent-free growth protocol may be a key to the development of flexible organic ferroelectric thin films for electronic applications.

  1. Tailoring Thin Film-Lacquer Coatings for Space Application

    NASA Technical Reports Server (NTRS)

    Peters, Wanda C.; Harris, George; Miller, Grace; Petro, John

    1998-01-01

    Thin film coatings have the capability of obtaining a wide range of thermal radiative properties, but the development of thin film coatings can sometimes be difficult and costly when trying to achieve highly specular surfaces. Given any space mission's thermal control requirements, there is often a need for a variation of solar absorptance (Alpha(s)), emittance (epsilon) and/or highly specular surfaces. The utilization of thin film coatings is one process of choice for meeting challenging thermal control requirements because of its ability to provide a wide variety of Alpha(s)/epsilon ratios. Thin film coatings' radiative properties can be tailored to meet specific thermal control requirements through the use of different metals and the variation of dielectric layer thickness. Surface coatings can be spectrally selective to enhance radiative coupling and decoupling. The application of lacquer to a surface can also provide suitable specularity for thin film application without the cost and difficulty associated with polishing.

  2. Longwall mining of thin seams

    SciTech Connect

    Curth, E A

    1981-01-01

    Thin seam operations pose a challenge to the ingenuity of mining engineers to overcome the factor of human inconvenience in the restricted environment and associated high cost production. Surprisingly, low seam longwalls in the Federal Republic of Germany in an average thickness of 35 in. and dipping less than 18/sup 0/ come close to achieving the average production rate of all German longwall operations. They are all plow faces, and a consistent production of 3300 tons per day and a productivity of 40 tons per man shift are reported from one of the thin seam longwalls. These results were attained by reliable high-capacity equipment and roof support by shields that can be collapsed to as low as 22 inches. Maximum mining height for plow operated faces lies at 31.5 inches. Technology for mechanized mining of flat lying coalbeds less than 31.5 inches in thickness without rock cutting is not available, and firmness of coal, undulation of the strata, coalbed thickness variation, and the necessity of cutting rock, particularly through faults, set limits to plow application. The in-web shearer can be used in firm coal to a minimum mining height of 40 inches, and a daily production of 1650 to 2200 tons is reported from a longwall in the Saar district of Germany equipped with such a shearer and shields. Numerous in-web shearers are employed in the United Kingdom; reports as to their success are contradictory. Also, experience in the United States, though limited, has been negative. The steady increase in output from single drum shearer faces in Pennsylvania is a remarkable achievement, and occasional record breaking peaks in production indicate the potential of such mining. Technology development for the future is discussed.

  3. Venusian Polar Vortex reproduced in an Atmospheric General Circulation Model

    NASA Astrophysics Data System (ADS)

    Ando, Hiroki; Imamura, Takeshi; Takagi, Masahiro; Sugimoto, Norihiko; Kashimura, Hiroki

    for the truncation wavenumber. The coefficient of the vertical eddy diffusion is 0.15 m (2) s (-1) . A fast zonal wind in a solid-body rotation and the temperature field that balances with the zonal wind (gradient wind balance) is given as the initial state. Time integrations are performed until the solution achieves a statistically steady state. In this study we analyzed the data of 300 days of the last from getting to the quasi-steady state. The temporal and zonal mean wind and temperature fields are almost consistent with those obtained in previous studies (e.g., Kouyama et al. 2012; Tellmann et al. 2009). Barotropic or baroclinic instability occurs at the polar region, and zonal wavenumber one component is the most dominant in the polar vortex, followed by wavenumber two. It rotates the pole with the period of 4-5 days. These features are almost consistent with recent measurements (e.g. Lopez et al. 2013). We also calculated the potential vorticity distribution and found that it sometimes shows the filament structure, which is similar to the cloud morphology observed in recent imaging measurements (e.g. Piccioni et al. 2006). The vertical structure of each zonal wavenumber component has the common feature that the phase stands upright within the polar vortex and seems to shift at the top of the neutral stable layer. In this presentation, we will also compare the vertical structure seen in our calculation with that examined by radio occultation measurements in Venus Express mission.

  4. Processing, electrical and microwave properties of sputtered Tl-Ca-Ba-Cu-O superconducting thin films

    NASA Technical Reports Server (NTRS)

    Subramanyam, G.; Kapoor, V. J.; Chorey, C. M.; Bhasin, K. B.

    1993-01-01

    A reproducible fabrication process has been established for TlCaBaCuO thin films on LaAlO3 substrates by RF magnetron sputtering and post-deposition processing methods. Electrical transport properties of the thin films were measured on patterned four-probe test devices. Microwave properties of the films were obtained from unloaded Q measurements of all-superconducting ring resonators. This paper describes the processing, electrical and microwave properties of Tl2Ca1Ba2Cu2O(x) 2122-plane phase thin films.

  5. Significance of microstructure for a MOCVD-grown YSZ thin film gas sensor

    SciTech Connect

    Vetrone, J.; Foster, C.; Bai, G.

    1996-11-01

    The authors report the fabrication and characterization of a low temperature (200--400 C) thin film gas sensor constructed from a MOCVD-grown yttria-stabilized zirconia (YSZ) layer sandwiched between two platinum thin film electrodes. A reproducible gas-sensing response is produced by applying a cyclic voltage which generates voltammograms with gas-specific current peaks and shapes. Growth conditions are optimized for preparing YSZ films having dense microstructures, low leakage currents, and maximum ion conductivities. In particular, the effect of growth temperature on film morphology and texture is discussed and related to the electrical and gas-sensing properties of the thin film sensor device.

  6. Thin film adhesion by nanoindentation-induced superlayers. Final report

    SciTech Connect

    Gerberich, William W.; Volinsky, A.A.

    2001-06-01

    This work has analyzed the key variables of indentation tip radius, contact radius, delamination radius, residual stress and superlayer/film/interlayer properties on nanoindentation measurements of adhesion. The goal to connect practical works of adhesion for very thin films to true works of adhesion has been achieved. A review of this work titled ''Interfacial toughness measurements of thin metal films,'' which has been submitted to Acta Materialia, is included.

  7. SU-E-J-236: Audiovisual Biofeedback Improves Breath-Hold Lung Tumor Position Reproducibility Measured with 4D MRI

    SciTech Connect

    Lee, D; Pollock, S; Keall, P; Greer, P; Lapuz, C; Ludbrook, J; Kim, T

    2015-06-15

    Purpose: Audiovisual biofeedback breath-hold (AVBH) was employed to reproduce tumor position on inhale and exhale breath-holds for 4D tumor information. We hypothesize that lung tumor position will be more consistent using AVBH compared with conventional breath-hold (CBH). Methods: Lung tumor positions were determined for seven lung cancer patients (age: 25 – 74) during to two separate 3T MRI sessions. A breathhold training session was performed prior to the MRI sessions to allow patients to become comfortable with AVBH and their exhale and inhale target positions. CBH and AVBH 4D image datasets were obtained in the first MRI session (pre-treatment) and the second MRI session (midtreatment) within six weeks of the first session. Audio-instruction (MRI: Siemens Skyra) in CBH and verbal-instruction (radiographer) in AVBH were used. A radiation oncologist contoured the lung tumor using Eclipse (Varian Medical Systems); tumor position was quantified as the centroid of the contoured tumor after rigid registration based on vertebral anatomy across two MRI sessions. CBH and AVBH were compared in terms of the reproducibility assessed via (1) the difference between the two exhale positions for the two sessions and the two inhale positions for the sessions. (2) The difference in amplitude (exhale to inhale) between the two sessions. Results: Compared to CBH, AVBH improved the reproducibility of two exhale (or inhale) lung tumor positions relative to each other by 33%, from 6.4±5.3 mm to 4.3±3.0 mm (p=0.005). Compared to CBH, AVBH improved the reproducibility of exhale and inhale amplitude by 66%, from 5.6±5.9 mm to 1.9±1.4 mm (p=0.005). Conclusions: This study demonstrated that audiovisual biofeedback can be utilized for improving the reproducibility of breath-hold lung tumor position. These results are advantageous towards achieving more accurate emerging radiation treatment planning methods, in addition to imaging and treatment modalities utilizing breath

  8. In vivo reproducibility of robotic probe placement for an integrated US-CT image-guided radiation therapy system

    NASA Astrophysics Data System (ADS)

    Lediju Bell, Muyinatu A.; Sen, H. Tutkun; Iordachita, Iulian; Kazanzides, Peter; Wong, John

    2014-03-01

    Radiation therapy is used to treat cancer by delivering high-dose radiation to a pre-defined target volume. Ultrasound (US) has the potential to provide real-time, image-guidance of radiation therapy to identify when a target moves outside of the treatment volume (e.g. due to breathing), but the associated probe-induced tissue deformation causes local anatomical deviations from the treatment plan. If the US probe is placed to achieve similar tissue deformations in the CT images required for treatment planning, its presence causes streak artifacts that will interfere with treatment planning calculations. To overcome these challenges, we propose robot-assisted placement of a real ultrasound probe, followed by probe removal and replacement with a geometrically-identical, CT-compatible model probe. This work is the first to investigate in vivo deformation reproducibility with the proposed approach. A dog's prostate, liver, and pancreas were each implanted with three 2.38-mm spherical metallic markers, and the US probe was placed to visualize the implanted markers in each organ. The real and model probes were automatically removed and returned to the same position (i.e. position control), and CT images were acquired with each probe placement. The model probe was also removed and returned with the same normal force measured with the real US probe (i.e. force control). Marker positions in CT images were analyzed to determine reproducibility, and a corollary reproducibility study was performed on ex vivo tissue. In vivo results indicate that tissue deformations with the real probe were repeatable under position control for the prostate, liver, and pancreas, with median 3D reproducibility of 0.3 mm, 0.3 mm, and 1.6 mm, respectively, compared to 0.6 mm for the ex vivo tissue. For the prostate, the mean 3D tissue displacement errors between the real and model probes were 0.2 mm under position control and 0.6 mm under force control, which are both within acceptable

  9. Cherokee Culture and School Achievement.

    ERIC Educational Resources Information Center

    Brown, Anthony D.

    1980-01-01

    Compares the effect of cooperative and competitive behaviors of Cherokee and Anglo American elementary school students on academic achievement. Suggests changes in teaching techniques and lesson organization that might raise academic achievement while taking into consideration tribal traditions that limit scholastic achievement in an…

  10. 46 CFR 56.80-10 - Forming (reproduces 129.2).

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 46 Shipping 2 2010-10-01 2010-10-01 false Forming (reproduces 129.2). 56.80-10 Section 56.80-10 Shipping COAST GUARD, DEPARTMENT OF HOMELAND SECURITY (CONTINUED) MARINE ENGINEERING PIPING SYSTEMS AND APPURTENANCES Bending and Forming § 56.80-10 Forming (reproduces 129.2). (a) Piping components may be...

  11. 46 CFR 56.80-10 - Forming (reproduces 129.2).

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 46 Shipping 2 2011-10-01 2011-10-01 false Forming (reproduces 129.2). 56.80-10 Section 56.80-10 Shipping COAST GUARD, DEPARTMENT OF HOMELAND SECURITY (CONTINUED) MARINE ENGINEERING PIPING SYSTEMS AND APPURTENANCES Bending and Forming § 56.80-10 Forming (reproduces 129.2). (a) Piping components may be...

  12. Reproducibility of the School-Based Nutrition Monitoring Questionnaire among Fourth-Grade Students in Texas

    ERIC Educational Resources Information Center

    Penkilo, Monica; George, Goldy Chacko; Hoelscher, Deanna M.

    2008-01-01

    Objective: To assess reproducibility of a School-Based Nutrition Monitoring (SBNM) questionnaire for fourth-grade students. Design: Test-retest. Setting: Fourth-grade elementary school classrooms. Participants: Multiethnic fourth-grade students from 2 area school districts (N = 322). Main Outcome Measures: Reproducibility coefficients with time…

  13. 46 CFR 56.97-38 - Initial service leak test (reproduces 137.7).

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 46 Shipping 2 2011-10-01 2011-10-01 false Initial service leak test (reproduces 137.7). 56.97-38... PIPING SYSTEMS AND APPURTENANCES Pressure Tests § 56.97-38 Initial service leak test (reproduces 137.7). (a) An initial service leak test and inspection is acceptable when other types of test are...

  14. 46 CFR 56.97-38 - Initial service leak test (reproduces 137.7).

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 46 Shipping 2 2012-10-01 2012-10-01 false Initial service leak test (reproduces 137.7). 56.97-38... PIPING SYSTEMS AND APPURTENANCES Pressure Tests § 56.97-38 Initial service leak test (reproduces 137.7). (a) An initial service leak test and inspection is acceptable when other types of test are...

  15. 46 CFR 56.97-38 - Initial service leak test (reproduces 137.7).

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 46 Shipping 2 2013-10-01 2013-10-01 false Initial service leak test (reproduces 137.7). 56.97-38... PIPING SYSTEMS AND APPURTENANCES Pressure Tests § 56.97-38 Initial service leak test (reproduces 137.7). (a) An initial service leak test and inspection is acceptable when other types of test are...

  16. 46 CFR 56.97-38 - Initial service leak test (reproduces 137.7).

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 46 Shipping 2 2014-10-01 2014-10-01 false Initial service leak test (reproduces 137.7). 56.97-38... PIPING SYSTEMS AND APPURTENANCES Pressure Tests § 56.97-38 Initial service leak test (reproduces 137.7). (a) An initial service leak test and inspection is acceptable when other types of test are...

  17. 46 CFR 56.97-38 - Initial service leak test (reproduces 137.7).

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 46 Shipping 2 2010-10-01 2010-10-01 false Initial service leak test (reproduces 137.7). 56.97-38... PIPING SYSTEMS AND APPURTENANCES Pressure Tests § 56.97-38 Initial service leak test (reproduces 137.7). (a) An initial service leak test and inspection is acceptable when other types of test are...

  18. Reproducible, high performance patch antenna array apparatus and method of fabrication

    SciTech Connect

    Strassner, II, Bernd H.

    2007-01-23

    A reproducible, high-performance patch antenna array apparatus includes a patch antenna array provided on a unitary dielectric substrate, and a feed network provided on the same unitary substrate and proximity coupled to the patch antenna array. The reproducibility is enhanced by using photolithographic patterning and etching to produce both the patch antenna array and the feed network.

  19. Implementing reproducible research using the Madagascar open-source software package

    NASA Astrophysics Data System (ADS)

    Fomel, S.

    2015-12-01

    Reproducible research is a concept pioneered by Jon Claerbout. It refers to the discipline of attaching software code and data to scientific publications, which enables the reader to reproduce, verify, and extend published computational experiments. The Madagascar open-source software package provides an example of implementing the reproducible research discipline in geophysical publications. The package contains not only software tools for making geophysical computations but also research papers complete with links to data and reproducible data-analysis workflows. When researchers discover a research paper published on the Madagascar website and install Madagascar, they are able to follow the links and replicate all computations to verify the published computational results. Of course, reproducibility is not the goal in itself. The goal is to be able to extend previously published research by, for example, trying new computations on previously used data or previously used computations on new data. The Madagscar collection currently contains about 150 research papers and book chapters and about 900 reproducible scripts. More than 80 people from different organizations around the world have contributed to the development. This experience shows that, instead of being the responsibility of an individual author, computational reproducibility can become the responsibility of open-source scientific-software communities. Our experience shows how a dedicated community effort can keep a body of computational research alive by actively maintaining its reproducibility.

  20. 46 CFR 56.80-10 - Forming (reproduces 129.2).

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 46 Shipping 2 2012-10-01 2012-10-01 false Forming (reproduces 129.2). 56.80-10 Section 56.80-10 Shipping COAST GUARD, DEPARTMENT OF HOMELAND SECURITY (CONTINUED) MARINE ENGINEERING PIPING SYSTEMS AND APPURTENANCES Bending and Forming § 56.80-10 Forming (reproduces 129.2). (a) Piping components may be formed (swaging, lapping, or upsetting of...

  1. 46 CFR 56.80-10 - Forming (reproduces 129.2).

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 46 Shipping 2 2013-10-01 2013-10-01 false Forming (reproduces 129.2). 56.80-10 Section 56.80-10 Shipping COAST GUARD, DEPARTMENT OF HOMELAND SECURITY (CONTINUED) MARINE ENGINEERING PIPING SYSTEMS AND APPURTENANCES Bending and Forming § 56.80-10 Forming (reproduces 129.2). (a) Piping components may be formed (swaging, lapping, or upsetting of...

  2. Development of a fluorescence based flux sensor for thin film growth and nanoparticle deposition

    NASA Astrophysics Data System (ADS)

    De Roo, Bert; Vervaele, Mattias; Rajala, Markku; Miller, Toni; Guillon, Herve; Seo, Jin Won; Locquet, Jean-Pierre

    2016-07-01

    An optical flux sensor, based on the fluorescence properties of materials and nanoparticles, has been developed to control the deposition rate in thin film deposition systems. Using a simple diode laser and a photomultiplier tube with a light filter, we report the detection of gallium atoms and CdSe-ZnS quantum dots. This setup has a high sensitivity and reproducibility.

  3. Development of a fluorescence based flux sensor for thin film growth and nanoparticle deposition.

    PubMed

    De Roo, Bert; Vervaele, Mattias; Rajala, Markku; Miller, Toni; Guillon, Herve; Seo, Jin Won; Locquet, Jean-Pierre

    2016-07-01

    An optical flux sensor, based on the fluorescence properties of materials and nanoparticles, has been developed to control the deposition rate in thin film deposition systems. Using a simple diode laser and a photomultiplier tube with a light filter, we report the detection of gallium atoms and CdSe-ZnS quantum dots. This setup has a high sensitivity and reproducibility. PMID:27475600

  4. Effects of ground corn particle size on ethanol yield and thin stillage soluble solids

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The effects of ground corn particle size on ethanol yield and soluble solids in thin stillage were evaluated using a 2-L laboratory dry-grind procedure. The procedure was optimized for grinding, liquefaction, saccharification, and fermentation parameters. The optimized procedure was reproducible wi...

  5. Gold nanoparticles supported in zirconia-ceria mesoporous thin films: a highly active reusable heterogeneous nanocatalyst.

    PubMed

    Violi, Ianina L; Zelcer, Andrés; Bruno, Mariano M; Luca, Vittorio; Soler-Illia, Galo J A A

    2015-01-21

    Gold nanoparticles (NP) trapped in the mesopores of mixed zirconia-ceria thin films are prepared in a straightforward and reproducible way. The films exhibit enhanced stability and excellent catalytic activity in nitro-group reduction by borohydride and electrocatalytic activity in CO and ethanol oxidation and oxygen reduction.

  6. Students’ Achievement Goals, Learning-Related Emotions and Academic Achievement

    PubMed Central

    Lüftenegger, Marko; Klug, Julia; Harrer, Katharina; Langer, Marie; Spiel, Christiane; Schober, Barbara

    2016-01-01

    In the present research, the recently proposed 3 × 2 model of achievement goals is tested and associations with achievement emotions and their joint influence on academic achievement are investigated. The study was conducted with 388 students using the 3 × 2 Achievement Goal Questionnaire including the six proposed goal constructs (task-approach, task-avoidance, self-approach, self-avoidance, other-approach, other-avoidance) and the enjoyment and boredom scales from the Achievement Emotion Questionnaire. Exam grades were used as an indicator of academic achievement. Findings from CFAs provided strong support for the proposed structure of the 3 × 2 achievement goal model. Self-based goals, other-based goals and task-approach goals predicted enjoyment. Task-approach goals negatively predicted boredom. Task-approach and other-approach predicted achievement. The indirect effects of achievement goals through emotion variables on achievement were assessed using bias-corrected bootstrapping. No mediation effects were found. Implications for educational practice are discussed. PMID:27199836

  7. Lithospheric and crustal thinning

    NASA Technical Reports Server (NTRS)

    Moretti, I.

    1985-01-01

    In rift zones, both the crust and the lithosphere get thinner. The amplitude and the mechanism of these two thinning situations are different. The lithospheric thinning is a thermal phenomenon produced by an asthenospherical uprising under the rift zone. In some regions its amplitude can exceed 200%. This is observed under the Baikal rift where the crust is directly underlaid by the mantellic asthenosphere. The presence of hot material under rift zones induces a large negative gravity anomaly. A low seismic velocity zone linked to this thermal anomaly is also observed. During the rifting, the magmatic chambers get progressively closer from the ground surface. Simultaneously, the Moho reflector is found at shallow depth under rift zones. This crustal thinning does not exceed 50%. Tectonic stresses and vertical movements result from the two competing effects of the lithospheric and crustal thinning. On the one hand, the deep thermal anomaly induces a large doming and is associated with extensive deviatoric stresses. On the other hand, the crustal thinning involves the formation of a central valley. This subsidence is increased by the sediment loading. The purpose here is to quantify these two phenomena in order to explain the morphological and thermal evolution of rift zones.

  8. Germanium Lift-Off Masks for Thin Metal Film Patterning

    NASA Technical Reports Server (NTRS)

    Brown, Ari

    2012-01-01

    A technique has been developed for patterning thin metallic films that are, in turn, used to fabricate microelectronics circuitry and thin-film sensors. The technique uses germanium thin films as lift-off masks. This requires development of a technique to strip or undercut the germanium chemically without affecting the deposited metal. Unlike in the case of conventional polymeric lift-off masks, the substrate can be exposed to very high temperatures during processing (sputter deposition). The reason why polymeric liftoff masks cannot be exposed to very high temperatures (greater than 100 C) is because (a) they can become cross linked, making lift-off very difficult if not impossible, and (b) they can outgas nitrogen and oxygen, which then can react with the metal being deposited. Consequently, this innovation is expected to find use in the fabrication of transition edge sensors and microwave kinetic inductance detectors, which use thin superconducting films deposited at high temperature as their sensing elements. Transition edge sensors, microwave kinetic inductance detectors, and their circuitry are comprised of superconducting thin films, for example Nb and TiN. Reactive ion etching can be used to pattern these films; however, reactive ion etching also damages the underlying substrate, which is unwanted in many instances. Polymeric lift-off techniques permit thin-film patterning without any substrate damage, but they are difficult to remove and the polymer can outgas during thin-film deposition. The outgassed material can then react with the film with the consequence of altered and non-reproducible materials properties, which, in turn, is deleterious for sensors and their circuitry. The purpose of this innovation was to fabricate a germanium lift-off mask to be used for patterning thin metal films.

  9. Influence of polarity on the scalability and reproducibility of solvent-free microwave-assisted reactions.

    PubMed

    Díaz-Ortiz, Angel; de la Hoz, Antonio; Alcázar, Jesús; Carrillo, José R; Herrero, María A; Fontana, Alberto; Muñoz, Juan de M; Prieto, Pilar; de Cózar, Abel

    2011-02-01

    Organic reactions performed in the absence of solvent in domestic ovens without appropriate temperature control are generally considered as not reproducible, particularly when different instruments are used. For this reason, reproducibility has historically been one of the major issues associated with Microwave-Assisted Organic Synthesis (MAOS) especially when domestic ovens are involved. The lack of reproducibility limits the general applicability and the scale up of these reactions. In this work several solvent-free reactions previously carried out in domestic ovens have been translated into a single-mode microwave reactor and then scaled up in a multimode oven. The results show that most of these reactions, although not considered as reproducible, can be easily updated and applied in microwave reactors using temperature-controlled conditions. Furthermore, computational calculations can assist to explain and/or predict whether a reaction will be reproducible or not. PMID:21143180

  10. Advancements in RNASeqGUI towards a Reproducible Analysis of RNA-Seq Experiments.

    PubMed

    Russo, Francesco; Righelli, Dario; Angelini, Claudia

    2016-01-01

    We present the advancements and novelties recently introduced in RNASeqGUI, a graphical user interface that helps biologists to handle and analyse large data collected in RNA-Seq experiments. This work focuses on the concept of reproducible research and shows how it has been incorporated in RNASeqGUI to provide reproducible (computational) results. The novel version of RNASeqGUI combines graphical interfaces with tools for reproducible research, such as literate statistical programming, human readable report, parallel executions, caching, and interactive and web-explorable tables of results. These features allow the user to analyse big datasets in a fast, efficient, and reproducible way. Moreover, this paper represents a proof of concept, showing a simple way to develop computational tools for Life Science in the spirit of reproducible research. PMID:26977414

  11. Advancements in RNASeqGUI towards a Reproducible Analysis of RNA-Seq Experiments

    PubMed Central

    Russo, Francesco; Righelli, Dario

    2016-01-01

    We present the advancements and novelties recently introduced in RNASeqGUI, a graphical user interface that helps biologists to handle and analyse large data collected in RNA-Seq experiments. This work focuses on the concept of reproducible research and shows how it has been incorporated in RNASeqGUI to provide reproducible (computational) results. The novel version of RNASeqGUI combines graphical interfaces with tools for reproducible research, such as literate statistical programming, human readable report, parallel executions, caching, and interactive and web-explorable tables of results. These features allow the user to analyse big datasets in a fast, efficient, and reproducible way. Moreover, this paper represents a proof of concept, showing a simple way to develop computational tools for Life Science in the spirit of reproducible research. PMID:26977414

  12. Influence of polarity on the scalability and reproducibility of solvent-free microwave-assisted reactions.

    PubMed

    Díaz-Ortiz, Angel; de la Hoz, Antonio; Alcázar, Jesús; Carrillo, José R; Herrero, María A; Fontana, Alberto; Muñoz, Juan de M; Prieto, Pilar; de Cózar, Abel

    2011-02-01

    Organic reactions performed in the absence of solvent in domestic ovens without appropriate temperature control are generally considered as not reproducible, particularly when different instruments are used. For this reason, reproducibility has historically been one of the major issues associated with Microwave-Assisted Organic Synthesis (MAOS) especially when domestic ovens are involved. The lack of reproducibility limits the general applicability and the scale up of these reactions. In this work several solvent-free reactions previously carried out in domestic ovens have been translated into a single-mode microwave reactor and then scaled up in a multimode oven. The results show that most of these reactions, although not considered as reproducible, can be easily updated and applied in microwave reactors using temperature-controlled conditions. Furthermore, computational calculations can assist to explain and/or predict whether a reaction will be reproducible or not.

  13. Thin film photovoltaics

    SciTech Connect

    Zweibel, K; Ullal, H S

    1989-05-01

    Thin films are considered a potentially attractive technological approach to making cost-effective electricity by photovoltaics. Over the last twenty years, many have been investigated and some (cadmium telluride, copper indium diselenide, amorphous silicon) have become leading candidates for future large-scale commercialization. This paper surveys the past development of these key thin films and gives their status and future prospects. In all cases, significant progress toward cost-effective PV electricity has been made. If this progress continues, it appears that thin film PV could provide electricity that is competitive for summer daytime peaking power requirements by the middle of the 1990s; and electricity in a range that is competitive with fossil fuel costs (i.e., 6 cents/kilowatt-hour) should be available from PV around the turn of the century. 22 refs., 9 figs.

  14. Thin film temperature sensor

    NASA Technical Reports Server (NTRS)

    Grant, H. P.; Przybyszewski, J. S.

    1980-01-01

    Thin film surface temperature sensors were developed. The sensors were made of platinum-platinum/10 percent rhodium thermocouples with associated thin film-to-lead wire connections and sputtered on aluminum oxide coated simulated turbine blades for testing. Tests included exposure to vibration, low velocity hydrocarbon hot gas flow to 1250 K, and furnace calibrations. Thermal electromotive force was typically two percent below standard type S thermocouples. Mean time to failure was 42 hours at a hot gas flow temperature of 1250 K and an average of 15 cycles to room temperature. Failures were mainly due to separation of the platinum thin film from the aluminum oxide surface. Several techniques to improve the adhesion of the platinum are discussed.

  15. Mesoscopic simulation of a thinning liquid bridge using the dissipative particle dynamics method.

    PubMed

    Mo, Chao-jie; Yang, Li-jun; Zhao, Fei; Cui, Kun-da

    2015-08-01

    In this research, the dissipative particle dynamics method was used to investigate the problem of thinning and breakup in a liquid bridge. It was found that both the inertial-force-dominated thinning process and the thermal-fluctuation-dominated thinning process can be reproduced with the dissipative particle dynamics (DPD) method by varying the simulation parameters. A highly suspect viscous thinning regime was also found, but the conclusion is not irrefutable because of the complication of the shear viscosity of DPD fluid. We show in this article that the DPD method can serve as a good candidate to elucidate crossover problem in liquid bridge thinning from being hydrodynamics dominated to being thermal fluctuation dominated. PMID:26382504

  16. Mesoscopic simulation of a thinning liquid bridge using the dissipative particle dynamics method

    NASA Astrophysics Data System (ADS)

    Mo, Chao-jie; Yang, Li-jun; Zhao, Fei; Cui, Kun-da

    2015-08-01

    In this research, the dissipative particle dynamics method was used to investigate the problem of thinning and breakup in a liquid bridge. It was found that both the inertial-force-dominated thinning process and the thermal-fluctuation-dominated thinning process can be reproduced with the dissipative particle dynamics (DPD) method by varying the simulation parameters. A highly suspect viscous thinning regime was also found, but the conclusion is not irrefutable because of the complication of the shear viscosity of DPD fluid. We show in this article that the DPD method can serve as a good candidate to elucidate crossover problem in liquid bridge thinning from being hydrodynamics dominated to being thermal fluctuation dominated.

  17. Achievement as Resistance: The Development of a Critical Race Achievement Ideology among Black Achievers

    ERIC Educational Resources Information Center

    Carter, Dorinda J.

    2008-01-01

    In this article, Dorinda Carter examines the embodiment of a critical race achievement ideology in high-achieving black students. She conducted a yearlong qualitative investigation of the adaptive behaviors that nine high-achieving black students developed and employed to navigate the process of schooling at an upper-class, predominantly white,…

  18. Thin film ceramic thermocouples

    NASA Technical Reports Server (NTRS)

    Gregory, Otto (Inventor); Fralick, Gustave (Inventor); Wrbanek, John (Inventor); You, Tao (Inventor)

    2011-01-01

    A thin film ceramic thermocouple (10) having two ceramic thermocouple (12, 14) that are in contact with each other in at least on point to form a junction, and wherein each element was prepared in a different oxygen/nitrogen/argon plasma. Since each element is prepared under different plasma conditions, they have different electrical conductivity and different charge carrier concentration. The thin film thermocouple (10) can be transparent. A versatile ceramic sensor system having an RTD heat flux sensor can be combined with a thermocouple and a strain sensor to yield a multifunctional ceramic sensor array. The transparent ceramic temperature sensor that could ultimately be used for calibration of optical sensors.

  19. Thin film photovoltaic device

    DOEpatents

    Catalano, Anthony W.; Bhushan, Manjul

    1982-01-01

    A thin film photovoltaic solar cell which utilizes a zinc phosphide semiconductor is of the homojunction type comprising an n-type conductivity region forming an electrical junction with a p-type region, both regions consisting essentially of the same semiconductor material. The n-type region is formed by treating zinc phosphide with an extrinsic dopant such as magnesium. The semiconductor is formed on a multilayer substrate which acts as an opaque contact. Various transparent contacts may be used, including a thin metal film of the same chemical composition as the n-type dopant or conductive oxides or metal grids.

  20. Shear Thinning in Xenon

    NASA Technical Reports Server (NTRS)

    Bergm Robert F.; Moldover, Michael R.; Yao, Minwu; Zimmerli, Gregory A.

    2009-01-01

    We measured shear thinning, a viscosity decrease ordinarily associated with complex liquids such as molten plastics or ketchup, near the critical point of xenon. The data span a wide range of dimensionless shear rate: the product of the shear rate and the relaxation time of critical fluctuations was greater than 0.001 and was less than 700. As predicted by theory, shear thinning occurred when this product was greater than 1. The measurements were conducted aboard the Space Shuttle Columbia to avoid the density stratification caused by Earth's gravity.

  1. Highly Conducting Transparent Indium-Doped Zinc Oxide Thin Films

    NASA Astrophysics Data System (ADS)

    Singh, Budhi; Ghosh, Subhasis

    2014-09-01

    Highly conducting transparent indium-doped zinc oxide (IZO) thin films have been achieved by controlling different growth parameters using radio frequency magnetron sputtering. The structural, electrical, and optical properties of the IZO thin films have been investigated for varied indium content and growth temperature ( T G) in order to find out the optimum level of doping to achieve the highest conducting transparent IZO thin films. The highest mobility and carrier concentration of 11.5 cm2/V-s and 3.26 × 1020 cm-3, respectively, have been achieved in IZO doped with 2% indium. It has been shown that as T G of the 2% IZO thin films increase, more and more indium atoms are substituted into Zn sites leading to shift in (002) peaks towards higher angles which correspond to releasing the stress within the IZO thin film. The minimum resistivity of 5.3 × 10-4 Ω-cm has been achieved in 2% indium-doped IZO grown at 700°C.

  2. Thin-film optical initiator

    DOEpatents

    Erickson, Kenneth L.

    2001-01-01

    A thin-film optical initiator having an inert, transparent substrate, a reactive thin film, which can be either an explosive or a pyrotechnic, and a reflective thin film. The resultant thin-film optical initiator system also comprises a fiber-optic cable connected to a low-energy laser source, an output charge, and an initiator housing. The reactive thin film, which may contain very thin embedded layers or be a co-deposit of a light-absorbing material such as carbon, absorbs the incident laser light, is volumetrically heated, and explodes against the output charge, imparting about 5 to 20 times more energy than in the incident laser pulse.

  3. Development of a protocol to quantify local bone adaptation over space and time: Quantification of reproducibility.

    PubMed

    Lu, Yongtao; Boudiffa, Maya; Dall'Ara, Enrico; Bellantuono, Ilaria; Viceconti, Marco

    2016-07-01

    In vivo micro-computed tomography (µCT) scanning of small rodents is a powerful method for longitudinal monitoring of bone adaptation. However, the life-time bone growth in small rodents makes it a challenge to quantify local bone adaptation. Therefore, the aim of this study was to develop a protocol, which can take into account large bone growth, to quantify local bone adaptations over space and time. The entire right tibiae of eight 14-week-old C57BL/6J female mice were consecutively scanned four times in an in vivo µCT scanner using a nominal isotropic image voxel size of 10.4µm. The repeated scan image datasets were aligned to the corresponding baseline (first) scan image dataset using rigid registration. 80% of tibia length (starting from the endpoint of the proximal growth plate) was selected as the volume of interest and partitioned into 40 regions along the tibial long axis (10 divisions) and in the cross-section (4 sectors). The bone mineral content (BMC) was used to quantify bone adaptation and was calculated in each region. All local BMCs have precision errors (PE%CV) of less than 3.5% (24 out of 40 regions have PE%CV of less than 2%), least significant changes (LSCs) of less than 3.8%, and 38 out of 40 regions have intraclass correlation coefficients (ICCs) of over 0.8. The proposed protocol allows to quantify local bone adaptations over an entire tibia in longitudinal studies, with a high reproducibility, an essential requirement to reduce the number of animals to achieve the necessary statistical power.

  4. On the validity of 3D polymer gel dosimetry: I. Reproducibility study

    NASA Astrophysics Data System (ADS)

    Vandecasteele, Jan; De Deene, Yves

    2013-01-01

    The intra- and inter-batch accuracy and precision of MRI (polyacrylamide gelatin gel fabricated at atmospheric conditions) polymer gel dosimeters are assessed in full 3D. In the intra-batch study, eight spherical flasks were filled with the same polymer gel along with a set of test tubes that served as calibration phantoms. In the inter-batch study, the eight spherical flasks were filled with different batches of gel. For each spherical phantom, a separate set of calibration phantoms was used. The spherical phantoms were irradiated using a three-field coplanar beam configuration in a very reproducible manner. The calibration phantoms were irradiated to known doses to obtain a dose-R2 calibration plot which was applied on the corresponding R2 maps of all spherical phantoms on an individual basis. The intra-batch study showed high dosimetric precision (3.1%) notwithstanding poor accuracy (mean dose discrepancies up to 13.0%). In the inter-batch study, a similar dosimetric precision (4.3%) and accuracy (mean dose discrepancies up to 13.7%) were found. The poor dosimetric accuracy was attributed to a systematic fault that was related to the calibration method. Therefore, the dose maps were renormalized using an independent ion chamber dose measurement. It is illustrated that with this renormalization, excellent agreement between the gel measured and TPS calculated 3D dose maps is achievable: 97% and 99% of the pixels meet the 3%/3 mm criteria for the intra- and inter-batch experiments, respectively. However renormalization will result in significant dose deviations inside a realistically sized anthropomorphic phantom as will be shown in a concurrent paper. Both authors contributed equally to this study.

  5. Social and ethical determinants of human sexuality: 1. The need to reproduce.

    PubMed

    Benagiano, G; Carrara, S; Filippi, V

    2010-08-01

    Aims of this study was to review the many and diverse factors conditioning human sexual behavior; starting with the first and still most important: the need to reproduce and to analyse these factors and how they have changed over time in order to better understand the interplay between the major determinants of human sexuality. For this aim the authors made a literature review of relevant scientific papers and books, including religious websites. At the dawn of humanity, sexuality was focused on reproduction; this, however, did not exclude other important meanings in sexual relationships, since non-conceptive copulations have been a constant aspect of human behavior, becoming an almost unique feature of genus homo. In this respect, the characteristics of a female continuously accessible to her male set the stage for a trend towards monogamy and created the substrate for closed families. Anthropologists have justified conceptive sexuality because sexual activity is costly in terms of energy consumption; for this reason, in the early days, restricting sexual activity made sense for the survival of the species. Traditional ethical considerations and ancient norms by the three major monotheistic religions have favored conceptive sexuality, restricting sexual activity to sanctioned unions and insisting that the major scope of sexuality is procreation. In spite of this, among humans sexuality has always had a wider meaning to the point that for millennia, humans have tried to separate its unitive and procreative meanings. Today much has changed since reproduction can be achieved without intercourse, further separating it from sexual activity. In humans sexuality always possessed multiple meanings, first and foremost reproduction and the creation of a bond between a man and one or several women.

  6. Repeatability and reproducibility of individual abutment impression, assessed with a blue light scanner

    PubMed Central

    Kim, Dong-Yeon; Lee, Jae-Jun; Kim, Ji-Hwan

    2016-01-01

    PURPOSE We assessed the repeatability and reproducibility of abutment teeth dental impressions, digitized with a blue light scanner, by comparing the discrepancies in repeatability and reproducibility values for different types of abutment teeth. MATERIALS AND METHODS To evaluate repeatability, impressions of the canine, first premolar, and first molar, prepared for ceramic crowns, were repeatedly scanned to acquire 5 sets of 3-dimensional data via stereolithography (STL) files. Point clouds were compared and the error sizes were measured (n=10, per type). To evaluate reproducibility, the impressions were rotated by 10-20° on the table and scanned. These data were compared to the first STL data and the error sizes were measured (n=5, per type). One-way analysis of variance was used to assess the repeatability and reproducibility of the 3 types of teeth, and Tukey honest significant differences (HSD) multiple comparison test was used for post hoc comparisons (α=.05). RESULTS The differences with regard to repeatability were 4.5, 2.7, and 3.1 µm for the canine, premolar, and molar, indicating the poorest repeatability for the canine (P<.001). For reproducibility, the differences were 6.6, 5.8, and 11.0 µm indicating the poorest reproducibility for the molar (P=.007). CONCLUSION Our results indicated that impressions of individual abutment teeth, digitized with a blue light scanner, had good repeatability and reproducibility. PMID:27350856

  7. The Mechanics of Human Achievement

    PubMed Central

    Duckworth, Angela L.; Eichstaedt, Johannes C.; Ungar, Lyle H.

    2015-01-01

    Countless studies have addressed why some individuals achieve more than others. Nevertheless, the psychology of achievement lacks a unifying conceptual framework for synthesizing these empirical insights. We propose organizing achievement-related traits by two possible mechanisms of action: Traits that determine the rate at which an individual learns a skill are talent variables and can be distinguished conceptually from traits that determine the effort an individual puts forth. This approach takes inspiration from Newtonian mechanics: achievement is akin to distance traveled, effort to time, skill to speed, and talent to acceleration. A novel prediction from this model is that individual differences in effort (but not talent) influence achievement (but not skill) more substantially over longer (rather than shorter) time intervals. Conceptualizing skill as the multiplicative product of talent and effort, and achievement as the multiplicative product of skill and effort, advances similar, but less formal, propositions by several important earlier thinkers. PMID:26236393

  8. Mathematics Achievement in High- and Low-Achieving Secondary Schools

    ERIC Educational Resources Information Center

    Mohammadpour, Ebrahim; Shekarchizadeh, Ahmadreza

    2015-01-01

    This paper identifies the amount of variance in mathematics achievement in high- and low-achieving schools that can be explained by school-level factors, while controlling for student-level factors. The data were obtained from 2679 Iranian eighth graders who participated in the 2007 Trends in International Mathematics and Science Study. Of the…

  9. US polycrystalline thin film solar cells program

    SciTech Connect

    Ullal, H S; Zweibel, K; Mitchell, R L

    1989-11-01

    The Polycrystalline Thin Film Solar Cells Program, part of the United States National Photovoltaic Program, performs R D on copper indium diselenide and cadmium telluride thin films. The objective of the Program is to support research to develop cells and modules that meet the US Department of Energy's long-term goals by achieving high efficiencies (15%-20%), low-cost ($50/m{sup 2}), and long-time reliability (30 years). The importance of work in this area is due to the fact that the polycrystalline thin-film CuInSe{sub 2} and CdTe solar cells and modules have made rapid advances. They have become the leading thin films for PV in terms of efficiency and stability. The US Department of Energy has increased its funding through an initiative through the Solar Energy Research Institute in CuInSe{sub 2} and CdTe with subcontracts to start in Spring 1990. 23 refs., 5 figs.

  10. Reproducibility of the Structural Brain Connectome Derived from Diffusion Tensor Imaging

    PubMed Central

    Bonilha, Leonardo; Gleichgerrcht, Ezequiel; Fridriksson, Julius; Rorden, Chris; Breedlove, Jesse L.; Nesland, Travis; Paulus, Walter; Helms, Gunther; Focke, Niels K.

    2015-01-01

    Rationale Disruptions of brain anatomical connectivity are believed to play a central role in several neurological and psychiatric illnesses. The structural brain connectome is typically derived from diffusion tensor imaging (DTI), which may be influenced by methodological factors related to signal processing, MRI scanners and biophysical properties of neuroanatomical regions. In this study, we evaluated how these variables affect the reproducibility of the structural connectome. Methods Twenty healthy adults underwent 3 MRI scanning sessions (twice in the same MRI scanner and a third time in a different scanner unit) within a short period of time. The scanning sessions included similar T1 weighted and DTI sequences. Deterministic or probabilistic tractography was performed to assess link weight based on the number of fibers connecting gray matter regions of interest (ROI). Link weight and graph theory network measures were calculated and reproducibility was assessed through intra-class correlation coefficients, assuming each scanning session as a rater. Results Connectome reproducibility was higher with data from the same scanner. The probabilistic approach yielded larger reproducibility, while the individual variation in the number of tracked fibers from deterministic tractography was negatively associated with reproducibility. Links connecting larger and anatomically closer ROIs demonstrated higher reproducibility. In general, graph theory measures demonstrated high reproducibility across scanning sessions. Discussion Anatomical factors and tractography approaches can influence the reproducibility of the structural connectome and should be factored in the interpretation of future studies. Our results demonstrate that connectome mapping is a largely reproducible technique, particularly as it relates to the geometry of network architecture measured by graph theory methods. PMID:26332788

  11. Attribution theory in science achievement

    NASA Astrophysics Data System (ADS)

    Craig, Martin

    Recent research reveals consistent lags in American students' science achievement scores. Not only are the scores lower in the United States compared to other developed nations, but even within the United States, too many students are well below science proficiency scores for their grade levels. The current research addresses this problem by examining potential malleable factors that may predict science achievement in twelfth graders using 2009 data from the National Assessment of Educational Progress (NAEP). Principle component factor analysis was conducted to determine the specific items that contribute to each overall factor. A series of multiple regressions were then analyzed and formed the predictive value of each of these factors for science achievement. All significant factors were ultimately examined together (also using multiple regression) to determine the most powerful predictors of science achievement, identifying factors that predict science achievement, the results of which suggested interventions to strengthen students' science achievement scores and encourage persistence in the sciences at the college level and beyond. Although there is a variety of research highlighting how students in the US are falling behind other developing nations in science and math achievement, as yet, little research has addressed ways of intervening to address this gap. The current research is a starting point, seeking to identify malleable factors that contribute to science achievement. More specifically, this research examined the types of attributions that predict science achievement in twelfth grade students.

  12. Method for reproducibly preparing a low-melting high-carbon yield precursor

    DOEpatents

    Smith, Wesley E.; Napier, Jr., Bradley

    1978-01-01

    The present invention is directed to a method for preparing a reproducible synthetic carbon precursor by the autoclave polymerization of indene (C.sub.9 H.sub.8) at a temperature in the range of 470.degree.-485.degree. C, and at a pressure in the range of about 1000 to about 4300 psi. Volatiles in the resulting liquid indene polymer are removed by vacuum outgassing to form a solid carbon precursor characterized by having a relatively low melting temperature, high-carbon yield, and high reproducibility which provide for the fabrication of carbon and graphite composites having strict requirements for reproducible properties.

  13. Single nanowire on graphene (SNOG) as an efficient, reproducible, and stable SERS-active platform

    NASA Astrophysics Data System (ADS)

    Kim, Hongki; Seol, Myeong-Lok; Lee, Dong-Il; Lee, Jiyoung; Kang, Il-Suk; Lee, Hyoban; Kang, Taejoon; Choi, Yang-Kyu; Kim, Bongsoo

    2016-04-01

    Developing a well-defined nanostructure that can provide strong, reproducible, and stable SERS signals is quite important for the practical application of surface-enhanced Raman scattering (SERS) sensors. We report here a novel single nanowire (NW) on graphene (SNOG) structure as an efficient, reproducible, and stable SERS-active platform. Au NWs having a well-defined single-crystal geometry on a monolayer graphene-coated metal film can form a well-defined, continuous nanogap structure that provides extremely reproducible and stable SERS signals. The in-NW reproducibility was verified by 2-dimensional Raman mapping, and the NW-to-NW reproducibility was verified by the cumulative curves of 32 SERS spectra. The simulation also indicated that a highly regular, line-shaped hot spot formed between the Au NW and graphene. Furthermore, SNOG platforms showed improved photostability and long-term oxidation immunity. We anticipate that SNOG platforms will be appropriate for practical biological and chemical sensor applications that demand reproducible, stable, and strong signal production.Developing a well-defined nanostructure that can provide strong, reproducible, and stable SERS signals is quite important for the practical application of surface-enhanced Raman scattering (SERS) sensors. We report here a novel single nanowire (NW) on graphene (SNOG) structure as an efficient, reproducible, and stable SERS-active platform. Au NWs having a well-defined single-crystal geometry on a monolayer graphene-coated metal film can form a well-defined, continuous nanogap structure that provides extremely reproducible and stable SERS signals. The in-NW reproducibility was verified by 2-dimensional Raman mapping, and the NW-to-NW reproducibility was verified by the cumulative curves of 32 SERS spectra. The simulation also indicated that a highly regular, line-shaped hot spot formed between the Au NW and graphene. Furthermore, SNOG platforms showed improved photostability and long

  14. Thin-film coatings

    NASA Technical Reports Server (NTRS)

    Buckley, D. H.

    1980-01-01

    Thin, adherent, high density films are discussed with respect to their application in two plasma physics techniques (ion plating and sputtering). The operation of each technique is described as well as what surfaces can be coated, and what kind of materials can be applied. The effects of these films on the mechanical properties of solid surfaces are also discussed.

  15. Thin Lens Ray Tracing.

    ERIC Educational Resources Information Center

    Gatland, Ian R.

    2002-01-01

    Proposes a ray tracing approach to thin lens analysis based on a vector form of Snell's law for paraxial rays as an alternative to the usual approach in introductory physics courses. The ray tracing approach accommodates skew rays and thus provides a complete analysis. (Author/KHR)

  16. Treading on Thin Water.

    ERIC Educational Resources Information Center

    Haley, Richard D.

    1985-01-01

    Provides a simple introduction to animals whose habitat is the thin surface film of water. Describes adaptive mechanisms of water striders, whirlygigs and riffle bugs and suggests ways to observe them in the wild or as aquarium animals. Includes basic demonstrations of the nature of surface tension. (JHZ)

  17. Thin film photovoltaic cell

    DOEpatents

    Meakin, John D.; Bragagnolo, Julio

    1982-01-01

    A thin film photovoltaic cell having a transparent electrical contact and an opaque electrical contact with a pair of semiconductors therebetween includes utilizing one of the electrical contacts as a substrate and wherein the inner surface thereof is modified by microroughening while being macro-planar.

  18. Epitaxial thin films

    DOEpatents

    Hunt, Andrew Tye; Deshpande, Girish; Lin, Wen-Yi; Jan, Tzyy-Jiuan

    2006-04-25

    Epitatial thin films for use as buffer layers for high temperature superconductors, electrolytes in solid oxide fuel cells (SOFC), gas separation membranes or dielectric material in electronic devices, are disclosed. By using CCVD, CACVD or any other suitable deposition process, epitaxial films having pore-free, ideal grain boundaries, and dense structure can be formed. Several different types of materials are disclosed for use as buffer layers in high temperature superconductors. In addition, the use of epitaxial thin films for electrolytes and electrode formation in SOFCs results in densification for pore-free and ideal gain boundary/interface microstructure. Gas separation membranes for the production of oxygen and hydrogen are also disclosed. These semipermeable membranes are formed by high-quality, dense, gas-tight, pinhole free sub-micro scale layers of mixed-conducting oxides on porous ceramic substrates. Epitaxial thin films as dielectric material in capacitors are also taught herein. Capacitors are utilized according to their capacitance values which are dependent on their physical structure and dielectric permittivity. The epitaxial thin films of the current invention form low-loss dielectric layers with extremely high permittivity. This high permittivity allows for the formation of capacitors that can have their capacitance adjusted by applying a DC bias between their electrodes.

  19. Thin Wall Iron Castings

    SciTech Connect

    J.F. Cuttino; D.M. Stefanescu; T.S. Piwonka

    2001-10-31

    Results of an investigation made to develop methods of making iron castings having wall thicknesses as small as 2.5 mm in green sand molds are presented. It was found that thin wall ductile and compacted graphite iron castings can be made and have properties consistent with heavier castings. Green sand molding variables that affect casting dimensions were also identified.

  20. Polymer-templated electrodeposition of Ag nanosheets assemblies array as reproducible surface-enhanced Raman scattering substrate.

    PubMed

    Liu, Sisi; Xu, Zhimou; Sun, Tangyou; Zhao, Wenning; Wu, Xinghui; Ma, Zhichao; Zhang, Xueming; He, Jian; Chen, Cunhua

    2014-06-01

    Position-configurable, reproducible, vertically aligned nanosheets assemblies (ANAs) arrays are fabricated by polymer-templated electrodeposition method at room temperature. Here, nanoimprint lithography is utilized to fabricate polymer template on the fluorine-doped tin oxide substrate for the purpose of evenly tuning the location of Ag nanostructures. Subsequently, vertically aligned ANAs can be achieved at the bottom of each hole via electrodeposition in a mixed aqueous solution of AgNO3 and citric acid. To obtain uniform ANAs array, we have systematically investigated the factors that influenced the electrodeposition. It was found that the formation of uniform ANAs arrays is strongly depended on the seeding layer, citric acid concentration, electrodeposition potential and time. The as-synthesized ANAs array exhibited a remarkable SERS activity and Raman signal reproducibility to rhodamine 6G, a concentration down to 10(-13) M can be identified. Our results revealed that the ANAs array is a highly desirable candidate as the reliable enhancer for high performance SERS analysis.